Citrus Sinensis ID: 009716
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 528 | 2.2.26 [Sep-21-2011] | |||||||
| O74462 | 452 | Transcription initiation | yes | no | 0.691 | 0.807 | 0.438 | 3e-87 | |
| Q91857 | 618 | Transcription initiation | N/A | no | 0.651 | 0.556 | 0.391 | 5e-74 | |
| Q62311 | 678 | Transcription initiation | yes | no | 0.653 | 0.508 | 0.377 | 2e-72 | |
| Q63801 | 678 | Transcription initiation | no | no | 0.653 | 0.508 | 0.377 | 2e-72 | |
| P49848 | 677 | Transcription initiation | yes | no | 0.653 | 0.509 | 0.374 | 4e-72 | |
| P49847 | 606 | Transcription initiation | yes | no | 0.674 | 0.587 | 0.388 | 3e-69 | |
| P53040 | 516 | Transcription initiation | yes | no | 0.638 | 0.653 | 0.365 | 3e-66 | |
| Q8R2K4 | 616 | TAF6-like RNA polymerase | no | no | 0.660 | 0.566 | 0.305 | 2e-39 | |
| Q9Y6J9 | 622 | TAF6-like RNA polymerase | no | no | 0.660 | 0.561 | 0.302 | 7e-38 |
| >sp|O74462|TAF6_SCHPO Transcription initiation factor TFIID subunit 6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=taf6 PE=1 SV=1 | Back alignment and function desciption |
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Score = 323 bits (827), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 174/397 (43%), Positives = 254/397 (63%), Gaps = 32/397 (8%)
Query: 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66
E+I+ +A+ +G+ NL+ + A A+A D+EYR+ +++QEA K M H+ RTVLT+ D+ SAL
Sbjct: 9 ESIKDVAEMLGIGNLADEPAAAIAMDLEYRIHQVVQEATKFMVHSKRTVLTSADISSALR 68
Query: 67 LRNVEPIYGFASGDSLRFKRAS---GLKDLYYIDDKDVELRNVIETPLPKAPLDTSVAVH 123
NVEP+YGF + L F A+ G LYY+DD++V+ +I PLPK P + S + H
Sbjct: 69 TLNVEPLYGFNNSRPLEFHEAAVGAGQNSLYYLDDEEVDFEKIINAPLPKVPRNISYSAH 128
Query: 124 WLAIEGVQPAIPEN-APVD------------AVSDGRRSEYRE--DGIS----VDIRLPV 164
WLAIEGVQPAIP+N P D V G + +E +G++ V+I+ V
Sbjct: 129 WLAIEGVQPAIPQNPTPSDHTVGEWASKGTSGVMPGASTAAKEARNGVTSMDNVEIKPLV 188
Query: 165 KHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSL 224
+HVLSKELQLYF++I + +N + AL SL D GLH L+PYF F+S+ VTR+L
Sbjct: 189 RHVLSKELQLYFERITSALLDETNVELRDAALSSLRDDPGLHQLLPYFIMFLSDSVTRNL 248
Query: 225 KNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDN-HWDLRNFV 283
N +L LM +A +LL NP++ +EPY+ Q+MPS++TCLV+KRLG+ +++ H+ LR+
Sbjct: 249 GNLVVLTTLMHMAWALLDNPNLFVEPYVQQLMPSILTCLVAKRLGSDPNNHEHYALRDLA 308
Query: 284 ADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLIL 343
A L+ +C RFG+VY L+ RVTRT L AFLD TK S HYGAI+GL +G + +L++
Sbjct: 309 AFLLGIVCDRFGNVYYTLKPRVTRTALKAFLDNTKPYSTHYGAIKGLKTMGKEAIRVLVV 368
Query: 344 PNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQC 380
PN+++Y E+L+ K + E +Y A +C
Sbjct: 369 PNIKVY------EVLVRKTLEKGNEEE---IYEANKC 396
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TAFs are components of the transcription factor IID (TFIID) complex that are essential for mediating regulation of RNA polymerase transcription. Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812) |
| >sp|Q91857|TAF6_XENLA Transcription initiation factor TFIID subunit 6 OS=Xenopus laevis GN=taf6 PE=2 SV=3 | Back alignment and function description |
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| >sp|Q62311|TAF6_MOUSE Transcription initiation factor TFIID subunit 6 OS=Mus musculus GN=Taf6 PE=2 SV=1 | Back alignment and function description |
