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
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 tags Transcription
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
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
3MY5B 2DD4B 3HBLA 1BU2A 3F5XB 1QMZB 3X28B 2C5XB 4OB1B 3PO3S 4AKGA 1H26B 4MFDA 4EOOB 3EOCB 3BLQB 4TTHA 1FKMA 2WMAB 2UZDB 3EIDB 5I5ZB 1GUXA 4Z6YA 1ZP2A 4BCND 4CFXB 1AISB 3KHIA 4HL4A 3TNWB 4BY7X 5DQWA 4F7LB 3QYHB 3K7AM 3MI9B 2QFZA 2WPAB 3POMA 1IREB 4EOLB 4YOOA 2QF7A 4BCNB 2CZ7B 2KR6A 4ZGEB 2ZPEB 4ELLA 4RODA 3A8LB 1VYWB 1OKVB 1H25B 2V22B 2WJ9A 4CFUD 5CEIB 1KXUA 2ZCFB 5HBEB 3DJBA 2PMIB 3GTMS 1JOWA 1TFBA 3A8MB 2WFYB 3WVDB 4F7NB 4EOIB 3M03A 3VYHB 5CYIB 3H4CA 4AI6A 5IHYA 1JSTB 3WVEB 4YOSA 4CRLB 1OKWB 4EOMB 2AHJB 1GUXB 3QWLA 2ZPHB 4II5B 3TNHB 4MFEA 5HNBB 2WHBB 4BBRM 4BCOB 5ICPB 4F6SB 4FM4B 2ZPFB 4OB0B 2W9ZA 1O9KA 4BCQD 2W9FA 2QDYB 2CYZB 3DOGB 2DPPB 4LOCA 2D0QB 1H1SB 4F7SB 1D3UB 4EORB 5DQVA 4BCQB 4BCGB 2IN3A 4NSTB 4F7JB 4CFNB 4EOPB 2QGSA 3HB9A 3QZ5B 2BPMB 3QHRB 3EJ1B 4ROCA 1FINB 1N4MA 2WEVB 3DDQB 3QYEA 5L2WB 1W98B 2BS4A 4BY1X 3A8HB 3QYBA 3BHUB 3A8OB 2KMGA 2IW9B 3BLHB 4CXAB 5ACBA 1E7PA 1P5EB 4EOKB 5HVYB 4CFWB 2DMEA 4BCPB 2QQ8A 5LMKB 1VOLA 4YOZA 2IW8B 2IVXA 4BXXX 4I3ZB 4JX5A 4CFVB 3DL1A 4F6UB 4BCIB 3NDQA 1O9KB 3G33B 2F2CA 5HQ0B 4F70B 2EUFA 4ZGDB 3HZJA 4KRCB 1ENWA 1G3NC 2C5OB 5HBJB 2PJQA 2WIHB 1UNLD 1GH6B 4CFUB 3TW6A 4ELJA 4EOJB 1QLBA 3VYGB 1UGRB 3QHWB 2WMBB 1H28B 2ZPBB 1URCB 2C5VB 4BCFB 2CZ6B 1TD6A 2UZLB 1H27B 1JSUB 3RGFB 2UZBB 2ZPIB 2W99A 2R7GA 3X24B 2ZPGB 2W96A 3TN8B 3MY1B 5IF1B 2DXBB 3BG3A 3O0GD 1AD6A 1OI9B 2PK2A 4EOSB 3TW7A 3QXEB 2I53A 4AKIA 2QDJA 4ZGJB 1H4LD 4EONB 3B57A 4OR5B 2CCHB 4FX3B 4ROEA 2DD5B 2C5NB 2LW4A 4EC9B 1V29B 2WIPB 3X26B 4CFMB 1F5QB 2G77A 3X20B 2PHGA 3X25B 1C9BA 2CJMB 2I40B 3QZ9B 2BS3A 3DDPB 3VKHA 4NC6A 4HNUA 1OIUB 2C6TB 2WXVB 2G9XB 1H1QB 2BS2A 4IMYB 1E9HB 3A8GB 4OB3B 1JKWA 