4BBSM

Structure of an initially transcribing rna polymerase ii-tfiib complex
Total Genus 28
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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
28
sequence length
192
structure length
189
Chain Sequence
b'LTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTRSEWRTFSNDDHNGDDPSRVGEASNPLLDGNNLSTRIGKGETTDMRFTKELNKAQGKNVKDNEVQAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRRAEVARTFKEIQSLIHVKTKEFGKTLNIMKNI'
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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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molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
publication title Structure and Function of the Initially Transcribing RNA Polymerase II-TFIIB Complex
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription
total genus 28
structure length 189
sequence length 192
ec nomenclature
pdb deposition date 2012-09-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
M PF00382 TFIIB Transcription factor TFIIB repeat
M PF08271 TF_Zn_Ribbon TFIIB zinc-binding
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.472.170 Mainly Alpha Orthogonal Bundle Cyclin A; domain 1 Cyclin A; domain 1 4bbsM00
4BBRM 4BBSM
chains in the Genus database with same CATH superfamily
1GUXB 3WVDB 1VYWB 1JSUB 5LMKB 4Y72B 1H24B 4BY1X 2PHGA 2EUFA 3H4CA 4EOJB 4BCKB 4F7SB 4EOMB 4JX4A 5HNBB 3TN8B 4CFNB 2CZ7B 3TW7A 3MY1B 2IW6B 2WXVB 1XO2A 2QF7A 3QZ5B 1OI9B 3QYHB 4Z6YA 3VYHB 4OGRB 4EONB 2CJMB 2DMEA 3EIDB 2X1NB 4BY7X 1UNHD 3HHTB 4EORB 3G33B 3QYGB 3TW6A 4OR5B 2DXBB 2KR6A 1P5EB 4CFVB 3BG3A 3X25B 3QHRB 1BU2A 5IDPB 1H27B 4HNUA 3TNIB 4BXXX 2PJQA 3QZ9B 1JSTB 4OB0B 4CFUB 4YOSA 3VKHA 1UNGD 2IW8B 5HBJB 1V29B 4KRCB 4I3ZB 2W9FA 4BCGB 2BKZB 1UGSB 4BBSM 2IW9B 3BLHB 1PKDB 2F2CA 2ZPBB 2C5NB 3DDPB 2DPPB 4NC6A 2QDYB 2CCHB 1OIUB 2UZDB 2CYZB 3A8MB 3MY5B 4JX6A 5L2WB 1H1RB 1FKMA 1AHJB 2G9XB 4FX3B 4QSHA 4YOZA 1D3UB 1FVVB 4OB2B 3A8HB 2PK9B 5HVYB 2I53A 3HB9A 2C5OB 4EOLB 3QYEA 4TTHA 2UZBB 2ZZDB 2KMGA 2UZEB 3NDQA 2WFYB 4ELLA 4CFUD 1QLBA 4CXAB 3X20B 2G77A 4F6WB 5CYIB 3BG9A 3A8GB 3DOGB 2WIHB 4ELJA 2WMBB 3X28B 2CZ6B 1IREB 2QFZA 2WHBB 2C5XB 1ZP2A 