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| >sp|Q63801|TAF6_RAT Transcription initiation factor TFIID subunit 6 OS=Rattus norvegicus GN=Taf6 PE=2 SV=1 | Back alignment and function description |
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| >sp|P49848|TAF6_HUMAN Transcription initiation factor TFIID subunit 6 OS=Homo sapiens GN=TAF6 PE=1 SV=1 | Back alignment and function description |
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| >sp|P49847|TAF6_DROME Transcription initiation factor TFIID subunit 6 OS=Drosophila melanogaster GN=Taf6 PE=1 SV=2 | Back alignment and function description |
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| >sp|P53040|TAF6_YEAST Transcription initiation factor TFIID subunit 6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TAF6 PE=1 SV=1 | Back alignment and function description |
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| >sp|Q8R2K4|TAF6L_MOUSE TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L OS=Mus musculus GN=Taf6l PE=2 SV=1 | Back alignment and function description |
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| >sp|Q9Y6J9|TAF6L_HUMAN TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L OS=Homo sapiens GN=TAF6L PE=1 SV=1 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 528 | ||||||
| 297737507 | 547 | unnamed protein product [Vitis vinifera] | 0.998 | 0.963 | 0.702 | 0.0 | |
| 225460839 | 543 | PREDICTED: transcription initiation fact | 0.998 | 0.970 | 0.705 | 0.0 | |
| 224056415 | 529 | predicted protein [Populus trichocarpa] | 0.971 | 0.969 | 0.685 | 0.0 | |
| 225446952 | 543 | PREDICTED: transcription initiation fact | 0.998 | 0.970 | 0.645 | 0.0 | |
| 115436920 | 541 | Os01g0510800 [Oryza sativa Japonica Grou | 1.0 | 0.975 | 0.635 | 0.0 | |
| 357157836 | 545 | PREDICTED: transcription initiation fact | 0.992 | 0.961 | 0.621 | 0.0 | |
| 219887973 | 545 | unknown [Zea mays] gi|413956299|gb|AFW88 | 1.0 | 0.968 | 0.625 | 0.0 | |
| 326488229 | 547 | predicted protein [Hordeum vulgare subsp | 0.994 | 0.959 | 0.627 | 0.0 | |
| 356499648 | 544 | PREDICTED: transcription initiation fact | 1.0 | 0.970 | 0.648 | 0.0 | |
| 449444699 | 543 | PREDICTED: transcription initiation fact | 0.990 | 0.963 | 0.636 | 0.0 |
| >gi|297737507|emb|CBI26708.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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Score = 782 bits (2019), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 385/548 (70%), Positives = 447/548 (81%), Gaps = 21/548 (3%)
Query: 1 MSIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTAND 60
MSIVPKETIEVIAQSIG+ N S DVA ALA DVEYRVREIMQEAIKCMRH+ RT+LT ND
Sbjct: 1 MSIVPKETIEVIAQSIGISNFSPDVAPALATDVEYRVREIMQEAIKCMRHSKRTILTVND 60
Query: 61 VDSALNLRNVEPIYGFASGDSLRFKRASGLKDLYYIDDKDVELRNVIETPLPKAPLDTSV 120
VDSAL LRNVEP+YGF SG +FKRA+G KDL+Y+DDKDVE +++IE PLPK PLDT V
Sbjct: 61 VDSALKLRNVEPLYGFTSGGPRQFKRAAGHKDLFYVDDKDVEFKDLIEAPLPKTPLDTGV 120
Query: 121 AVHWLAIEGVQPAIPENAPVDAV---SDGRRSEYREDGISVDIRLPVKHVLSKELQLYFD 177
HWLAIEGVQPAI ENAP++A+ SD ++SEY+EDG+ VD +LPVKHVLS+ELQLYFD
Sbjct: 121 ITHWLAIEGVQPAISENAPIEALAVPSDNKKSEYKEDGLPVDTKLPVKHVLSRELQLYFD 180
Query: 178 KIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVA 237
KI+ELT+SRS+S +FK+AL+SLA DSG+HPLVPYFTYFI++EVTR+L +FS+LFALMRVA
Sbjct: 181 KIKELTLSRSDSILFKEALVSLATDSGIHPLVPYFTYFIADEVTRNLNDFSILFALMRVA 240