4JX4A 4EC8B 4OB2B 3VKGA 1H24B 3BG9A 1XO2A 1UNGD 3BG5A 1OIYB 1UGQB 5LQFB 2CZ0B 4KRDB 5EFQB 3BHVB 1UGSB 5EJCA 2ZZDB 4QSHA 4BCJB 4AKHA 4MIMA 1H1RB 4HNTA 3HHTB 2UUEB 4YC3B 2DXCB 4OGRB 5BNJB 4BCMD 4EOQB 2UZEB 4JX6A 2C4GB 2IW6B 3MIAB 2BKZB 2X1NB 1H1PB 4BCHB 3TNIB 4BBSM 3HO8A 2CCIB 3LQ5B 2JGZB 2W2HA 4BCMB 1UNHD 4Y72B 4UN0A 1PKDB 1AHJB 3BHTB 4HNVA 4HLQA 2CZ1B 2PK9B 4G6LB 4M6VA 5IDPB 5HBHB 1GY3B 2B9RA 1FVVB 1OL2B 3DTOA 1VINA 5FGKB 1UGPB 1OL1B 3BLRB 4BCKB 5IDNB 1OGUB 3QYGB 4F6WB
chains in the Genus database with same CATH topology
2BS2A 4ZGDB 2AHJB 3A8GB 3HZJA 4OB3B 2DD4B 3QWLA 2ZPHB 4JX4A 3HBLA 4OB2B 3VKGA 3BG9A 4MFEA 4BBRM 3X28B 3TW6A 4ELJA 1QLBA 3VYGB 3BG5A 1UGRB 4OB1B 1UGQB 4AKGA 4FM4B 2CZ0B 2ZPFB 4OB0B 2ZPBB 4MFDA 2CZ6B 1FKMA 2QDYB 1UGSB 2CYZB 5EJCA 2ZZDB 4QSHA 2DPPB 2ZPIB 4LOCA 2D0QB 4AKHA 4MIMA 3X24B 4Z6YA 2ZPGB 4HNTA 3HHTB 2DXBB 3KHIA 4HL4A 2DXCB 4JX6A 3BG3A 3QYHB 2QFZA 3HB9A 3QZ5B 1IREB 3TW7A 3QXEB 4BBSM 2QF7A 2CZ7B 2KR6A 3HO8A 4ZGEB 4AKIA 2QDJA 3QYEA 2BS4A 2ZPEB 4ZGJB 3A8HB 3QYBA 3A8OB 3A8LB 2KMGA 1AHJB 2DD5B 2WJ9A 4HNVA 1E7PA 1V29B 2ZCFB 4HLQA 2CZ1B 3X26B 4M6VA 2QQ8A 3A8MB 2G77A 3X20B 3WVDB 4JX5A 3X25B 3VYHB 3DL1A 3QZ9B 2BS3A 1UGPB 3VKHA 3H4CA 4NC6A 4AI6A 4HNUA 3QYGB 3WVEB
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
 3MY5 B;  2DD4 B;  3HBL A;  1BU2 A;  3F5X B;  1QMZ B;  3X28 B;  2C5X B;  4OB1 B;  3PO3 S;  4AKG A;  1H26 B;  4MFD A;  4EOO B;  3EOC B;  3BLQ B;  4TTH A;  1FKM A;  2WMA B;  2UZD B;  3EID B;  5I5Z B;  1GUX A;  4Z6Y A;  1ZP2 A;  4BCN D;  4CFX B;  1AIS B;  3KHI A;  4HL4 A;  3TNW B;  4BY7 X;  5DQW A;  4F7L B;  3QYH B;  3K7A M;  3MI9 B;  2QFZ A;  2WPA B;  3POM A;  1IRE B;  4EOL B;  4YOO A;  2QF7 A;  4BCN B;  2CZ7 B;  2KR6 A;  4ZGE B;  2ZPE B;  4ELL A;  4ROD A;  3A8L B;  1VYW B;  1OKV B;  1H25 B;  2V22 B;  2WJ9 A;  4CFU D;  5CEI B;  1KXU A;  2ZCF B;  5HBE B;  3DJB A;  2PMI B;  3GTM S;  1JOW A;  