1PCZ | Genus

Total Genus 50

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	50
sequence length	183
structure length	183
Chain Sequence	VDMSKVKLRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKYGLL

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

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Viewer cachePut cache://localLOAD_/file/5cfbc9a0a9fe6971e1f45c03/pdb.gz

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The Resolver thinks Pdb

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Time for openFile(/file/5cfbc9a0a9fe6971e1f45c03/pdb.gz): 1247 ms

reading 183 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

183 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 21 ms

Adding embedded #jmolscript: select ({0:182});backbone only;select *;

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

Genus data interpretation

Chord Diagram

molecule tags	Dna binding protein
source organism	Pyrococcus woesei
publication title	The crystal structure of a hyperthermophilic archaeal TATA-box binding protein. pubmed doi rcsb
molecule keywords	TATA-BINDING PROTEIN
total genus	50
structure length	183
sequence length	183
chains with identical sequence	B
ec nomenclature
pdb deposition date	1996-10-04

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00352	TBP	Transcription factor TFIID (or TATA-binding protein, TBP)

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	1pczA01
3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	1pczA02

2D0CA 3HS9A 4B0AA 1VOLB 1QNBA 3OCIA 1C9BB 1TGHA 4RODB 1AISA 2IV8A 1D3UA 1PCZA 3HS8A 1KY6A 2D0AA 1NGMA 1QNAA 4PY5A 5IYCP 5IYBP 1RM1A 1KYUA 1QTPA 1QN3A 1MP9A 2IV9A 4ROCB 1VTLE 1KY7A 3OC3C 3EIKA 1TBAB 2G30A 3H1ZA 1QNCA 2MJ7A 1CDWA 1QN7A 4WZSD 1YTBA 5IYDP 1TBPA 1JFIC 1QN9A 1YTFA 1QN8A 1VOKA 1KYDA 2VJ0A 1NH2A 1B9KA 1NVPA 1QN4A 2Z8UA 1KYFA 1QN6A 1VTOA 1PZDA 1R4XA 1E42A 3VN5A 4ROEB 1QTSA 1QN5A 2D0BA 3ASMA 1QNEA 1W80A
chains in the Genus database with same CATH superfamily

