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
5DEBA 4AZCA 3OWGA 3PLTA 2Z8YA 3DX4A 4WPCA 4EZTA 3VKHA 3ERCC 3VEAA 5JHVA 3RV0A 3DDGA 2OBMA 3D2FA 4AWHA 3A4KA 3D51A 4E5GA 4DYLA 2FYVA 1DKZA 1HTYA 2YL5A 4IWPA 2EWFA 3ABHA 3ER8C 1O7DC 4H8SA 4KIKA 5I13A 1TQUA 4AWGA 2ND0A 1I4DA 2EFLA 3HW5A 4AWKA 1DKXA 2F7QA 1ESGA 4M0MA 3WVHA 3DX0A 3D4ZA 2QXLA 2YLAA 3EJSA 5CCYA 3HW4A 2WINM 4AVQA 4JN4A 5D9JA 3LVTA 4FZOA 2XI5A 3HW3A 4AZCB 1E9VA 4E5LA 2X3XA 1MJGA 4F01A 2ND1A 3EJRA 5JHTA 2ZXQA 3F7WA 4DCNC 1I4LA 4JNEA 1GNTA 4AVMA 5KBPA 1LQ7A 1X04A 2PY6A 1JQKA 1ZWWA 3D2EA 1OA1A 3V20A 5FIGA 4KIKB 1TQTA 1YWMA 3Q0KA 5FDGA 2N3KA 4EZWA 2EFKA 3CZNA 1QWNA 2C08A 2GAFD 3T49A 4H6IA 3GI7A 2X5CA 4BNEA 3WVGA 2X3VA 3B51X 3I04A 2PMRA 4HY9A 4IW0A 2OW6A 1BAMA 1HXKA 2F1BA 3D52A 4E5IA 4UDXX 4EZOA 2YKTA 1HWWA 2ELBA 4H6HA 2LM0A 2YIBA 3EJTA 2F7RA 3QNJA 1R5EA 5DBSA 3CV5A 3CAZA 4HYBA 3LLLA 2YI9A 2MI7A 1X03A 3C7NA 4EZSA 2NCZA 2PFJA 2WYHA 4FZSA 3BVXA 3N7BA 4NFZA 5D8UA 1FZRA 4JWDA 4I1QA 2RT6A 1URUA 3BUQA 1BHMA 1R33A 3DX3A 4IM0A 1QX1A 1FOKA 3KAVA 1SU6A 2KHOA 1OA0A 4B9QA 1GN9A 3L3OM 3CVRA 3V1ZA 1Y2OA 2WYIA 3ER9B 2V0OA 5D42A 2X3WA 5C5BA 4D8JA 2GB7A 3DPGA 4JL9A 2Z0VA 3BVUA 3BVTA 1QWUA 1UPXA 5FLEX 3EBJA 5D4GA 4JWIA 3I39X 3BLBA 3I2WA 2YLLA 4CGXA 4JNFA 4FZPA 3B53X 4EZPA 4EZZA 3SYVA 4UDYX 3KDRA 4R5LA 4AZIA 4HR1A 2FQZA 2QKWA 5CL0A 3WVKA 3T48A 4AVGA 3MQ6A 2QFFA 3D50A 4E5HA 3O3NB 1VRRA 4E3CA 2RAIA 3ACOA 1D2IA 1DKYA 2F18A 3DPPA 4OC8A 3ZEDA 3BUPA 1R34A 1WDZA 4F0QA 5C5BB 3EJPA 2Q13A 4IWQA 4JLCA 4NQIA 1E2UA 3BUBA 1SU8A 3BUIA 3T46A 2P14A 2JNSA 3BUDA 4EZYA 4EZQA 3WVIA 2YIVX 4EZNA 2FOKA 3KAWA 4F0PA 3T47A 3HW6A 2RAKA 3N78A 3T4AG 4HR1B 1GNLA 3LMFA 4E5JA 4G6QA 3DX1A 4ATMA 2Z0NA 3QE6A 1M0IA 3DX2A 3QWEA 4IM2A 4NPHA 1O7DB 2OW7A 3B52X 3EJUA 1SUFA 5FDDA 3CZSA 3V21A 4AZ7A 2YL9A 1DFMA 4AZGA 4F00A 4R5IA 4NSWA 4CGSA 4AWMA 2GA9D 1M0DA 1TQSA 2XI7A 4AKVA 2F7PA 1OAOA 1SU7A 3SOGA 2D1LA 2YL6A 4YYLA 3D4YA 3CAEA 2D4CA 2YIAA 4AZHA 4FM3A 2OZNB 4E81A 3DVOA 3RPMA 1SDOA 4R5JA 3HAHA 3HAIA 3DW9A 4EZUA 3DPQA 3UITA 3G9GA 2E52A 3Q84A 3EJQA 1TQWA 5CGVA 5TKYA 4ZI0A 2YL8A 3M3WA 