2EWFA

Crystal structure of the site-specific dna nickase n.bspd6i
Total Genus 238
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
238
sequence length
604
structure length
587
Chain Sequence
MAKKVNWYVSCSPRSPEKIQPELKVLANFEGSYWKGVKGYKAQEAFAKELAALPQFLGAFSTRDRVAPMKTYGFVFVDEEGYLRITEAGKMLANNRRPKDVFLKQLVKWQYPSFQHKGKEYPEEEWSINPLVFVLSLLKKVGGLSKLDIAMFCLTATNNNQVDEIAEEIMQFRNEREKIKGQNKKLEFTENYFFKRFEKIYGNVSHKSKIETKMRNARDVADATTRYFRYTGLFVARGNQLVLNPEKSDLIDEIISSSKVVKNYTRVEEFHEYYGNPSLPQFSFETKEQLLDLAHRIRDENTRLAEQLVEHFPNVKVEIQVLEDIYNSLNKKVDVETLKDVIYHAKELQLELKKKKLQADFNDPRQLEEVIDLLEVYHEKKNVIEEKIKARFIANKNTVFEWLTWNGFIILGNALEYKNNFVIDEELQPVTHAAGNQPDMEIIYEDFIVLGEVTTSKGATQFKMESEPVTRHYLNKKKELEKQGVEKELYCLFIAPEINKNTFEEFMKYNIVQNTRIIPLSLKQFNMLLMVQKKLIEKGRRLSSYDIKNLMVSLYRTTIECERKYTQIKAGLEETLNNWVVDKEVRF
Loading diagram...

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

molecule keywords Nicking endonuclease N.BspD6I
publication title Structural analysis of the heterodimeric type IIS restriction endonuclease R.BspD6I acting as a complex between a monomeric site-specific nickase and a catalytic subunit.
pubmed doi rcsb
source organism Bacillus sp.
molecule tags Hydrolase
total genus 238
structure length 587
sequence length 604
ec nomenclature
pdb deposition date 2005-11-03

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF09491 RE_AlwI AlwI restriction endonuclease
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1270.310 Mainly Alpha Up-down Bundle Substrate Binding Domain Of Dnak; Chain:A; Domain 2 Substrate Binding Domain Of Dnak; Chain:A; Domain 2 2ewfA02
3.40.91.50 Alpha Beta 3-Layer(aba) Sandwich Restriction Endonuclease Restriction Endonuclease 2ewfA03
2P14A 2EWFA
chains in the Genus database with same CATH superfamily