1V5SA 5AN4A 3EAYA 2QLVA 4TPSA 1C9BB 2OOYA 1Q9UA 4RODB 4I8OA 3OSEA 3D4VA 1D3UA 4EAJA 2Y8LA 1KY6A 5F9CA 1N3AA 3CWSA 3TDHA 5IYBP 1M5Q1 3OLPA 1QTPA 1QN3A 3OH9A 2V8QA 4EAGA 4ROCB 1YQMA 3SNSA 2V9JA 3EIKA 1HU0A 2FKFA 4C7PA 2HZSA 2MJ7A 1QN7A 3F10A 4EAIA 4WZSD 1QN9A 3T4NA 3OSMA 2NVMA 1YTFA 1QN8A 2DKDA 1VOKA 1UL7A 2JOIA 1NH2A 1M3QA 2FUVA 1QN4A 4MRQA 1C47A 2I5WA 3BKQX 1VTOA 1PZDA 1R4XA 1K2YX 4Q11A 5HSHA 3C04A 1K35A 2V92A 5BMPA 1P5GX 3HS9A 2JPIA 5KL0A 3RPJA 1PVSA 3CVSA 1FN7A 2O3OA 1JDYA 5JMVD 2D0AA 3PDKA 1NGMA 4PY5A 2NLVA 2PWWA 3CWUA 2FKMX 2EHBD 2JHJA 1YQKA 1MP9A 2IV9A 1DIZA 1T6AA 2QRDA 2H4LX 2FGTA 4HJHA 4EAKA 1TBAB 4IL8A 3H1ZA 4EALA 4D7RA 2MZ8A 1CDWA 1YTBA 4WX8A 3F0ZA 1P5DX 2HZMA 1KYDA 1B9KA 1QN6A 2DKAA 1UT4A 3VN5A 2YH5A 1MPGA 1TUOA 2DKCA 3RSMA 3ASMA 1KFIA 3I3WA 1C4GA 1QNEA 1TGHA 2HL8A 2D0CA 4B0AA 1VOLB 2QRCA 3OSTA 3D7QA 3ENOC 2NWVA 1QNAA 1YQLA 1KYUA 4CFFA 2NOBA 3I0XA 3CVTA 2F7LA 1VTLE 1J3MA 1VKLA 1WQAA 4EJZA 5BMNA 2G30A 1QNCA 2XHIA 1YQRA 4BJUA 5IYDP 1TBPA 1JFIC 2QREA 1N39A 3UW2A 5JN5A 3N89A 2NOLA 2VJ0A 1NVPA 2Z0FA 2Z8UA 3IH7A 1LWWA 3TE5A 1LWYA 1E42A 4ROEB 1KY7A 1KO9A 3ENCA 2NOZA 1W80A 1M3HA 1PCMX 2YA3A 4EJYA 3DPTA 3CW7A 1QNBA 1LXTA 3NA5A 3OCIA 3KTUA 2NOFA 1AISA 2IV8A 4WXAA 3CWAA 3ULXA 1XSZA 2H5AX 5EPCA 1PCZA 2JHNA 3HS8A 2OOXA 2HL9A 2LAEA 3PMGA 5IYCP 1RM1A 2NOIA 2ZFDB 3I0WA 2HKPA 2Y8QA 1WJWA 1EUVA 3OC3C 2NOHA 2R5XA 1LWVA 2NOEA 1UT7A 1N3CA 3CWTA 4DULA 3DPUA 3OGDA 1PCJX 1EBMA 4D7QA 1KYFA 1QN5A 2QR1A 1KFQA 1QTSA 2D0BA 3OH6A 4QG5A 3KRMA
chains in the Genus database with same CATH topology