1I49A 2BAMA 4JWEA 2O0I1 4EZRA 1U00A 4AZBA 4AZ6A 3O3MB 3QNIA 2OBLA 4EZVA 4WPEA 3MQYA 2Z0OA 3O3OB 4EZXA 3CKDA 2FICA 1ZYLA 3BAMA 2OO2A 1E1DA 5EGAA 3RV1A 5CZNA 2EX3B 4AVLA 3OHXM 5DESA 1DC1A 2ALWA 4CHCA 1PS3A 4ZQQA 2F1AA 3HAJA 2GF4A 2F7OA 3QA8A 2LXYA 1TQVA 4AWFA 1KNVA 4ZHZA 4R5GA 1W9MA 3VEBA 3WVPA 4JWCA 1CFRA 3BM3A 3ODHA 4AZ5A 1ES8A 5D2OA 2RAJA 3L3PA 3A98A 3BVVA 3I01A 3OK8A 2Q12A 4R28A 2JNKA 4R5KA 4E5EA 3BVWA 3DPOA 4IWOA 3DDFA 4IM3A 5E84A 4E5FA 3FD9A 4PO2A 2YI8A 3DYTA 2P0JA 1I4TA
chains in the Genus database with same CATH topology
4FM3A 4AVGA 4HY9A 3MQ6A 4IW0A 5DEBA 4E81A 3DVOA 2QFFA 4E5HA 1SDOA 3OWGA 4R5JA 1BAMA 4E5IA 2Z8YA 3O3NB 4UDXX 3DW9A 4EZTA 4EZOA 4EZUA 3VKHA 3DPQA 3ERCC 3UITA 1VRRA 2E52A 3VEAA 5JHVA 4E3CA 3RV0A 1D2IA 4H6HA 1DKYA 3DPPA 2OBMA 3D2FA 2LM0A 2YIBA 3QNJA 4OC8A 5CGVA 5DBSA 4AWHA 5TKYA 4E5GA 4ZI0A 3A4KA 3ZEDA 1DKZA 4HYBA 2BAMA 4JWEA 4F0QA 2YI9A 4EZRA 1U00A 4IWPA 2EWFA 3ER8C 3O3MB 4IWQA 3C7NA 4JLCA 1E2UA 2OBLA 2NCZA 4KIKA 4EZVA 4EZSA 5I13A 3MQYA 3O3OB 4AWGA 1SU8A 2PFJA 2ND0A 4EZXA 4AWKA 3HW5A 3T46A 2P14A 2JNSA 1DKXA 3N7BA 1ESGA 4M0MA 4NFZA 1ZYLA 3WVHA 5D8UA 3BAMA 4EZYA 4EZQA 3WVIA 2QXLA 1FZRA 1E1DA 4JWDA 2YIVX 5EGAA 4EZNA 3RV1A 2FOKA 5CCYA 2RT6A 3KAWA 4F0PA 3HW4A 5CZNA 3T47A 2EX3B 2WINM 3HW6A 4AVLA 3OHXM 4AVQA 3N78A 3T4AG 5DESA 1BHMA 4HR1B 1GNLA 3LMFA 1DC1A 4JN4A 4E5JA 5D9JA 4G6QA 4IM0A 4CHCA 1FOKA 3KAVA 2XI5A 3HW3A 1SU6A 4ZQQA 2KHOA 1OA0A 1M0IA 4B9QA 1E9VA 4E5LA 1GN9A 3L3OM 1MJGA 4F01A 3QA8A 4IM2A 2ND1A 4NPHA 5JHTA 3B52X 3F7WA 3V1ZA 3ER9B 4AWFA 1SUFA 5FDDA 1KNVA 3V21A 4ZHZA 4JNEA 4R5GA 5D42A 1GNTA 1W9MA 3VEBA 4D8JA 3WVPA 1DFMA 2PY6A 4JWCA 1CFRA 3BM3A 4F00A 3ODHA 4R5IA 2GB7A 3DPGA 4JL9A 1ES8A 5D2OA 3A98A 1JQKA 1UPXA 3D2EA 5FLEX 4CGSA 1OA1A 3V20A 3EBJA 5FIGA 2GA9D 4KIKB 4AWMA 1M0DA 5D4GA 4JWIA 3I39X 3I01A 5FDGA 2XI7A 2N3KA 4R28A 4R5KA 4CGXA 4EZWA 4E5EA 4JNFA 1OAOA 1SU7A 3B53X 4EZZA 3DPOA 4EZPA 4IWOA 4UDYX 3KDRA 4IM3A 4R5LA 5E84A 4E5FA 4YYLA 2GAFD 3T49A 4H6IA 4HR1A 3GI7A 3CAEA 2X5CA 3FD9A 2YI8A 4PO2A 5CL0A 3WVKA 2FQZA 3WVGA 3T48A 2P0JA 2YIAA 3B51X 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