1TFB A;  3A8M B;  2WFY B;  3WVD B;  4F7N B;  4EOI B;  3M03 A;  3VYH B;  5CYI B;  3H4C A;  4AI6 A;  5IHY A;  1JST B;  3WVE B;  4YOS A;  4CRL B;  1OKW B;  4EOM B;  2AHJ B;  1GUX B;  3QWL A;  2ZPH B;  4II5 B;  3TNH B;  4MFE A;  5HNB B;  2WHB B;  4BBR M;  4BCO B;  5ICP B;  4F6S B;  4FM4 B;  2ZPF B;  4OB0 B;  2W9Z A;  1O9K A;  4BCQ D;  2W9F A;  2QDY B;  2CYZ B;  3DOG B;  2DPP B;  4LOC A;  2D0Q B;  1H1S B;  4F7S B;  1D3U B;  4EOR B;  5DQV A;  4BCQ B;  4BCG B;  2IN3 A;  4NST B;  4F7J B;  4CFN B;  4EOP B;  2QGS A;  3HB9 A;  3QZ5 B;  2BPM B;  3QHR B;  3EJ1 B;  4ROC A;  1FIN B;  1N4M A;  2WEV B;  3DDQ B;  3QYE A;  5L2W B;  1W98 B;  2BS4 A;  4BY1 X;  3A8H B;  3QYB A;  3BHU B;  3A8O B;  2KMG A;  2IW9 B;  3BLH B;  4CXA B;  5ACB A;  1E7P A;  1P5E B;  4EOK B;  5HVY B;  4CFW B;  2DME A;  4BCP B;  2QQ8 A;  5LMK B;  1VOL A;  4YOZ A;  2IW8 B;  2IVX A;  4BXX X;  4I3Z B;  4JX5 A;  4CFV B;  3DL1 A;  4F6U B;  4BCI B;  3NDQ A;  1O9K B;  3G33 B;  2F2C A;  5HQ0 B;  4F70 B;  2EUF A;  4ZGD B;  3HZJ A;  4KRC B;  1ENW A;  1G3N C;  2C5O B;  5HBJ B;  2PJQ A;  2WIH B;  1UNL D;  1GH6 B;  4CFU B;  3TW6 A;  4ELJ A;  4EOJ B;  1QLB A;  3VYG B;  1UGR B;  3QHW B;  2WMB B;  1H28 B;  2ZPB B;  1URC B;  2C5V B;  4BCF B;  2CZ6 B;  1TD6 A;  2UZL B;  1H27 B;  1JSU B;  3RGF B;  2UZB B;  2ZPI B;  2W99 A;  2R7G A;  3X24 B;  2ZPG B;  2W96 A;  3TN8 B;  3MY1 B;  5IF1 B;  2DXB B;  3BG3 A;  3O0G D;  1AD6 A;  1OI9 B;  2PK2 A;  4EOS B;  3TW7 A;  3QXE B;  2I53 A;  4AKI A;  2QDJ A;  4ZGJ B;  1H4L D;  4EON B;  3B57 A;  4OR5 B;  2CCH B;  4FX3 B;  4ROE A;  2DD5 B;  2C5N B;  2LW4 A;  4EC9 B;  1V29 B;  2WIP B;  3X26 B;  4CFM B;  1F5Q B;  2G77 A;  3X20 B;  2PHG A;  3X25 B;  1C9B A;  2CJM B;  2I40 B;  3QZ9 B;  2BS3 A;  3DDP B;  3VKH A;  4NC6 A;  4HNU A;  1OIU B;  2C6T B;  2WXV B;  2G9X B;  1H1Q B;  2BS2 A;  4IMY B;  1E9H B;  3A8G B;  4OB3 B;  1JKW A;  4JX4 A;  4EC8 B;  4OB2 