3BVXA 5FLEX 2F1AA 4R5GA 2FOKA 3RV0A 2MI7A 2YIVX 3CAEA 4H6IA 4I1QA 1LQ7A 1CFRA 3HW4A 1URUA 4EZSA 2YL5A 2XI5A 1I4DA 1YWMA 4IWQA 3ODHA 5JHTA 2FQZA 3ER9B 4E5IA 3SYVA 4KIKB 3M3WA 3CAZA 4H8SA 3QNIA 4G6QA 3DX4A 1D2IA 5DESA 3OHXM 3WVHA 3Q0KA 4R5JA 2YL8A 4HR1B 4CGSA 4UDXX 3DVOA 2OBMA 3HW5A 4M0MA 1HTYA 4AZBA 1BAMA 1ES8A 3T48A 4EZNA 2Q13A 4IM0A 2Z0OA 4WPCA 1GNLA 2Q12A 2F7OA 4ZHZA 1QWNA 3DX0A 4H6HA 2PMRA 5CL0A 2QKWA 1SUFA 4AZCB 3O3MB 2ELBA 2NCZA 3D50A 4AKVA 3D4YA 3L3OM 3BVVA 1M0DA 3DPPA 3VKHA 4R5KA 1I4LA 3BLBA 5I13A 3I2WA 3DW9A 3DX3A 4BNEA 1O7DB 4E81A 2ND0A 3T49A 1O7DC 2YLAA 3D2FA 1I49A 3BUPA 2PFJA 3T47A 2RAKA 1ZYLA 4HYBA 4EZYA 2F7QA 4AWMA 4AZHA 5C5BA 4AVMA 2EWFA 2F7RA 4CHCA 3FD9A 4DYLA 4JWDA 1SU7A 5CCYA 4FM3A 3N7BA 2P14A 2GB7A 2YI8A 3OK8A 4F00A 1OAOA 3ZEDA 2P0JA 4OC8A 5FDGA 2YIAA 2OW6A 4EZPA 3D52A 3KDRA 4JWCA 3VEBA 4F0PA 4HY9A 4AZIA 3KAVA 4KIKA 1R33A 3VEAA 5KBPA 5CGVA 4AWKA 2YIBA 4AZ5A 4EZRA 4EZTA 3QWEA 2Z8YA 2LXYA 1E9VA 4HR1A 4EZXA 1SDOA 3G9GA 3LVTA 5TKYA 3BVTA 2JNSA 3C7NA 2PY6A 1WDZA 3RV1A 5D42A 2C08A 2WYIA 1PS3A 4AZ6A 2YL6A 3LMFA 5E84A 3DDFA 5FIGA 3F7WA 3CZSA 2E52A 2Z0VA 3HAIA 4FZSA 4EZVA 1TQVA 5D9JA 4AZCA 4IWOA 4JWIA 4CGXA 3HAHA 3HW3A 2JNKA 3I04A 3D4ZA 4AWHA 4E5FA 3CKDA 3BVUA 3EBJA 4DCNC 3GI7A 3MQYA 4AWFA 3QNJA 2X3WA 2WINM 4JWEA 4WPEA 4ZQQA 2QFFA 2OZNB 4JL9A 3D2EA 4R28A 2X3XA 1W9MA 3V1ZA 3B52X 5CZNA 4JLCA 3HW6A 3DPOA 2GF4A 3ACOA 4AVGA 3BUQA 2EFLA 2KHOA 3DX1A 3V21A 2YLLA 4IW0A 4NQIA 1KNVA 2D4CA 2ALWA 4ZI0A 5DEBA 3V20A 1DKYA 4PO2A 5D4GA 3ER8C 3EJSA 1QX1A 1UPXA 3WVGA 3I39X 1M0IA 2X5CA 4B9QA 3DX2A 2YI9A 3I01A 4IWPA 2F7PA 1OA1A 1HXKA 3WVPA 5DBSA 2OW7A 2RT6A 1FZRA 5C5BB 3DPGA 1TQTA 4F0QA 1X03A 4E5HA 1OA0A 1FOKA 3QE6A 2OO2A 2GA9D 3MQ6A 1SU8A 5EGAA 3HAJA 3EJUA 1TQUA 1GN9A 3CZNA 4NPHA 1E2UA 1Y2OA 3UITA 1DFMA 3EJQA 2Z0NA 1HWWA 4F01A 1JQKA 3BM3A 3KAWA 2QXLA 2RAIA 1R5EA 3Q84A 3PLTA 4ATMA 4EZZA 4E5JA 3N78A 2RAJA 4R5IA 4AWGA 5D8UA 4JNFA 4JNEA 4E5GA 4IM3A 2OBLA 5JHVA 4FZOA 4FZPA 3EJRA 1VRRA 4AZGA 3T46A 3SOGA 1GNTA 3WVKA 2YKTA 3DYTA 2N3KA 3D51A 3EJTA 3B53X 4JN4A 2GAFD 2XI7A 3LLLA 1U00A 2ZXQA 3EJPA 2EFKA 3L3PA 3OWGA 4EZUA 1X04A 3RPMA 2ND1A 4YYLA 3O3OB 3WVIA 2O0I1 2BAMA 4EZOA 3ERCC 3DDGA 5D2OA 3DPQA 4D8JA 4AVLA 2YL9A 4IM2A 2EX3B 1R34A 3B51X 3BUIA 3A4KA 1DKXA 2V0OA 1QWUA 4R5LA 3O3NB 2F18A 1ZWWA 3BUDA 5FDDA 2WYHA 4UDYX 4AZ7A 1I4TA 1BHMA 2D1LA 3BUBA 3CV5A 1MJGA 4NSWA 3CVRA 1E1DA 2X3VA 3QA8A 3T4AG 1TQWA 1TQSA 2LM0A 3A98A 3BAMA 3BVWA 4EZQA 2FICA 1DKZA 4E3CA 1DC1A 4EZWA 4AVQA 1SU6A 4E5EA 2FYVA 4E5LA 4NFZA 3ABHA 1ESGA 2F1BA