 5DEB A;  4AZC A;  3OWG A;  3PLT A;  2Z8Y A;  3DX4 A;  4WPC A;  4EZT A;  3VKH A;  3ERC C;  3VEA A;  5JHV A;  3RV0 A;  3DDG A;  2OBM A;  3D2F A;  4AWH A;  3A4K A;  3D51 A;  4E5G A;  4DYL A;  2FYV A;  1DKZ A;  1HTY A;  2YL5 A;  4IWP A;  2EWF A;  3ABH A;  3ER8 C;  1O7D C;  4H8S A;  4KIK A;  5I13 A;  1TQU A;  4AWG A;  2ND0 A;  1I4D A;  2EFL A;  3HW5 A;  4AWK A;  1DKX A;  2F7Q A;  1ESG A;  4M0M A;  3WVH A;  3DX0 A;  3D4Z A;  2QXL A;  2YLA A;  3EJS A;  5CCY A;  3HW4 A;  2WIN M;  4AVQ A;  4JN4 A;  5D9J A;  3LVT A;  4FZO A;  2XI5 A;  3HW3 A;  4AZC B;  1E9V A;  4E5L A;  2X3X A;  1MJG A;  4F01 A;  2ND1 A;  3EJR A;  5JHT A;  2ZXQ A;  3F7W A;  4DCN C;  1I4L A;  4JNE A;  1GNT A;  4AVM A;  5KBP A;  1LQ7 A;  1X04 A;  2PY6 A;  1JQK A;  1ZWW A;  3D2E A;  1OA1 A;  3V20 A;  5FIG A;  4KIK B;  1TQT A;  1YWM A;  3Q0K A;  5FDG A;  2N3K A;  4EZW A;  2EFK A;  3CZN A;  1QWN A;  2C08 A;  2GAF D;  3T49 A;  4H6I A;  3GI7 A;  2X5C A;  4BNE A;  3WVG A;  2X3V A;  3B51 X;  3I04 A;  2PMR A;  4HY9 A;  4IW0 A;  2OW6 A;  1BAM A;  1HXK A;  2F1B A;  3D52 A;  4E5I A;  4UDX X;  4EZO A;  2YKT A;  1HWW A;  2ELB A;  4H6H A;  2LM0 A;  2YIB A;  3EJT A;  2F7R A;  3QNJ A;  1R5E A;  5DBS A;  3CV5 A;  3CAZ A;  4HYB A;  3LLL A;  2YI9 A;  2MI7 A;  1X03 A;  3C7N A;  4EZS A;  2NCZ A;  2PFJ A;  2WYH A;  4FZS A;  3BVX A;  3N7B A;  4NFZ A;  5D8U A;  1FZR A;  4JWD A;  4I1Q A;  2RT6 A;  1URU A;  3BUQ A;  1BHM A;  1R33 A;  3DX3 A;  4IM0 A;  1QX1 A;  1FOK A;  3KAV A;  1SU6 A;  2KHO A;  1OA0 A;  4B9Q A;  1GN9 A;  3L3O M;  3CVR A;  3V1Z A;  1Y2O A;  2WYI A;  3ER9 B;  2V0O A;  5D42 A;  2X3W A;  5C5B A;  4D8J A;  2GB7 A;  3DPG A;  4JL9 A;  2Z0V A;  3BVU A;  3BVT A;  1QWU A;  1UPX A;  5FLE X;  3EBJ A;  5D4G A;  4JWI A;  3I39 X;  3BLB A;  3I2W A;  2YLL A;  4CGX A;  4JNF A;  4FZP A;  3B53 X;  4EZP A;  4EZZ A;  3SYV A;  4UDY X;  3KDR A;  4R5L A;  4AZI A;  4HR1 A;  2FQZ A;  2QKW A;  5CL0 A;  3WVK A;  3T48 A;  4AVG A;  3MQ6 A;  2QFF A;  3D50 A;  4E5H A;  3O3N B;  1VRR A;  4E3C A;  2RAI A;  3ACO A;  1D2I A;  1DKY A;  2F18 A;  3DPP A;  4OC8 A;  3ZED A;  3BUP A;  1R34 A;  1WDZ A;  4F0Q A;  5C5B B;  3EJP A;  2Q13 A;  4IWQ A;  4JLC A;  4NQI A;  1E2U A;  3BUB A;  1SU8 A;  3BUI A;  3T46 A;  2P14 A;  2JNS A;  3BUD A;  4EZY A;  4EZQ A;  3WVI A;  2YIV X;  4EZN A;  2FOK A;  3KAW A;  4F0P A;  3T47 A;  3HW6 A;  2RAK A;  3N78 A;  3T4A G;  4HR1 B;  1GNL A;  3LMF A;  4E5J A;  4G6Q A;  3DX1 A;  4ATM A;  2Z0N A;  3QE6 A;  1M0I A;  3DX2 A;  3QWE A;  4IM2 A;  4NPH A;  1O7D B;  2OW7 A;  3B52 X;  3EJU A;  1SUF A;  5FDD A;  3CZS A;  3V21 A;  4AZ7 A;  2YL9 A;  1DFM A;  4AZG A;  4F00 A;  4R5I A;  4NSW A;  4CGS A;  4AWM A;  2GA9 D;  1M0D A;  1TQS A;  2XI7 A;  4AKV A;  2F7P A;  1OAO A;  1SU7 A;  3SOG A;  2D1L A;  2YL6 A;  4YYL A;  3D4Y A;  3CAE A;  2D4C A;  2YIA A;  4AZH A;  4FM3 A;  2OZN B;  4E81 A;  3DVO A;  3RPM A;  1SDO A;  4R5J A;  3HAH A;  3HAI A;  3DW9 A;  4EZU A;  3DPQ A;  3UIT A;  3G9G A;  2E52 A;  3Q84 A;  3EJQ A;  1TQW A;  5CGV A;  5TKY A;  4ZI0 A;  2YL8 A;  3M3W A;  1I49 A;  2BAM A;  4JWE A;  2O0I 1;  4EZR A;  1U00 A;  4AZB A;  4AZ6 A;  3O3M B;  3QNI A;  2OBL A;  4EZV A;  4WPE A;  3MQY A;  2Z0O A;  3O3O B;  4EZX A;  3CKD A;  2FIC A;  1ZYL A;  3BAM A;  2OO2 A;  1E1D A;  5EGA A;  3RV1 A;  5CZN A;  2EX3 B;  4AVL A;  3OHX M;  5DES A;  1DC1 A;  2ALW A;  4CHC A;  1PS3 A;  4ZQQ A;  2F1A A;  3HAJ A;  2GF4 A;  2F7O A;  3QA8 A;  2LXY A;  1TQV A;  4AWF A;  1KNV A;  4ZHZ A;  4R5G A;  1W9M A;  3VEB A;  3WVP A;  4JWC A;  1CFR A;  3BM3 A;  3ODH A;  4AZ5 A;  1ES8 A;  5D2O A;  2RAJ A;  3L3P A;  3A98 A;  3BVV A;  3I01 A;  3OK8 A;  2Q12 A;  4R28 A;  2JNK A;  4R5K A;  4E5E A;  3BVW A;  3DPO A;  4IWO A;  3DDF A;  4IM3 A;  5E84 A;  4E5F A;  3FD9 A;  4PO2 A;  2YI8 A;  3DYT A;  2P0J A;  1I4T A; 
#chains in the Genus database with same CATH homology
 4FM3 A;  4AVG A;  4HY9 A;  3MQ6 A;  4IW0 A;  5DEB A;  4E81 A;  3DVO A;  2QFF A;  4E5H A;  1SDO A;  3OWG A;  4R5J A;  1BAM A;  4E5I A;  2Z8Y A;  3O3N B;  4UDX X;  3DW9 A;  4EZT A;  4EZO A;  4EZU A;  3VKH A;  3DPQ A;  3ERC C;  3UIT A;  1VRR A;  2E52 A;  3VEA A;  5JHV A;  4E3C A;  3RV0 A;  1D2I A;  4H6H A;  1DKY A;  3DPP A;  2OBM A;  3D2F A;  2LM0 A;  2YIB A;  3QNJ A;  4OC8 A;  5CGV A;  5DBS A;  4AWH A;  5TKY A;  4E5G A;  4ZI0 A;  3A4K A;  3ZED A;  1DKZ A;  4HYB A;  2BAM A;  4JWE A;  4F0Q A;  2YI9 A;  4EZR A;  1U00 A;  4IWP A;  2EWF A;  3ER8 C;  3O3M B;  4IWQ A;  3C7N A;  4JLC A;  1E2U A;  2OBL A;  2NCZ A;  4KIK A;  4EZV A;  4EZS A;  5I13 A;  3MQY A;  3O3O B;  4AWG A;  1SU8 A;  2PFJ A;  2ND0 A;  4EZX A;  4AWK A;  3HW5 A;  3T46 A;  2P14 A;  2JNS A;  1DKX A;  3N7B A;  1ESG A;  4M0M A;  4NFZ A;  1ZYL A;  3WVH A;  5D8U A;  3BAM A;  4EZY A;  4EZQ A;  3WVI A;  2QXL A;  1FZR A;  1E1D A;  4JWD A;  2YIV X;  5EGA A;  4EZN A;  3RV1 A;  2FOK A;  5CCY A;  2RT6 A;  3KAW A;  4F0P A;  3HW4 A;  5CZN A;  3T47 A;  2EX3 B;  2WIN M;  3HW6 A;  4AVL A;  3OHX M;  4AVQ A;  3N78 A;  3T4A G;  5DES A;  1BHM A;  4HR1 B;  1GNL A;  3LMF A;  1DC1 A;  4JN4 A;  4E5J A;  5D9J A;  4G6Q A;  4IM0 A;  4CHC A;  1FOK A;  3KAV A;  2XI5 A;  3HW3 A;  1SU6 A;  4ZQQ A;  2KHO A;  1OA0 A;  1M0I A;  4B9Q A;  1E9V A;  4E5L A;  1GN9 A;  3L3O M;  1MJG A;  4F01 A;  3QA8 A;  4IM2 A;  2ND1 A;  4NPH A;  5JHT A;  3B52 X;  3F7W A;  3V1Z A;  3ER9 B;  4AWF A;  1SUF A;  5FDD A;  1KNV A;  3V21 A;  4ZHZ A;  4JNE A;  4R5G A;  5D42 A;  1GNT A;  1W9M A;  3VEB A;  4D8J A;  3WVP A;  1DFM A;  2PY6 A;  4JWC A;  1CFR A;  3BM3 A;  4F00 A;  3ODH A;  4R5I A;  2GB7 A;  3DPG A;  4JL9 A;  1ES8 A;  5D2O A;  3A98 A;  1JQK A;  1UPX A;  3D2E A;  5FLE X;  4CGS A;  1OA1 A;  3V20 A;  3EBJ A;  5FIG A;  2GA9 D;  4KIK B;  4AWM A;  1M0D A;  5D4G A;  4JWI A;  3I39 X;  3I01 A;  5FDG A;  2XI7 A;  2N3K A;  4R28 A;  4R5K A;  4CGX A;  4EZW A;  4E5E A;  4JNF A;  1OAO A;  1SU7 A;  3B53 X;  4EZZ A;  3DPO A;  4EZP A;  4IWO A;  4UDY X;  3KDR A;  4IM3 A;  4R5L A;  5E84 A;  4E5F A;  4YYL A;  2GAF D;  3T49 A;  4H6I A;  4HR1 A;  3GI7 A;  3CAE A;  2X5C A;  3FD9 A;  2YI8 A;  4PO2 A;  5CL0 A;  3WVK A;  2FQZ A;  3WVG A;  3T48 A;  2P0J A;  2YIA A;  3B51 X;  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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