5AN4A 4TPSA 1C9BB 4RODB 4I8OA 1D3UA 1KY6A 1N3AA 5IYBP 1QTPA 1QN3A 4ROCB 1YQMA 3SNSA 3EIKA 1HU0A 2HZSA 2MJ7A 1QN7A 3F10A 4WZSD 1QN9A 1YTFA 3OSMA 1QN8A 1VOKA 2JOIA 1NH2A 1M3QA 1QN4A 2I5WA 1VTOA 1PZDA 1R4XA 4Q11A 3HS9A 3RPJA 1FN7A 2O3OA 2D0AA 1NGMA 4PY5A 1YQKA 1MP9A 2IV9A 2FGTA 1TBAB 3H1ZA 1CDWA 2MZ8A 1YTBA 3F0ZA 2HZMA 1KYDA 1B9KA 1QN6A 1UT4A 3VN5A 2YH5A 3ASMA 1QNEA 1TGHA 2D0CA 4B0AA 1VOLB 3OSTA 1QNAA 1YQLA 1KYUA 2NOBA 3I0XA 1VTLE 4EJZA 2G30A 1QNCA 2XHIA 1YQRA 5IYDP 1TBPA 1JFIC 1N39A 2NOLA 3N89A 2VJ0A 1NVPA 2Z8UA 3IH7A 1LWWA 1LWYA 1E42A 4ROEB 1KY7A 1KO9A 2NOZA 1W80A 1M3HA 4EJYA 3DPTA 1QNBA 3OCIA 3KTUA 2NOFA 1AISA 2IV8A 3ULXA 1PCZA 3HS8A 2LAEA 5IYCP 1RM1A 2NOIA 3I0WA 3OC3C 2NOHA 1LWVA 2NOEA 1UT7A 1N3CA 4DULA 3DPUA 1EBMA 1KYFA 1QN5A 1QTSA 2D0BA 3KRMA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 2D0C A;  3HS9 A;  4B0A A;  1VOL B;  1QNB A;  3OCI A;  1C9B B;  1TGH A;  4ROD B;  1AIS A;  2IV8 A;  1D3U A;  1PCZ A;  3HS8 A;  1KY6 A;  2D0A A;  1NGM A;  1QNA A;  4PY5 A;  5IYC P;  5IYB P;  1RM1 A;  1KYU A;  1QTP A;  1QN3 A;  1MP9 A;  2IV9 A;  4ROC B;  1VTL E;  1KY7 A;  3OC3 C;  3EIK A;  1TBA B;  2G30 A;  3H1Z A;  1QNC A;  2MJ7 A;  1CDW A;  1QN7 A;  4WZS D;  1YTB A;  5IYD P;  1TBP A;  1JFI C;  1QN9 A;  1YTF A;  1QN8 A;  1VOK A;  1KYD A;  2VJ0 A;  1NH2 A;  1B9K A;  1NVP A;  1QN4 A;  2Z8U A;  1KYF A;  1QN6 A;  1VTO A;  1PZD A;  1R4X A;  1E42 A;  3VN5 A;  4ROE B;  1QTS A;  1QN5 A;  2D0B A;  3ASM A;  1QNE A;  1W80 A; 
#chains in the Genus database with same CATH topology
 1V5S A;  5AN4 A;  3EAY A;  2QLV A;  4TPS A;  1C9B B;  2OOY A;  1Q9U A;  4ROD B;  4I8O A;  3OSE A;  3D4V A;  1D3U A;  4EAJ A;  2Y8L A;  1KY6 A;  5F9C A;  1N3A A;  3CWS A;  3TDH A;  5IYB P;  1M5Q 1;  3OLP A;  1QTP A;  1QN3 A;  3OH9 A;  2V8Q A;  4EAG A;  4ROC B;  1YQM A;  3SNS A;  2V9J A;  3EIK A;  1HU0 A;  2FKF A;  4C7P A;  2HZS A;  2MJ7 A;  1QN7 A;  3F10 A;  4EAI A;  4WZS D;  1QN9 A;  3T4N A;  3OSM A;  2NVM A;  1YTF A;  1QN8 A;  2DKD A;  1VOK A;  1UL7 A;  2JOI A;  1NH2 A;  1M3Q A;  2FUV A;  1QN4 A;  4MRQ A;  1C47 A;  2I5W A;  3BKQ X;  1VTO A;  1PZD A;  1R4X A;  1K2Y X;  4Q11 A;  5HSH A;  3C04 A;  1K35 A;  2V92 A;  5BMP A;  1P5G X;  3HS9 A;  2JPI A;  5KL0 A;  3RPJ A;  1PVS A;  3CVS A;  1FN7 A;  2O3O A;  1JDY A;  5JMV D;  2D0A A;  3PDK A;  1NGM A;  4PY5 A;  2NLV A;  2PWW A;  3CWU A;  2FKM X;  2EHB D;  2JHJ A;  1YQK A;  1MP9 A;  2IV9 A;  1DIZ A;  1T6A A;  2QRD A;  2H4L X;  2FGT A;  4HJH A;  4EAK A;  1TBA B;  4IL8 A;  3H1Z A;  4EAL A;  4D7R A;  2MZ8 A;  1CDW A;  1YTB A;  4WX8 A;  3F0Z A;  1P5D X;  2HZM A;  