chains in the Genus database with same CATH topology
5FLEX 3D2FA 4R5IA 4AWGA 5D8UA 4AWHA 4E5FA 4R5GA 4JNFA 4JNEA 2PFJA 3T47A 3EBJA 4E5GA 1ZYLA 4HYBA 3GI7A 4IM3A 2OBLA 4AWFA 4EZYA 3QNJA 5JHVA 3MQYA 4AWMA 2FOKA 3RV0A 2YIVX 2EWFA 3CAEA 2WINM 4JWEA 4H6IA 4CHCA 3FD9A 1VRRA 1CFRA 4ZQQA 3HW4A 3T46A 4JWDA 2QFFA 4EZSA 2XI5A 1GNTA 1SU7A 3WVKA 5CCYA 4FM3A 2N3KA 4IWQA 5JHTA 3ODHA 4JL9A 3N7BA 3D2EA 4R28A 3B53X 2P14A 2YI8A 3DVOA 4JN4A 2GB7A 2GAFD 1W9MA 2XI7A 4F00A 1U00A 3V1ZA 3B52X 2FQZA 5CZNA 4JLCA 1OAOA 3OWGA 3DPOA 3HW6A 4EZUA 3ZEDA 3ER9B 2P0JA 4OC8A 5FDGA 4AVGA 2YIAA 4E5IA 2KHOA 4KIKB 3V21A 4IW0A 4EZPA 1KNVA 4G6QA 3KDRA 4JWCA 4ZI0A 2ND1A 4YYLA 3O3OB 5DEBA 4E5JA 3V20A 5DESA 3WVIA 1D2IA 3VEBA 4F0PA 3OHXM 1DKYA 4HY9A 4PO2A 3ER8C 3KAVA 5D4GA 3WVHA 4R5JA 2BAMA 4EZOA 3ERCC 1UPXA 4HR1B 4KIKA 3VEAA 5CGVA 3WVGA 5D2OA 3DPQA 4AWKA 3I39X 2YIBA 4D8JA 4AVLA 3N78A 4CGSA 1M0IA 4EZRA 2X5CA 4UDXX 4IM2A 2EX3B 2OBMA 3B51X 4B9QA 4EZTA 3HW5A 4M0MA 1DKXA 1BAMA 3A4KA 1ES8A 2YI9A 3T48A 4EZNA 2Z8YA 3I01A 1E9VA 4HR1A 4IWPA 4IM0A 1OA1A 3O3NB 4R5LA 4EZXA 3WVPA 1SDOA 5DBSA 5TKYA 5FDDA 2RT6A 1FZRA 4UDYX 3DPGA 1GNLA 2JNSA 1BHMA 4ZHZA 4F0QA 4E5HA 3C7NA 2PY6A 4H6HA 1OA0A 1FOKA 3RV1A 5CL0A 5D42A 1MJGA 1SUFA 3LMFA 1E1DA 2GA9D 3O3MB 2NCZA 5E84A 3MQ6A 3QA8A 5FIGA 3T4AG 1SU8A 5EGAA 3F7WA 2LM0A 3L3OM 2E52A 1M0DA 1GN9A 3A98A 3BAMA 4NPHA 4EZQA 1DKZA 3DPPA 4E3CA 1E2UA 4EZVA 4R5KA 3VKHA 1DC1A 4EZWA 5I13A 3UITA 4AVQA 5D9JA 1DFMA 1SU6A 4F01A 4E5EA 3DW9A 1JQKA 4IWOA 4E5LA 4JWIA 4NFZA 3BM3A 3KAWA 4CGXA 2QXLA 4E81A 2ND0A 1ESGA 3HW3A 4EZZA 3T49A 3I04A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2P14 A;  2EWF A; 
#chains in the Genus database with same CATH topology
 3BVX A;  5FLE X;  2F1A A;  4R5G A;  2FOK A;  3RV0 A;  2MI7 A;  2YIV X;  3CAE A;  4H6I A;  4I1Q A;  1LQ7 A;  1CFR A;  3HW4 A;  1URU A;  4EZS A;  2YL5 A;  2XI5 A;  1I4D A;  1YWM A;  4IWQ A;  3ODH A;  5JHT A;  2FQZ A;  3ER9 B;  4E5I A;  3SYV A;  4KIK B;  3M3W A;  3CAZ A;  4H8S A;  3QNI A;  4G6Q A;  3DX4 A;  1D2I A;  5DES A;  3OHX M;  3WVH A;  3Q0K A;  4R5J A;  2YL8 A;  4HR1 B;  4CGS A;  4UDX X;  3DVO A;  2OBM A;  3HW5 A;  4M0M A;  1HTY A;  4AZB A;  1BAM A;  1ES8 A;  3T48 A;  4EZN A;  2Q13 A;  4IM0 A;  2Z0O A;  4WPC A;  1GNL A;  2Q12 A;  2F7O A;  4ZHZ A;  1QWN A;  3DX0 A;  4H6H A;  2PMR A;  5CL0 A;  2QKW A;  1SUF A;  4AZC B;  3O3M B;  2ELB A;  2NCZ A;  3D50 A;  4AKV A;  3D4Y A;  3L3O M;  3BVV A;  1M0D A;  3DPP A;  3VKH A;  4R5K A;  1I4L A;  3BLB A;  5I13 A;  3I2W A;  3DW9 A;  3DX3 A;  4BNE A;  1O7D B;  4E81 A;  2ND0 A;  3T49 A;  1O7D C;  2YLA A;  3D2F A;  1I49 A;  3BUP A;  2PFJ A;  3T47 A;  2RAK A;  1ZYL A;  4HYB A;  4EZY A;  2F7Q A;  4AWM A;  4AZH A;  5C5B A;  4AVM A;  2EWF A;  2F7R A;  4CHC A;  3FD9 A;  4DYL A;  4JWD A;  1SU7 A;  5CCY A;  4FM3 A;  3N7B A;  2P14 A;  2GB7 A;  2YI8 A;  3OK8 A;  4F00 A;  1OAO A;  3ZED A;  2P0J A;  4OC8 A;  5FDG A;  2YIA A;  2OW6 A;  4EZP A;  3D52 A;  3KDR A;  4JWC A;  3VEB A;  4F0P A;  4HY9 A;  4AZI A;  3KAV A;  4KIK A;  1R33 A;  3VEA A;  5KBP A;  5CGV A;  4AWK A;  2YIB A;  4AZ5 A;  4EZR A;  4EZT A;  3QWE A;  2Z8Y A;  2LXY A;  1E9V A;  4HR1 A;  4EZX A;  1SDO A;  3G9G A;  3LVT A;  5TKY A;  3BVT A;  2JNS A;  3C7N A;  2PY6 A;  1WDZ A;  3RV1 A;  5D42 A;  2C08 A;  2WYI A;  1PS3 A;  4AZ6 A;  2YL6 A;  3LMF A;  5E84 A;  3DDF A;  5FIG A;  3F7W A;  3CZS A;  2E52 A;  2Z0V A;  3HAI A;  4FZS A;  4EZV A;  1TQV A;  5D9J A;  4AZC A;  4IWO A;  4JWI A;  4CGX A;  3HAH A;  3HW3 A;  2JNK A;  3I04 A;  3D4Z A;  4AWH A;  4E5F A;  3CKD A;  3BVU A;  3EBJ A;  4DCN C;  3GI7 A;  3MQY A;  4AWF A;  3QNJ A;  2X3W A;  2WIN M;  4JWE A;  4WPE A;  4ZQQ A;  2QFF A;  2OZN B;  4JL9 A;  3D2E A;  4R28 A;  2X3X A;  1W9M A;  3V1Z A;  3B52 X;  5CZN A;  4JLC A;  3HW6 A;  3DPO A;  2GF4 A;  3ACO A;  4AVG A;  3BUQ A;  2EFL A;  2KHO A;  3DX1 A;  3V21 A;  2YLL A;  4IW0 A;  4NQI A;  1KNV A;  2D4C A;  2ALW A;  4ZI0 A;  5DEB A;  3V20 A;  1DKY A;  4PO2 A;  5D4G A;  3ER8 C;  3EJS A;  1QX1 A;  1UPX A;  3WVG A;  3I39 X;  1M0I A;  2X5C A;  4B9Q A;  3DX2 A;  2YI9 A;  3I01 A;  4IWP A;  2F7P A;  1OA1 A;  1HXK A;  3WVP A;  5DBS A;  2OW7 A;  2RT6 A;  1FZR A;  5C5B B;  3DPG A;  1TQT A;  4F0Q A;  1X03 A;  4E5H A;  1OA0 A;  1FOK A;  3QE6 A;  2OO2 A;  2GA9 D;  3MQ6 A;  1SU8 A;  5EGA A;  3HAJ A;  3EJU A;  1TQU A;  1GN9 A;  3CZN A;  4NPH A;  1E2U A;  1Y2O A;  3UIT A;  1DFM A;  3EJQ A;  2Z0N A;  1HWW A;  4F01 A;  1JQK A;  3BM3 A;  3KAW A;  2QXL A;  2RAI A;  1R5E A;  3Q84 A;  3PLT A;  4ATM A;  4EZZ A;  4E5J A;  3N78 A;  2RAJ A;  4R5I A;  4AWG A;  5D8U A;  4JNF A;  4JNE A;  4E5G A;  4IM3 A;  2OBL A;  5JHV A;  4FZO A;  4FZP A;  3EJR A;  1VRR A;  4AZG A;  3T46 A;  3SOG A;  1GNT A;  3WVK A;  2YKT A;  3DYT A;  2N3K A;  3D51 A;  3EJT A;  3B53 X;  4JN4 A;  2GAF D;  2XI7 A;  3LLL A;  1U00 A;  2ZXQ A;  3EJP A;  2EFK A;  3L3P A;  3OWG A;  4EZU A;  1X04 A;  3RPM A;  2ND1 A;  4YYL A;  3O3O B;  3WVI A;  2O0I 1;  2BAM A;  4EZO A;  3ERC C;  3DDG A;  5D2O A;  3DPQ A;  4D8J A;  4AVL A;  2YL9 A;  4IM2 A;  2EX3 B;  1R34 A;  3B51 X;  3BUI A;  3A4K A;  1DKX A;  2V0O A;  1QWU A;  4R5L A;  3O3N B;  2F18 A;  1ZWW A;  3BUD A;  5FDD A;  2WYH A;  4UDY X;  4AZ7 A;  1I4T A;  1BHM A;  2D1L A;  3BUB A;  3CV5 A;  1MJG A;  4NSW A;  3CVR A;  1E1D A;  2X3V A;  3QA8 A;  3T4A G;  1TQW A;  1TQS A;  2LM0 A;  3A98 A;  3BAM A;  3BVW A;  4EZQ A;  2FIC A;  1DKZ A;  4E3C A;  1DC1 A;  4EZW A;  4AVQ A;  1SU6 A;  4E5E A;  2FYV A;  4E5L A;  4NFZ A;  3ABH A;  1ESG A;  2F1B A; 
#chains in the Genus database with same CATH homology
 5FLE X;  3D2F A;  4R5I A;  4AWG A;  5D8U A;  4AWH A;  4E5F A;  4R5G A;  4JNF A;  4JNE A;  2PFJ A;  3T47 A;  3EBJ A;  4E5G A;  1ZYL A;  4HYB A;  3GI7 A;  4IM3 A;  2OBL A;  4AWF A;  4EZY A;  3QNJ A;  5JHV A;  3MQY A;  4AWM A;  2FOK A;  3RV0 A;  2YIV X;  2EWF A;  3CAE A;  2WIN M;  4JWE A;  4H6I A;  4CHC A;  3FD9 A;  1VRR A;  1CFR A;  4ZQQ A;  3HW4 A;  3T46 A;  4JWD A;  2QFF A;  4EZS A;  2XI5 A;  1GNT A;  1SU7 A;  3WVK A;  5CCY A;  4FM3 A;  2N3K A;  4IWQ A;  5JHT A;  3ODH A;  4JL9 A;  3N7B A;  3D2E A;  4R28 A;  3B53 X;  2P14 A;  2YI8 A;  3DVO A;  4JN4 A;  2GB7 A;  2GAF D;  1W9M A;  2XI7 A;  4F00 A;  1U00 A;  3V1Z A;  3B52 X;  2FQZ A;  5CZN A;  4JLC A;  1OAO A;  3OWG A;  3DPO A;  3HW6 A;  4EZU A;  3ZED A;  3ER9 B;  2P0J A;  4OC8 A;  5FDG A;  4AVG A;  2YIA A;  4E5I A;  2KHO A;  4KIK B;  3V21 A;  4IW0 A;  4EZP A;  1KNV A;  4G6Q A;  3KDR A;  4JWC A;  4ZI0 A;  2ND1 A;  4YYL A;  3O3O B;  5DEB A;  4E5J A;  3V20 A;  5DES A;  3WVI A;  1D2I A;  3VEB A;  4F0P A;  3OHX M;  1DKY A;  4HY9 A;  4PO2 A;  3ER8 C;  3KAV A;  5D4G A;  3WVH A;  4R5J A;  2BAM A;  4EZO A;  3ERC C;  1UPX A;  4HR1 B;  4KIK A;  3VEA A;  5CGV A;  3WVG A;  5D2O A;  3DPQ A;  4AWK A;  3I39 X;  2YIB A;  4D8J A;  4AVL A;  3N78 A;  4CGS A;  1M0I A;  4EZR A;  2X5C A;  4UDX X;  4IM2 A;  2EX3 B;  2OBM A;  3B51 X;  4B9Q A;  4EZT A;  3HW5 A;  4M0M A;  1DKX A;  1BAM A;  3A4K A;  1ES8 A;  2YI9 A;  3T48 A;  4EZN A;  2Z8Y A;  3I01 A;  1E9V A;  4HR1 A;  4IWP A;  4IM0 A;  1OA1 A;  3O3N B;  4R5L A;  4EZX A;  3WVP A;  1SDO A;  5DBS A;  5TKY A;  5FDD A;  2RT6 A;  1FZR A;  4UDY X;  3DPG A;  1GNL A;  2JNS A;  1BHM A;  4ZHZ A;  4F0Q A;  4E5H A;  3C7N A;  2PY6 A;  4H6H A;  1OA0 A;  1FOK A;  3RV1 A;  5CL0 A;  5D42 A;  1MJG A;  1SUF A;  3LMF A;  1E1D A;  2GA9 D;  3O3M B;  2NCZ A;  5E84 A;  3MQ6 A;  3QA8 A;  5FIG A;  3T4A G;  1SU8 A;  5EGA A;  3F7W A;  2LM0 A;  3L3O M;  2E52 A;  1M0D A;  1GN9 A;  3A98 A;  3BAM A;  4NPH A;  4EZQ A;  1DKZ A;  3DPP A;  4E3C A;  1E2U A;  4EZV A;  4R5K A;  3VKH A;  1DC1 A;  4EZW A;  5I13 A;  3UIT A;  4AVQ A;  5D9J A;  1DFM A;  1SU6 A;  4F01 A;  4E5E A;  3DW9 A;  1JQK A;  4IWO A;  4E5L A;  4JWI A;  4NFZ A;  3BM3 A;  3KAW A;  4CGX A;  2QXL A;  4E81 A;  2ND0 A;  1ESG A;  3HW3 A;  4EZZ A;  3T49 A;  3I04 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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