3DTOA 1O9KA 3VKGA 4BCQB 5BNJB 1F5QB 3DL1A 1URCB 2QQ8A 3TNWB 1H28B 2PK2A 3A8OB 4EC9B 4BBRM 4ZGEB 3M03A 3HZJA 3QHWB 1TFBA 2I40B 2R7GA 4EC8B 4EOIB 4YOOA 4JX5A 3MIAB 2PMIB 4EOKB 3X26B 4NSTB 1JKWA 1OL2B 4BCMD 2W99A 2LW4A 2UUEB 2UZLB 2V22B 3BHUB 1OGUB 3GTMS 2WMAB 5IDNB 3PO3S 3A8LB 1W98B 3EOCB 2QGSA 4RODA 4BCQD 3BG5A 3X24B 5LQFB 4CFXB 5HQ0B 4BCJB 2IN3A 4HNTA 3TNHB 3WVEB 1FINB 3K7AM 4EOSB 5CEIB 1G3NC 3LQ5B 1GY3B 2WIPB 1AD6A 1H26B 3RGFB 4MFEA 4AI6A 1OKWB 3BHVB 1TD6A 5EJCA 1O9KB 4EOQB 1AISB 1H1QB 4BCMB 1N4MA 3HBLA 4CFMB 2CCIB 4AKIA 1UGPB 4KRDB 5HBEB 4HLQA 4AKHA 5IHYA 2QDJA 5ICPB 1VOLA 1GH6B 4CRLB 2ZPIB 3EJ1B 2ZCFB 4BCNB 4LOCA 4M6VA 3O0GD 2C5VB 2ZPFB 2B9RA 4II5B 2IVXA 4BCOB 4F6UB 3F5XB 5HBHB 1E9HB 1OIYB 4F6SB 4YC3B 3QWLA 3POMA 5IF1B 1H1PB 5I5ZB 2BS2A 2C6TB 4F7JB 2W96A 5EFQB 2CZ1B 4EOOB 1GUXA 2CZ0B 2W2HA 1OKVB 4AKGA 4ROEA 4HNVA 2ZPEB 1QMZB 2C4GB 2WPAB 2DD4B 4ROCA 2ZPGB 3HO8A 1ENWA 4MFDA 1H25B 2ZPHB 4BCND 3MI9B 4BCIB 2JGZB 4IMYB 4ZGJB 3DDQB 4HL4A 1UGRB 1H4LD 1C9BA 5DQWA 1JOWA 1KXUA 3VYGB 2W9ZA 2D0QB 2BS3A 4G6LB 1UGQB 2DXCB 3QYBA 3QXEB 4MIMA 4CFWB 4OB3B 5FGKB 3BHTB 4F70B 1OL1B 4EOPB 4FM4B 3BLQB 3KHIA 5ACBA 4BCPB 4ZGDB 2BPMB 2WJ9A 2DD5B 3B57A 3BLRB 1E7PA 1UNLD 4F7NB 3DJBA 1H1SB 4OB1B 2WEVB 2BS4A 4F7LB 4BCFB 5DQVA 4UN0A 4BCHB 1VINA 2AHJB
chains in the Genus database with same CATH topology
3HB9A 3WVDB 3QYEA 2CZ0B 3BG5A 3X24B 4AKGA 2ZZDB 2KMGA 3H4CA 4HNVA 2ZPEB 4JX4A 2DD4B 2ZPGB 1QLBA 2CZ7B 3TW7A 3HO8A 3X20B 4HNTA 4MFDA 2G77A 3BG9A 2ZPHB 2QF7A 3WVEB 3QZ5B 3A8GB 3QYHB 4Z6YA 4MFEA 3VYHB 4ELJA 4AI6A 3X28B 4ZGJB 2CZ6B 4HL4A 1IREB 1UGRB 2QFZA 3HHTB 3QYGB 3TW6A 5EJCA 2DXBB 2KR6A 3BG3A 3X25B 3HBLA 3VKGA 4AKIA 3VYGB 3DL1A 1UGPB 4HNUA 2D0QB 2BS3A 2QQ8A 4AKHA 4HLQA 3QZ9B 1UGQB 3A8OB 4BBRM 2DXCB 2QDJA 4OB0B 4ZGEB 3QYBA 3HZJA 3QXEB 3VKHA 2ZPIB 4MIMA 4OB3B 1V29B 2ZCFB 4JX5A 4LOCA 4M6VA 4FM4B 3KHIA 1UGSB 4BBSM 2ZPFB 3X26B 4ZGDB 2ZPBB 2WJ9A 2DD5B 2DPPB 4NC6A 1E7PA 2QDYB 3QWLA 2CYZB 3A8MB 4JX6A 4OB1B 2BS4A 2BS2A 1FKMA 1AHJB 4QSHA 2CZ1B 4OB2B 3A8HB 3A8LB 2AHJB
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4BBR M;  4BBS M; 
#chains in the Genus database with same CATH topology
 1GUX B;  3WVD B;  1VYW B;  1JSU B;  5LMK B;  4Y72 B;  1H24 B;  4BY1 X;  2PHG A;  2EUF A;  3H4C A;  4EOJ B;  4BCK B;  4F7S B;  4EOM B;  4JX4 A;  5HNB B;  3TN8 B;  4CFN B;  2CZ7 B;  3TW7 A;  3MY1 B;  2IW6 B;  2WXV B;  1XO2 A;  2QF7 A;  3QZ5 B;  1OI9 B;  3QYH B;  4Z6Y A;  3VYH B;  4OGR B;  4EON B;  2CJM B;  2DME A;  3EID B;  2X1N B;  4BY7 X;  1UNH D;  3HHT B;  4EOR B;  3G33 B;  3QYG B;  3TW6 A;  4OR5 B;  2DXB B;  2KR6 A;  1P5E B;  4CFV B;  3BG3 A;  3X25 B;  3QHR B;  1BU2 A;  5IDP B;  1H27 B;  4HNU A;  3TNI B;  4BXX X;  2PJQ A;  3QZ9 B;  1JST B;  4OB0 B;  4CFU B;  4YOS A;  3VKH A;  1UNG D;  2IW8 B;  5HBJ B;  1V29 B;  4KRC B;  4I3Z B;  2W9F A;  4BCG B;  2BKZ B;  1UGS B;  4BBS M;  2IW9 B;  3BLH B;  1PKD B;  2F2C A;  2ZPB B;  2C5N B;  3DDP B;  2DPP B;  4NC6 A;  2QDY B;  2CCH B;  1OIU B;  2UZD B;  2CYZ B;  3A8M B;  3MY5 B;  4JX6 A;  5L2W B;  1H1R B;  1FKM A;  1AHJ B;  2G9X B;  4FX3 B;  4QSH A;  4YOZ A;  1D3U B;  1FVV B;  4OB2 B;  3A8H B;  2PK9 B;  5HVY B;  2I53 A;  3HB9 A;  2C5O B;  4EOL B;  3QYE A;  4TTH A;  2UZB B;  2ZZD B;  2KMG A;  2UZE B;  3NDQ A;  2WFY B;  4ELL A;  4CFU D;  1QLB A;  4CXA B;  3X20 B;  2G77 A;  4F6W B;  5CYI B;  3BG9 A;  3A8G B;  3DOG B;  2WIH B;  4ELJ A;  2WMB B;  3X28 B;  2CZ6 B;  1IRE B;  2QFZ A;  2WHB B;  2C5X B;  1ZP2 A;  3DTO A;  1O9K A;  3VKG A;  4BCQ B;  5BNJ B;  1F5Q B;  3DL1 A;  1URC B;  2QQ8 A;  3TNW B;  1H28 B;  2PK2 A;  3A8O B;  4EC9 B;  4BBR M;  4ZGE B;  3M03 A;  3HZJ A;  3QHW B;  1TFB A;  2I40 B;  2R7G A;  4EC8 B;  4EOI B;  4YOO A;  4JX5 A;  3MIA B;  2PMI B;  4EOK B;  3X26 B;  4NST B;  1JKW A;  1OL2 B;  4BCM D;  2W99 A;  2LW4 A;  2UUE B;  2UZL B;  2V22 B;  3BHU B;  1OGU B;  3GTM S;  2WMA B;  5IDN B;  3PO3 S;  3A8L B;  1W98 B;  3EOC B;  2QGS A;  4ROD A;  4BCQ D;  3BG5 A;  3X24 B;  5LQF B;  4CFX B;  5HQ0 B;  4BCJ B;  2IN3 A;  4HNT A;  3TNH B;  3WVE B;  1FIN B;  3K7A M;  4EOS B;  5CEI B;  1G3N C;  3LQ5 B;  1GY3 B;  2WIP B;  1AD6 A;  1H26 B;  3RGF B;  4MFE A;  4AI6 A;  1OKW B;  3BHV B;  1TD6 A;  5EJC A;  1O9K B;  4EOQ B;  1AIS B;  1H1Q B;  4BCM B;  1N4M A;  3HBL A;  4CFM B;  2CCI B;  4AKI A;  1UGP B;  4KRD B;  5HBE B;  4HLQ A;  4AKH A;  5IHY A;  2QDJ A;  5ICP B;  1VOL A;  1GH6 B;  4CRL B;  2ZPI B;  3EJ1 B;  2ZCF B;  4BCN B;  4LOC A;  4M6V A;  3O0G D;  2C5V B;  2ZPF B;  2B9R A;  4II5 B;  2IVX A;  4BCO B;  4F6U B;  3F5X B;  5HBH B;  1E9H B;  1OIY B;  4F6S B;  4YC3 B;  3QWL A;  3POM A;  5IF1 B;  1H1P B;  5I5Z B;  2BS2 A;  2C6T B;  4F7J B;  2W96 A;  5EFQ B;  2CZ1 B;  4EOO B;  1GUX A;  2CZ0 B;  2W2H A;  1OKV B;  4AKG A;  4ROE A;  4HNV A;  2ZPE B;  1QMZ B;  2C4G B;  2WPA B;  2DD4 B;  4ROC A;  2ZPG B;  3HO8 A;  1ENW A;  4MFD A;  1H25 B;  2ZPH B;  4BCN D;  3MI9 B;  4BCI B;  2JGZ B;  4IMY B;  4ZGJ B;  3DDQ B;  4HL4 A;  1UGR B;  1H4L D;  1C9B A;  5DQW A;  1JOW A;  1KXU A;  3VYG B;  2W9Z A;  2D0Q B;  2BS3 A;  4G6L B;  1UGQ B;  2DXC B;  3QYB A;  3QXE B;  4MIM A;  4CFW B;  4OB3 B;  5FGK B;  3BHT B;  4F70 B;  1OL1 B;  4EOP B;  4FM4 B;  3BLQ B;  3KHI A;  5ACB A;  4BCP B;  4ZGD B;  2BPM B;  2WJ9 A;  2DD5 B;  3B57 A;  3BLR B;  1E7P A;  1UNL D;  4F7N B;  3DJB A;  1H1S B;  4OB1 B;  2WEV B;  2BS4 A;  4F7L B;  4BCF B;  5DQV A;  4UN0 A;  4BCH B;  1VIN A;  2AHJ B; 
#chains in the Genus database with same CATH homology
 3HB9 A;  3WVD B;  3QYE A;  2CZ0 B;  3BG5 A;  3X24 B;  4AKG A;  2ZZD B;  2KMG A;  3H4C A;  4HNV A;  2ZPE B;  4JX4 A;  2DD4 B;  2ZPG B;  1QLB A;  2CZ7 B;  3TW7 A;  3HO8 A;  3X20 B;  4HNT A;  4MFD A;  2G77 A;  3BG9 A;  2ZPH B;  2QF7 A;  3WVE B;  3QZ5 B;  3A8G B;  3QYH B;  4Z6Y A;  4MFE A;  3VYH B;  4ELJ A;  4AI6 A;  3X28 B;  4ZGJ B;  2CZ6 B;  4HL4 A;  1IRE B;  1UGR B;  2QFZ A;  3HHT B;  3QYG B;  3TW6 A;  5EJC A;  2DXB B;  2KR6 A;  3BG3 A;  3X25 B;  3HBL A;  3VKG A;  4AKI A;  3VYG B;  3DL1 A;  1UGP B;  4HNU A;  2D0Q B;  2BS3 A;  2QQ8 A;  4AKH A;  4HLQ A;  3QZ9 B;  1UGQ B;  3A8O B;  4BBR M;  2DXC B;  2QDJ A;  4OB0 B;  4ZGE B;  3QYB A;  3HZJ A;  3QXE B;  3VKH A;  2ZPI B;  4MIM A;  4OB3 B;  1V29 B;  2ZCF B;  4JX5 A;  4LOC A;  4M6V A;  4FM4 B;  3KHI A;  1UGS B;  4BBS M;  2ZPF B;  3X26 B;  4ZGD B;  2ZPB B;  2WJ9 A;  2DD5 B;  2DPP B;  4NC6 A;  1E7P A;  2QDY B;  3QWL A;  2CYZ B;  3A8M B;  4JX6 A;  4OB1 B;  2BS4 A;  2BS2 A;  1FKM A;  1AHJ B;  4QSH A;  2CZ1 B;  4OB2 B;  3A8H B;  3A8L B;  2AHJ B; 
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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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