B;  3VKG A;  1H24 B;  3BG9 A;  1XO2 A;  1UNG D;  3BG5 A;  1OIY B;  1UGQ B;  5LQF B;  2CZ0 B;  4KRD B;  5EFQ B;  3BHV B;  1UGS B;  5EJC A;  2ZZD B;  4QSH A;  4BCJ B;  4AKH A;  4MIM A;  1H1R B;  4HNT A;  3HHT B;  2UUE B;  4YC3 B;  2DXC B;  4OGR B;  5BNJ B;  4BCM D;  4EOQ B;  2UZE B;  4JX6 A;  2C4G B;  2IW6 B;  3MIA B;  2BKZ B;  2X1N B;  1H1P B;  4BCH B;  3TNI B;  4BBS M;  3HO8 A;  2CCI B;  3LQ5 B;  2JGZ B;  2W2H A;  4BCM B;  1UNH D;  4Y72 B;  4UN0 A;  1PKD B;  1AHJ B;  3BHT B;  4HNV A;  4HLQ A;  2CZ1 B;  2PK9 B;  4G6L B;  4M6V A;  5IDP B;  5HBH B;  1GY3 B;  2B9R A;  1FVV B;  1OL2 B;  3DTO A;  1VIN A;  5FGK B;  1UGP B;  1OL1 B;  3BLR B;  4BCK B;  5IDN B;  1OGU B;  3QYG B;  4F6W B; 
#chains in the Genus database with same CATH homology
 2BS2 A;  4ZGD B;  2AHJ B;  3A8G B;  3HZJ A;  4OB3 B;  2DD4 B;  3QWL A;  2ZPH B;  4JX4 A;  3HBL A;  4OB2 B;  3VKG A;  3BG9 A;  4MFE A;  4BBR M;  3X28 B;  3TW6 A;  4ELJ A;  1QLB A;  3VYG B;  3BG5 A;  1UGR B;  4OB1 B;  1UGQ B;  4AKG A;  4FM4 B;  2CZ0 B;  2ZPF B;  4OB0 B;  2ZPB B;  4MFD A;  2CZ6 B;  1FKM A;  2QDY B;  1UGS B;  2CYZ B;  5EJC A;  2ZZD B;  4QSH A;  2DPP B;  2ZPI B;  4LOC A;  2D0Q B;  4AKH A;  4MIM A;  3X24 B;  4Z6Y A;  2ZPG B;  4HNT A;  3HHT B;  2DXB B;  3KHI A;  4HL4 A;  2DXC B;  4JX6 A;  3BG3 A;  3QYH B;  2QFZ A;  3HB9 A;  3QZ5 B;  1IRE B;  3TW7 A;  3QXE B;  4BBS M;  2QF7 A;  2CZ7 B;  2KR6 A;  3HO8 A;  4ZGE B;  4AKI A;  2QDJ A;  3QYE A;  2BS4 A;  2ZPE B;  4ZGJ B;  3A8H B;  3QYB A;  3A8O B;  3A8L B;  2KMG A;  1AHJ B;  2DD5 B;  2WJ9 A;  4HNV A;  1E7P A;  1V29 B;  2ZCF B;  4HLQ A;  2CZ1 B;  3X26 B;  4M6V A;  2QQ8 A;  3A8M B;  2G77 A;  3X20 B;  3WVD B;  4JX5 A;  3X25 B;  3VYH B;  3DL1 A;  3QZ9 B;  2BS3 A;  1UGP B;  3VKH A;  3H4C A;  4NC6 A;  4AI6 A;  4HNU A;  3QYG B;  3WVE 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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