1KYD A;  1B9K A;  1QN6 A;  2DKA A;  1UT4 A;  3VN5 A;  2YH5 A;  1MPG A;  1TUO A;  2DKC A;  3RSM A;  3ASM A;  1KFI A;  3I3W A;  1C4G A;  1QNE A;  1TGH A;  2HL8 A;  2D0C A;  4B0A A;  1VOL B;  2QRC A;  3OST A;  3D7Q A;  3ENO C;  2NWV A;  1QNA A;  1YQL A;  1KYU A;  4CFF A;  2NOB A;  3I0X A;  3CVT A;  2F7L A;  1VTL E;  1J3M A;  1VKL A;  1WQA A;  4EJZ A;  5BMN A;  2G30 A;  1QNC A;  2XHI A;  1YQR A;  4BJU A;  5IYD P;  1TBP A;  1JFI C;  2QRE A;  1N39 A;  3UW2 A;  5JN5 A;  3N89 A;  2NOL A;  2VJ0 A;  1NVP A;  2Z0F A;  2Z8U A;  3IH7 A;  1LWW A;  3TE5 A;  1LWY A;  1E42 A;  4ROE B;  1KY7 A;  1KO9 A;  3ENC A;  2NOZ A;  1W80 A;  1M3H A;  1PCM X;  2YA3 A;  4EJY A;  3DPT A;  3CW7 A;  1QNB A;  1LXT A;  3NA5 A;  3OCI A;  3KTU A;  2NOF A;  1AIS A;  2IV8 A;  4WXA A;  3CWA A;  3ULX A;  1XSZ A;  2H5A X;  5EPC A;  1PCZ A;  2JHN A;  3HS8 A;  2OOX A;  2HL9 A;  2LAE A;  3PMG A;  5IYC P;  1RM1 A;  2NOI A;  2ZFD B;  3I0W A;  2HKP A;  2Y8Q A;  1WJW A;  1EUV A;  3OC3 C;  2NOH A;  2R5X A;  1LWV A;  2NOE A;  1UT7 A;  1N3C A;  3CWT A;  4DUL A;  3DPU A;  3OGD A;  1PCJ X;  1EBM A;  4D7Q A;  1KYF A;  1QN5 A;  2QR1 A;  1KFQ A;  1QTS A;  2D0B A;  3OH6 A;  4QG5 A;  3KRM A; 
#chains in the Genus database with same CATH homology
 5AN4 A;  4TPS A;  1C9B B;  4ROD B;  4I8O A;  1D3U A;  1KY6 A;  1N3A A;  5IYB P;  1QTP A;  1QN3 A;  4ROC B;  1YQM A;  3SNS A;  3EIK A;  1HU0 A;  2HZS A;  2MJ7 A;  1QN7 A;  3F10 A;  4WZS D;  1QN9 A;  1YTF A;  3OSM A;  1QN8 A;  1VOK A;  2JOI A;  1NH2 A;  1M3Q A;  1QN4 A;  2I5W A;  1VTO A;  1PZD A;  1R4X A;  4Q11 A;  3HS9 A;  3RPJ A;  1FN7 A;  2O3O A;  2D0A A;  1NGM A;  4PY5 A;  1YQK A;  1MP9 A;  2IV9 A;  2FGT A;  1TBA B;  3H1Z A;  1CDW A;  2MZ8 A;  1YTB A;  3F0Z A;  2HZM A;  1KYD A;  1B9K A;  1QN6 A;  1UT4 A;  3VN5 A;  2YH5 A;  3ASM A;  1QNE A;  1TGH A;  2D0C A;  4B0A A;  1VOL B;  3OST A;  1QNA A;  1YQL A;  1KYU A;  2NOB A;  3I0X A;  1VTL E;  4EJZ A;  2G30 A;  1QNC A;  2XHI A;  1YQR A;  5IYD P;  1TBP A;  1JFI C;  1N39 A;  2NOL A;  3N89 A;  2VJ0 A;  1NVP A;  2Z8U A;  3IH7 A;  1LWW A;  1LWY A;  1E42 A;  4ROE B;  1KY7 A;  1KO9 A;  2NOZ A;  1W80 A;  1M3H A;  4EJY A;  3DPT A;  1QNB A;  3OCI A;  3KTU A;  2NOF A;  1AIS A;  2IV8 A;  3ULX A;  1PCZ A;  3HS8 A;  2LAE A;  5IYC P;  1RM1 A;  2NOI A;  3I0W A;  3OC3 C;  2NOH A;  1LWV A;  2NOE A;  1UT7 A;  1N3C A;  4DUL A;  3DPU A;  1EBM A;  1KYF A;  1QN5 A;  1QTS A;  2D0B A;  3KRM 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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1PCZA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations