2EX3B

Bacteriophage phi29 dna polymerase bound to terminal protein
Total Genus 55
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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
55
sequence length
223
structure length
196
Chain Sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXANMRYQFEKNAYGVVASKAKIAEIERNTKEVQRLVDEKIKAMKDKEYYATGINRPHDFDFSKVRSYSRLRTLEESMEMRTDPQYYEKKMIQLQLNFIKSVEGSFNSFDAADELIEELKKIPPDDFYELFLRISEISGNTVENVEGNVYKILSYLEQYRRGDF
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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.

Chord Diagram
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publication title The phi29 DNA polymerase:protein-primer structure suggests a model for the initiation to elongation transition
pubmed doi rcsb
molecule tags Transferase/replication
source organism Bacillus phage phi29
molecule keywords DNA polymerase
total genus 55
structure length 196
sequence length 223
chains with identical sequence D, F, H, J, L
ec nomenclature
pdb deposition date 2005-11-07
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1270.230 Mainly Alpha Up-down Bundle Substrate Binding Domain Of Dnak; Chain:A; Domain 2 Substrate Binding Domain Of Dnak; Chain:A; Domain 2 2ex3B02
2EX3B
chains in the Genus database with same CATH superfamily
1TQWA 3D50A 2MI7A 1DKXA 2RAKA 2F7RA 4HY9A 3A98A 3D2FA 4HR1A 2F7OA 4JWCA 1PS3A 2X3XA 3DX3A 4AVMA 2EFKA 4BNEA 4UDXX 3LVTA 3VEAA 2PY6A 4EZPA 3DPQA 4HYBA 4AZGA 4IW0A 3Q0KA 2RAIA 2WYHA 4PO2A 2F7QA 3QNIA 1ZYLA 2LM0A 2GA9D 3BLBA 2OBLA 3F7WA 3KAVA 3DX1A 3Q84A 3B51X 3FD9A 4EZQA 3CKDA 3D2EA 1E9VA 4AZIA 4F01A 2C08A 4R5GA 1X04A 2X3VA 1GN9A 2EWFA 3O3NB 1TQVA 2RT6A 2O0I1 3VKHA 2EFLA 2QFFA 4AZCB 3LLLA 5E84A 1TQTA 2OO2A 3BVTA 4WPCA 3SYVA 2PMRA 1OA0A 3CVRA 1SU6A 3KAWA 4JLCA 1LQ7A 3O3MB 4JWIA 2X3WA 3D4ZA 3L3OM 3T49A 4H8SA 4HR1B 3D4YA 1R33A 4JNEA 3I2WA 3ZEDA 2YLLA 3QA8A 5TKYA 3ABHA 2YLAA 4R5KA 4KIKA 4EZVA 3BUPA 4DYLA 3RV0A 1O7DC 1OAOA 2FYVA 3OHXM 2YL9A 4FM3A 4JNFA 2KHOA 1O7DB 3DX0A 3VEBA 4E3CA 1I4TA 3T48A 3HAJA 2Z0VA 1I49A 3I39X 1TQUA 3C7NA 1UPXA 3OWGA 1SU7A 2ALWA 2F1AA 3ER8C 1X03A 3DYTA 4D8JA 3M3WA 3I04A 4AZBA 2ZXQA 1URUA 3O3OB 4EZRA 4DCNC 1QWUA 3DDGA 3EJQA 4G6QA 4AZ6A 3EJTA 2F7PA 2D1LA 3EJUA 3HAIA 4EZSA 5C5BA 2RAJA 2JNKA 3DDFA 1HXKA 3CZNA 4NPHA 3SOGA 3RPMA 2FICA 2ND0A 4AZ7A 3EJPA 4FZPA 3BVXA 3EJSA 4R5LA 1JQKA 1W9MA 3B53X 2YIVX 2V0OA 4H6IA 1R5EA 3UITA 4EZNA 4EZWA 2WYIA 1OA1A 4EZUA 4FZOA 2WINM 4F00A 3BVWA 4KIKB 2YI8A 4H6HA 4EZOA 1SU8A 3D51A 2YI9A 4AZ5A 2JNSA 4WPEA 3BUDA 2GAFD 3B52X 1E1DA 4R5IA 1E2UA 2OBMA 3DPOA 4IM2A 3BUIA 3I01A 3BUBA 3ERCC 1YWMA 4IWOA 3PLTA 2OW7A 2QKWA 2ELBA 2YKTA 3CV5A 2ND1A 4JWDA 3RV1A 3CAZA 4B9QA 3T46A 2OZNB 1I4DA 2OW6A 2N3KA 3ACOA 3GI7A 2F18A 1HTYA 2F1BA 2Q13A 3D52A 3BUQA 2Z0NA 2Q12A 4IWQA 1MJGA 5C5BB 2X5CA 4EZYA 1R34A 4M0MA 1WDZA 3KDRA 3HAHA 2YIAA 1TQSA 3T4AG 1SUFA 3QWEA 1I4LA 3DX4A 4AKVA 2YL8A 3LMFA 2GF4A 4NSWA 4UDYX 2NCZA 1DKYA 3EJRA 4R5JA 4IM3A 4EZZA 3DPPA 1U00A 3QNJA 4E81A 4FZSA 2EX3B 1HWWA 3BVVA 3BVUA 4IM0A 2QXLA 1QWNA 5FLEX 3ER9B 3T47A 2LXYA 4I1QA 1ZWWA 3OK8A 3L3PA 4EZXA 3CZSA 4JWEA 4IWPA 1Y2OA 5KBPA 2YL6A 2Z8YA 1GNLA 1QX1A 1DKZA 4JL9A 2YL5A 1GNTA 4AZHA 2YIBA 4NQIA 2D4CA 4AZCA 3QE6A 4EZTA 3G9GA 2Z0OA 3DX2A 5FIGA 4ATMA 4JN4A
chains in the Genus database with same CATH topology
4EZSA 5E84A 1DKXA 4NPHA 4IWQA 1MJGA 2ND0A 2X5CA 4EZYA 4HY9A 1OA0A 4M0MA 3A98A 3KDRA 1SU6A 3KAWA 2YIAA 4JLCA 3T4AG 3D2FA 1SUFA 3O3MB 4HR1A 4JWIA 4R5LA 4JWCA 1JQKA 1W9MA 3B53X 2YIVX 3L3OM 3T49A 4HR1B 4H6IA 3UITA 4EZNA 4EZWA 4JNEA 3LMFA 3ZEDA 4UDXX 3QA8A 5TKYA 4UDYX 2NCZA 1DKYA 4R5KA 4R5JA 1OA1A 4IM3A 4EZUA 4KIKA 4EZVA 2PY6A 4EZPA 2WINM 3VEAA 4F00A 4EZZA 3RV0A 3DPPA 3DPQA 1U00A 3QNJA 1OAOA 4E81A 3OHXM 4FM3A 4HYBA 4KIKB 4JNFA 2EX3B 2KHOA 4IW0A 2YI8A 4H6HA 3VEBA 4IM0A 4E3CA 4PO2A 4EZOA 2QXLA 1SU8A 3T48A 2YI9A 2JNSA 1ZYLA 2GAFD 3I39X 3C7NA 2LM0A 2GA9D 5FLEX 1UPXA 2OBLA 3B52X 3T47A 1E1DA 4R5IA 3F7WA 3KAVA 1E2UA 3ER9B 3OWGA 2OBMA 3B51X 3DPOA 4IM2A 3I01A 3ERCC 4IWOA 1SU7A 3FD9A 3ER8C 4EZQA 4EZXA 4D8JA 3I04A 3D2EA 1E9VA 4JWEA 4IWPA 2ND1A 2Z8YA 4F01A 1GNLA 3O3OB 4EZRA 4JWDA 4R5GA 1DKZA 3RV1A 4JL9A 4B9QA 3T46A 1GN9A 1GNTA 2EWFA 2YIBA 3O3NB 4EZTA 2RT6A 4G6QA 2N3KA 5FIGA 3GI7A 4JN4A 3VKHA 2QFFA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2EX3 B; 
#chains in the Genus database with same CATH topology
 1TQW A;  3D50 A;  2MI7 A;  1DKX A;  2RAK A;  2F7R A;  4HY9 A;  3A98 A;  3D2F A;  4HR1 A;  2F7O A;  4JWC A;  1PS3 A;  2X3X A;  3DX3 A;  4AVM A;  2EFK A;  4BNE A;  4UDX X;  3LVT A;  3VEA A;  2PY6 A;  4EZP A;  3DPQ A;  4HYB A;  4AZG A;  4IW0 A;  3Q0K A;  2RAI A;  2WYH A;  4PO2 A;  2F7Q A;  3QNI A;  1ZYL A;  2LM0 A;  2GA9 D;  3BLB A;  2OBL A;  3F7W A;  3KAV A;  3DX1 A;  3Q84 A;  3B51 X;  3FD9 A;  4EZQ A;  3CKD A;  3D2E A;  1E9V A;  4AZI A;  4F01 A;  2C08 A;  4R5G A;  1X04 A;  2X3V A;  1GN9 A;  2EWF A;  3O3N B;  1TQV A;  2RT6 A;  2O0I 1;  3VKH A;  2EFL A;  2QFF A;  4AZC B;  3LLL A;  5E84 A;  1TQT A;  2OO2 A;  3BVT A;  4WPC A;  3SYV A;  2PMR A;  1OA0 A;  3CVR A;  1SU6 A;  3KAW A;  4JLC A;  1LQ7 A;  3O3M B;  4JWI A;  2X3W A;  3D4Z A;  3L3O M;  3T49 A;  4H8S A;  4HR1 B;  3D4Y A;  1R33 A;  4JNE A;  3I2W A;  3ZED A;  2YLL A;  3QA8 A;  5TKY A;  3ABH A;  2YLA A;  4R5K A;  4KIK A;  4EZV A;  3BUP A;  4DYL A;  3RV0 A;  1O7D C;  1OAO A;  2FYV A;  3OHX M;  2YL9 A;  4FM3 A;  4JNF A;  2KHO A;  1O7D B;  3DX0 A;  3VEB A;  4E3C A;  1I4T A;  3T48 A;  3HAJ A;  2Z0V A;  1I49 A;  3I39 X;  1TQU A;  3C7N A;  1UPX A;  3OWG A;  1SU7 A;  2ALW A;  2F1A A;  3ER8 C;  1X03 A;  3DYT A;  4D8J A;  3M3W A;  3I04 A;  4AZB A;  2ZXQ A;  1URU A;  3O3O B;  4EZR A;  4DCN C;  1QWU A;  3DDG A;  3EJQ A;  4G6Q A;  4AZ6 A;  3EJT A;  2F7P A;  2D1L A;  3EJU A;  3HAI A;  4EZS A;  5C5B A;  2RAJ A;  2JNK A;  3DDF A;  1HXK A;  3CZN A;  4NPH A;  3SOG A;  3RPM A;  2FIC A;  2ND0 A;  4AZ7 A;  3EJP A;  4FZP A;  3BVX A;  3EJS A;  4R5L A;  1JQK A;  1W9M A;  3B53 X;  2YIV X;  2V0O A;  4H6I A;  1R5E A;  3UIT A;  4EZN A;  4EZW A;  2WYI A;  1OA1 A;  4EZU A;  4FZO A;  2WIN M;  4F00 A;  3BVW A;  4KIK B;  2YI8 A;  4H6H A;  4EZO A;  1SU8 A;  3D51 A;  2YI9 A;  4AZ5 A;  2JNS A;  4WPE A;  3BUD A;  2GAF D;  3B52 X;  1E1D A;  4R5I A;  1E2U A;  2OBM A;  3DPO A;  4IM2 A;  3BUI A;  3I01 A;  3BUB A;  3ERC C;  1YWM A;  4IWO A;  3PLT A;  2OW7 A;  2QKW A;  2ELB A;  2YKT A;  3CV5 A;  2ND1 A;  4JWD A;  3RV1 A;  3CAZ A;  4B9Q A;  3T46 A;  2OZN B;  1I4D A;  2OW6 A;  2N3K A;  3ACO A;  3GI7 A;  2F18 A;  1HTY A;  2F1B A;  2Q13 A;  3D52 A;  3BUQ A;  2Z0N A;  2Q12 A;  4IWQ A;  1MJG A;  5C5B B;  2X5C A;  4EZY A;  1R34 A;  4M0M A;  1WDZ A;  3KDR A;  3HAH A;  2YIA A;  1TQS A;  3T4A G;  1SUF A;  3QWE A;  1I4L A;  3DX4 A;  4AKV A;  2YL8 A;  3LMF A;  2GF4 A;  4NSW A;  4UDY X;  2NCZ A;  1DKY A;  3EJR A;  4R5J A;  4IM3 A;  4EZZ A;  3DPP A;  1U00 A;  3QNJ A;  4E81 A;  4FZS A;  2EX3 B;  1HWW A;  3BVV A;  3BVU A;  4IM0 A;  2QXL A;  1QWN A;  5FLE X;  3ER9 B;  3T47 A;  2LXY A;  4I1Q A;  1ZWW A;  3OK8 A;  3L3P A;  4EZX A;  3CZS A;  4JWE A;  4IWP A;  1Y2O A;  5KBP A;  2YL6 A;  2Z8Y A;  1GNL A;  1QX1 A;  1DKZ A;  4JL9 A;  2YL5 A;  1GNT A;  4AZH A;  2YIB A;  4NQI A;  2D4C A;  4AZC A;  3QE6 A;  4EZT A;  3G9G A;  2Z0O A;  3DX2 A;  5FIG A;  4ATM A;  4JN4 A; 
#chains in the Genus database with same CATH homology
 4EZS A;  5E84 A;  1DKX A;  4NPH A;  4IWQ A;  1MJG A;  2ND0 A;  2X5C A;  4EZY A;  4HY9 A;  1OA0 A;  4M0M A;  3A98 A;  3KDR A;  1SU6 A;  3KAW A;  2YIA A;  4JLC A;  3T4A G;  3D2F A;  1SUF A;  3O3M B;  4HR1 A;  4JWI A;  4R5L A;  4JWC A;  1JQK A;  1W9M A;  3B53 X;  2YIV X;  3L3O M;  3T49 A;  4HR1 B;  4H6I A;  3UIT A;  4EZN A;  4EZW A;  4JNE A;  3LMF A;  3ZED A;  4UDX X;  3QA8 A;  5TKY A;  4UDY X;  2NCZ A;  1DKY A;  4R5K A;  4R5J A;  1OA1 A;  4IM3 A;  4EZU A;  4KIK A;  4EZV A;  2PY6 A;  4EZP A;  2WIN M;  3VEA A;  4F00 A;  4EZZ A;  3RV0 A;  3DPP A;  3DPQ A;  1U00 A;  3QNJ A;  1OAO A;  4E81 A;  3OHX M;  4FM3 A;  4HYB A;  4KIK B;  4JNF A;  2EX3 B;  2KHO A;  4IW0 A;  2YI8 A;  4H6H A;  3VEB A;  4IM0 A;  4E3C A;  4PO2 A;  4EZO A;  2QXL A;  1SU8 A;  3T48 A;  2YI9 A;  2JNS A;  1ZYL A;  2GAF D;  3I39 X;  3C7N A;  2LM0 A;  2GA9 D;  5FLE X;  1UPX A;  2OBL A;  3B52 X;  3T47 A;  1E1D A;  4R5I A;  3F7W A;  3KAV A;  1E2U A;  3ER9 B;  3OWG A;  2OBM A;  3B51 X;  3DPO A;  4IM2 A;  3I01 A;  3ERC C;  4IWO A;  1SU7 A;  3FD9 A;  3ER8 C;  4EZQ A;  4EZX A;  4D8J A;  3I04 A;  3D2E A;  1E9V A;  4JWE A;  4IWP A;  2ND1 A;  2Z8Y A;  4F01 A;  1GNL A;  3O3O B;  4EZR A;  4JWD A;  4R5G A;  1DKZ A;  3RV1 A;  4JL9 A;  4B9Q A;  3T46 A;  1GN9 A;  1GNT A;  2EWF A;  2YIB A;  3O3N B;  4EZT A;  2RT6 A;  4G6Q A;  2N3K A;  5FIG A;  3GI7 A;  4JN4 A;  3VKH A;  2QFF 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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