Query: 238 RSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHV 297
RSLL+N IHIEPYLHQ+MPS+ITCLV+KRLG+RFSDNHW+LR+F A+L+AS+C R+GHV
Sbjct: 241 RSLLQNQQIHIEPYLHQLMPSIITCLVAKRLGSRFSDNHWELRSFTANLVASVCKRYGHV 300
Query: 298 YQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEM 357
Y NLQ RVTRTLLHAFLDPTK+L QHYGAIQGLAA GPSVV LLILPNLE YL+ LEPEM
Sbjct: 301 YHNLQPRVTRTLLHAFLDPTKALPQHYGAIQGLAAFGPSVVRLLILPNLEPYLRLLEPEM 360
Query: 358 LLEKQKNEMKRHEAWRVYGALQCAAGLCVYDRLKTV--LLRPPKQSRWESNRK------- 408
LEKQKN MKRHEAWRVYGAL CAAG C+YDRLKT LL PP ++ +SN+K
Sbjct: 361 QLEKQKNGMKRHEAWRVYGALLCAAGTCMYDRLKTFPNLLSPPTRAILKSNKKILPTKPK 420
Query: 409 ---GKRKASMDNLMLQPPVKKMATLGPMGVMPVNSMAVNMQGPSGGFSTPVEGPRAGV-- 463
GKRKAS DNLM QPP+KK+AT G MGVMP+NS+AV+ QG +GGFST + V
Sbjct: 421 INPGKRKASTDNLMQQPPLKKLATDGSMGVMPINSLAVDKQGLTGGFSTSTAVGSSDVGL 480
Query: 464 -SMLRHLQNEKML--RREVSNQALKTSTVLAQAWKEDAEGGHLLASLYELFGESMFSFTR 520
SM + L +E + RREV +ALK S VLAQAWK D G L ASL+E FGESMF FT
Sbjct: 481 SSMSQQLASENISGGRREVGTRALKASAVLAQAWK-DVNAGQLSASLFEYFGESMFCFTP 539
Query: 521 KSELYFFL 528
EL FL
Sbjct: 540 SPELSLFL 547
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Source: Vitis vinifera Species: Vitis vinifera Genus: Vitis Family: Vitaceae Order: Vitales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|225460839|ref|XP_002276969.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|224056415|ref|XP_002298845.1| predicted protein [Populus trichocarpa] gi|222846103|gb|EEE83650.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|225446952|ref|XP_002264290.1| PREDICTED: transcription initiation factor TFIID subunit 6 [Vitis vinifera] gi|297739126|emb|CBI28777.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|115436920|ref|NP_001043168.1| Os01g0510800 [Oryza sativa Japonica Group] gi|20804496|dbj|BAB92191.1| putative TAF6 [Oryza sativa Japonica Group] gi|113532699|dbj|BAF05082.1| Os01g0510800 [Oryza sativa Japonica Group] gi|215768003|dbj|BAH00232.1| unnamed protein product [Oryza sativa Japonica Group] gi|222618539|gb|EEE54671.1| hypothetical protein OsJ_01969 [Oryza sativa Japonica Group] | Back alignment and taxonomy information |
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| >gi|357157836|ref|XP_003577929.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Brachypodium distachyon] | Back alignment and taxonomy information |
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| >gi|219887973|gb|ACL54361.1| unknown [Zea mays] gi|413956299|gb|AFW88948.1| putative TATA binding protein family protein [Zea mays] | Back alignment and taxonomy information |
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| >gi|326488229|dbj|BAJ93783.1| predicted protein [Hordeum vulgare subsp. vulgare] | Back alignment and taxonomy information |
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| >gi|356499648|ref|XP_003518649.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|449444699|ref|XP_004140111.1| PREDICTED: transcription initiation factor TFIID subunit 6-like [Cucumis sativus] | Back alignment and taxonomy information |
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Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 528 | ||||||
| TAIR|locus:2010667 | 549 | TAFII59 "TATA BOX ASSOCIATED F | 0.823 | 0.792 | 0.645 | 2.6e-160 | |
| DICTYBASE|DDB_G0288471 | 542 | taf6 "TATA-binding protein-ass | 0.426 | 0.415 | 0.475 | 1.2e-89 | |
| ASPGD|ASPL0000017134 | 445 | AN8232 [Emericella nidulans (t | 0.702 | 0.833 | 0.394 | 4.3e-70 | |
| UNIPROTKB|Q91857 | 618 | taf6 "Transcription initiation | 0.446 | 0.381 | 0.376 | 2.2e-68 | |
| CGD|CAL0005584 | 519 | TAF60 [Candida albicans (taxid | 0.390 | 0.396 | 0.371 | 3.4e-65 | |
| UNIPROTKB|Q5A2V7 | 519 | TAF6 "Putative uncharacterized | 0.390 | 0.396 | 0.371 | 3.4e-65 | |
| FB|FBgn0010417 | 606 | Taf6 "TBP-associated factor 6" | 0.380 | 0.331 | 0.414 | 1.1e-63 | |
| SGD|S000003080 | 516 | TAF6 "Subunit (60 kDa) of TFII | 0.441 | 0.451 | 0.355 | 5.8e-62 | |
| POMBASE|SPCC16C4.18c | 452 | taf6 "histone H4-like TAF Taf6 | 0.592 | 0.692 | 0.380 | 1.3e-50 | |
| UNIPROTKB|G8JLM6 | 601 | TAF6 "Transcription initiation | 0.443 | 0.389 | 0.366 | 8.8e-49 |
| TAIR|locus:2010667 TAFII59 "TATA BOX ASSOCIATED FACTOR II 59" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 1456 (517.6 bits), Expect = 2.6e-160, Sum P(2) = 2.6e-160
Identities = 289/448 (64%), Positives = 352/448 (78%)
Query: 1 MSIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTAND 60
MSIVPKET+EVIAQSIG+ NL + AL LAPDVEYRVREIMQEAIKCMRH+ RT LTA+D
Sbjct: 1 MSIVPKETVEVIAQSIGITNLLPEAALMLAPDVEYRVREIMQEAIKCMRHSKRTTLTASD 60
Query: 61 VDSALNLRNVEPIYGFASGDSLRFKRASGLKDLYYIDDKDVELRNVIETPLPKAPLDTSV 120
VD ALNLRNVEPIYGFASG RF++A G +DL+Y DD++V+ ++VIE PLPKAPLDT +
Sbjct: 61 VDGALNLRNVEPIYGFASGGPFRFRKAIGHRDLFYTDDREVDFKDVIEAPLPKAPLDTEI 120
Query: 121 AVHWLAIEGVQPAIPENAPVDAVSDGRRSEYRE--DGISVDIRLPVKHVLSKELQLYFDK 178
HWLAIEGVQPAIPENAP++ + ++ E DG +D+RLPVKHVLS+ELQLYF K
Sbjct: 121 VCHWLAIEGVQPAIPENAPLEVIRAPAETKIHEQKDGPLIDVRLPVKHVLSRELQLYFQK 180
Query: 179 IRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVAR 238
I EL +S+SN ++K+AL+SLA DSGLHPLVPYFT FI++EV+ L +F LLF LM + R
Sbjct: 181 IAELAMSKSNPPLYKEALVSLASDSGLHPLVPYFTNFIADEVSNGLNDFRLLFNLMHIVR 240
Query: 239 SLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVY 298
SLL+NPHIHIEPYLHQ+MPSV+TCLVS++LGNRF+DNHW+LR+F A+L++ IC R+G VY
Sbjct: 241 SLLQNPHIHIEPYLHQLMPSVVTCLVSRKLGNRFADNHWELRDFAANLVSLICKRYGTVY 300
Query: 299 QNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEML 358
LQSR+TRTL++A LDP K+L+QHYGAIQGLAALG +VV LLIL NLE YL LEPE+
Sbjct: 301 ITLQSRLTRTLVNALLDPKKALTQHYGAIQGLAALGHTVVRLLILSNLEPYLSLLEPELN 360
Query: 359 LEKQKNEMKRHEAWRVYGALQCAAGLCVYDRLKTVLLRP-PKQSRWESNR-KGK------ 410
EKQKN+MK +EAWRVYGAL AAGLC++ RLK P P S + KGK
Sbjct: 361 AEKQKNQMKIYEAWRVYGALLRAAGLCIHGRLKIFPPLPSPSPSFLHKGKGKGKIISTDP 420
Query: 411 --RKASMDNLMLQPPVKKMATL-GPMGV 435
RK S+D+ Q P K++ T+ GP GV
Sbjct: 421 HKRKLSVDSSENQSPQKRLITMDGPDGV 448
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| DICTYBASE|DDB_G0288471 taf6 "TATA-binding protein-associated-factor" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
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| ASPGD|ASPL0000017134 AN8232 [Emericella nidulans (taxid:162425)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q91857 taf6 "Transcription initiation factor TFIID subunit 6" [Xenopus laevis (taxid:8355)] | Back alignment and assigned GO terms |
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| CGD|CAL0005584 TAF60 [Candida albicans (taxid:5476)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q5A2V7 TAF6 "Putative uncharacterized protein TAF6" [Candida albicans SC5314 (taxid:237561)] | Back alignment and assigned GO terms |
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| FB|FBgn0010417 Taf6 "TBP-associated factor 6" [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
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| SGD|S000003080 TAF6 "Subunit (60 kDa) of TFIID and SAGA complexes" [Saccharomyces cerevisiae (taxid:4932)] | Back alignment and assigned GO terms |
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| POMBASE|SPCC16C4.18c taf6 "histone H4-like TAF Taf6, SAGA complex subunit" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
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| UNIPROTKB|G8JLM6 TAF6 "Transcription initiation factor TFIID subunit 6" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
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Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
No confident hit for EC number transfering in SWISSPROT detected by BLAST
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
No EC number assignment, probably not an enzyme!
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 528 | |||
| cd08050 | 343 | cd08050, TAF6, TATA Binding Protein (TBP) Associat | 1e-150 | |
| COG5095 | 450 | COG5095, TAF6, Transcription initiation factor TFI | 1e-114 | |
| pfam07571 | 92 | pfam07571, DUF1546, Protein of unknown function (D | 4e-36 | |
| pfam02969 | 66 | pfam02969, TAF, TATA box binding protein associate | 7e-27 | |
| smart00803 | 65 | smart00803, TAF, TATA box binding protein associat | 1e-25 | |
| COG2036 | 91 | COG2036, HHT1, Histones H3 and H4 [Chromatin struc | 2e-04 | |
| pfam00125 | 75 | pfam00125, Histone, Core histone H2A/H2B/H3/H4 | 7e-04 |
| >gnl|CDD|173968 cd08050, TAF6, TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
Score = 434 bits (1117), Expect = e-150
Identities = 183/344 (53%), Positives = 246/344 (71%), Gaps = 11/344 (3%)
Query: 5 PKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSA 64
P+E+I++IA+S+G+ +LS +VA LA DVEYR+REI+QEA K MRH+ R LT +DV+ A
Sbjct: 1 PQESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHA 60
Query: 65 LNLRNVEPIYGFASGDSLRFKRASGL-KDLYYIDDKDVELRNVIETPLPKAPLDTSVAVH 123
L LRNVEP+YGF+S + L F+ ++G ++LYY++DK+++L+++I TPLPK PLD SV H
Sbjct: 61 LRLRNVEPLYGFSSSEPLPFRVSTGGGQELYYVEDKEIDLKDLINTPLPKVPLDVSVKAH 120
Query: 124 WLAIEGVQPAIPENAPVDAVSDGRRSEYREDGI-------SVDIRLPVKHVLSKELQLYF 176
WLAIEGVQP IPEN P A+ ++ + V ++ V+HVLSKELQLYF
Sbjct: 121 WLAIEGVQPLIPENPPPSAIEVQKKESLANAAVKRLKKDEQVLLKPLVRHVLSKELQLYF 180
Query: 177 DKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLK-NFSLLFALMR 235
++I E V SN ++AL SL D GL L+PYF FI+E VT +L N +LL LMR
Sbjct: 181 EEITEALVG-SNEEKRREALQSLRTDPGLQQLLPYFVRFIAEGVTVNLDQNLALLIYLMR 239
Query: 236 VARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRF-SDNHWDLRNFVADLIASICTRF 294
+ R+LL NP++H+EPYLHQ++PSV+TCLV+K+L +R DNHW LR++ A L+A IC +F
Sbjct: 240 MVRALLDNPNLHLEPYLHQLIPSVLTCLVAKQLCSRPPDDNHWALRDYAARLLAQICRKF 299
Query: 295 GHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVV 338
Y LQ R+TRTLL A LDP K L+ HYGAI GL+ALGP V
Sbjct: 300 STSYNTLQPRITRTLLKALLDPKKPLTTHYGAIVGLSALGPEAV 343
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The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as activator-binding sites, core-promoter recognition or a role in essential catalytic activity. These TAFs, with the help of specific activators, are required only for expression of a subset of genes and are not universally involved for transcription as are GTFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. Several TAFs interact via histone-fold (HFD) motifs; the HFD is the interaction motif involved in heterodimerization of the core histones and their assembly into nucleosome octamers. The minimal HFD contains three alpha-helices linked by two loops and is found in core histones, TAFs and many other transcription factors. TFIID has a histone octamer-like substructure. TAF6 is a shared subunit of histone acetyltransferase complex SAGA and TFIID complexes. TAF6 domain interacts with TAF9 and makes a novel histone-like heterodimer that is structurally related to histones H4 and H3. TAF6 may also interact with the downstream core promoter element (DPE). Length = 343 |
| >gnl|CDD|227426 COG5095, TAF6, Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
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| >gnl|CDD|203686 pfam07571, DUF1546, Protein of unknown function (DUF1546) | Back alignment and domain information |
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| >gnl|CDD|145884 pfam02969, TAF, TATA box binding protein associated factor (TAF) | Back alignment and domain information |
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| >gnl|CDD|129039 smart00803, TAF, TATA box binding protein associated factor | Back alignment and domain information |
|---|
| >gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4 | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 528 | |||
| KOG2549 | 576 | consensus Transcription initiation factor TFIID, s | 100.0 | |
| COG5095 | 450 | TAF6 Transcription initiation factor TFIID, subuni | 100.0 | |
| cd08050 | 343 | TAF6 TATA Binding Protein (TBP) Associated Factor | 100.0 | |
| PF07571 | 92 | DUF1546: Protein of unknown function (DUF1546); In | 99.96 | |
| PF02969 | 66 | TAF: TATA box binding protein associated factor (T | 99.92 | |
| smart00803 | 65 | TAF TATA box binding protein associated factor. TA | 99.81 | |
| cd00076 | 85 | H4 Histone H4, one of the four histones, along wit | 99.48 | |
| PLN00035 | 103 | histone H4; Provisional | 99.48 | |
| PTZ00015 | 102 | histone H4; Provisional | 99.43 | |
| COG2036 | 91 | HHT1 Histones H3 and H4 [Chromatin structure and d | 98.92 | |
| smart00417 | 74 | H4 Histone H4. | 98.89 | |
| cd07979 | 117 | TAF9 TATA Binding Protein (TBP) Associated Factor | 98.67 | |
| smart00576 | 77 | BTP Bromodomain transcription factors and PHD doma | 98.38 | |
| PF00125 | 75 | Histone: Core histone H2A/H2B/H3/H4 histone h2a si | 98.23 | |
| PF00808 | 65 | CBFD_NFYB_HMF: Histone-like transcription factor ( | 98.14 | |
| cd07981 | 72 | TAF12 TATA Binding Protein (TBP) Associated Factor | 98.09 | |
| KOG3467 | 103 | consensus Histone H4 [Chromatin structure and dyna | 97.92 | |
| PF07524 | 77 | Bromo_TP: Bromodomain associated; InterPro: IPR006 | 97.76 | |
| cd00074 | 115 | H2A Histone 2A; H2A is a subunit of the nucleosome | 97.64 | |
| smart00428 | 105 | H3 Histone H3. | 97.6 | |
| PF02291 | 129 | TFIID-31kDa: Transcription initiation factor IID, | 97.22 | |
| PF15630 | 76 | CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C | 97.13 | |
| PF12755 | 97 | Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region | 96.79 | |
| KOG3334 | 148 | consensus Transcription initiation factor TFIID, s | 96.38 | |
| PLN00161 | 135 | histone H3; Provisional | 96.3 | |
| PLN00160 | 97 | histone H3; Provisional | 96.27 | |
| PLN00121 | 136 | histone H3; Provisional | 96.23 | |
| PTZ00018 | 136 | histone H3; Provisional | 96.23 | |
| KOG0869 | 168 | consensus CCAAT-binding factor, subunit A (HAP3) [ | 96.04 | |
| cd08048 | 85 | TAF11 TATA Binding Protein (TBP) Associated Factor | 95.83 | |
| PF12348 | 228 | CLASP_N: CLASP N terminal; InterPro: IPR024395 Thi | 95.18 | |
| PF15511 | 414 | CENP-T: Centromere kinetochore component CENP-T; P | 94.81 | |
| PF03847 | 68 | TFIID_20kDa: Transcription initiation factor TFIID | 94.77 | |
| KOG1142 | 258 | consensus Transcription initiation factor TFIID, s | 94.51 | |
| COG5094 | 145 | TAF9 Transcription initiation factor TFIID, subuni | 94.31 | |
| KOG4336 | 323 | consensus TBP-associated transcription factor Prod | 93.42 | |
| smart00414 | 106 | H2A Histone 2A. | 93.12 | |
| KOG2389 | 353 | consensus Predicted bromodomain transcription fact | 93.05 | |
| KOG0870 | 172 | consensus DNA polymerase epsilon, subunit D [Trans | 92.77 | |
| PF04719 | 90 | TAFII28: hTAFII28-like protein conserved region; I | 92.76 | |
| COG5262 | 132 | HTA1 Histone H2A [Chromatin structure and dynamics | 92.47 | |
| KOG2023 | 885 | consensus Nuclear transport receptor Karyopherin-b | 92.39 | |
| PLN00154 | 136 | histone H2A; Provisional | 92.2 | |
| PF02985 | 31 | HEAT: HEAT repeat; InterPro: IPR000357 The HEAT re | 91.63 | |
| smart00427 | 89 | H2B Histone H2B. | 91.5 | |
| KOG1756 | 131 | consensus Histone 2A [Chromatin structure and dyna | 91.4 | |
| KOG1242 | 569 | consensus Protein containing adaptin N-terminal re | 91.31 | |
| PF12460 | 415 | MMS19_C: RNAPII transcription regulator C-terminal | 91.21 | |
| KOG2023 | 885 | consensus Nuclear transport receptor Karyopherin-b | 90.61 | |
| PF13513 | 55 | HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O | 90.48 | |
| PTZ00017 | 134 | histone H2A; Provisional | 90.43 | |
| PTZ00463 | 117 | histone H2B; Provisional | 90.11 | |
| PLN00158 | 116 | histone H2B; Provisional | 89.38 | |
| PLN00156 | 139 | histone H2AX; Provisional | 89.18 | |
| KOG1242 | 569 | consensus Protein containing adaptin N-terminal re | 89.11 | |
| KOG2171 | 1075 | consensus Karyopherin (importin) beta 3 [Nuclear s | 89.05 | |
| PLN00153 | 129 | histone H2A; Provisional | 89.02 | |
| PLN00157 | 132 | histone H2A; Provisional | 88.41 | |
| KOG1745 | 137 | consensus Histones H3 and H4 [Chromatin structure | 87.97 | |
| KOG0212 | 675 | consensus Uncharacterized conserved protein [Funct | 87.33 | |
| KOG1824 | 1233 | consensus TATA-binding protein-interacting protein | 86.28 | |
| PF02269 | 93 | TFIID-18kDa: Transcription initiation factor IID, | 85.25 | |
| PRK07452 | 326 | DNA polymerase III subunit delta; Validated | 85.15 | |
| KOG0871 | 156 | consensus Class 2 transcription repressor NC2, bet | 84.52 | |
| PF05236 | 264 | TAF4: Transcription initiation factor TFIID compon | 83.61 | |
| cd08045 | 212 | TAF4 TATA Binding Protein (TBP) Associated Factor | 83.06 | |
| cd07978 | 92 | TAF13 The TATA Binding Protein (TBP) Associated Fa | 82.35 | |
| PTZ00252 | 134 | histone H2A; Provisional | 82.01 | |
| PRK06585 | 343 | holA DNA polymerase III subunit delta; Reviewed | 81.97 | |
| PF14911 | 373 | MMS22L_C: S-phase genomic integrity recombination | 81.95 | |
| PRK05574 | 340 | holA DNA polymerase III subunit delta; Reviewed | 81.88 | |
| TIGR01128 | 302 | holA DNA polymerase III, delta subunit. subunit ar | 81.88 | |
| PF09415 | 72 | CENP-X: CENP-S associating Centromere protein X; I | 81.28 | |
| COG1466 | 334 | HolA DNA polymerase III, delta subunit [DNA replic | 80.72 | |
| cd00020 | 120 | ARM Armadillo/beta-catenin-like repeats. An approx | 80.31 |
| >KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.6e-115 Score=923.06 Aligned_cols=523 Identities=41% Similarity=0.614 Sum_probs=441.7
Q ss_pred CCCC-hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHHhccCCCCccCCCCCC
Q 009716 2 SIVP-KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFASGD 80 (528)
Q Consensus 2 s~~~-~e~V~~iAes~Gi~~Lsdeaa~~La~dveyrlreIiqeA~kfm~hskR~~Lt~~DI~~AL~~~nvePlyGy~s~~ 80 (528)
++++ +|+++.+|||+||++|+||+|..||+||||||+||+|+|.|||+|+||++||++||+.||+++|+||+|||.+++
T Consensus 9 ~v~s~~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~s~~ 88 (576)
T KOG2549|consen 9 TVVSPKESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFGAQE 88 (576)
T ss_pred cccCcHHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCcccCc
Confidence 4566 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccceecCCC-CceeeecCcccChHHhhcCCCCCCCCCCceeEEEEEeccccCCCCCCCCCcC--------Ccc------
Q 009716 81 SLRFKRASGL-KDLYYIDDKDVELRNVIETPLPKAPLDTSVAVHWLAIEGVQPAIPENAPVDA--------VSD------ 145 (528)
Q Consensus 81 pl~f~~~~g~-~~ly~~eD~evdl~~ii~~~lpk~P~~~s~~aHWLaIeGvQP~IPeNp~~~~--------p~~------ 145 (528)
+++|+++.|+ +++||.+|+||||++++++|+||+|+++++++|||+||||||+|||||++.. +..
T Consensus 89 ~i~fr~a~~~~r~ly~~~d~EVD~d~~i~~plpkvP~d~~i~sHWL~iEGVQP~iPeNp~p~~~~~~~~~~~~~~~~~~~ 168 (576)
T KOG2549|consen 89 IIPFRKASGGGRELYYPEDEEVDLDEIINAPLPKVPLDVSIKSHWLAIEGVQPAIPENPPPLEKNVQKKEVIEPAIKAPE 168 (576)
T ss_pred eeeccccCCCCceeecCchhhcchhhhhcCCCCCCCccceeeeeeeeeccccccCCCCCCccccchhhhcccchhhhccC
Confidence 9999998654 8999999999999999999999999999999999999999999999997521 000
Q ss_pred Ccc------ccc----ccCCceecccCCccccCcHHHHHHHHHHHHHhhcCCChHHHHHHHHHhhhcCCccccchhhHHH
Q 009716 146 GRR------SEY----REDGISVDIRLPVKHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYF 215 (528)
Q Consensus 146 ~k~------~~~----k~~~~~v~iK~~vkh~LSkElQ~Yf~kIt~a~l~~~~~~~r~~AL~sL~tD~gL~qLLPYfv~F 215 (528)
+.. +.. ...+.++.+||.++|+||+|||+||++||++|++ +++.+|++||++|+||+|||||+|||++|
T Consensus 169 ~~~~~~~~~~~~~~~~~k~~e~~~~Kp~~~h~LS~ElQlYy~~It~a~~g-~~~~~r~eAL~sL~TDsGL~~LlPyFv~f 247 (576)
T KOG2549|consen 169 GNNPGASTKSSDAVKTLKIGEPVELKPSSKHVLSVELQLYYKEITEACTG-SDEPLRQEALQSLETDSGLQQLLPYFVTF 247 (576)
T ss_pred CCCCCccccccccccccccCCcccccccchhhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHhhccCccHHHHHHHHHHH
Confidence 000 000 1235678899999999999999999999999998 56778999999999999999999999999
Q ss_pred HHHHHhhh--cCCHHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCC-CCCchHHHHHHHHHHHHHHH
Q 009716 216 ISEEVTRS--LKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRF-SDNHWDLRNFVADLIASICT 292 (528)
Q Consensus 216 I~e~V~~n--l~nl~~L~~llrmv~ALl~Np~L~LepYLHqLlPsvLTCll~k~l~~~~-~~~hw~LRd~AA~lL~~I~~ 292 (528)
|+|+|+.| ++|+..|+++|+|++||++||+|++|||||+|||+||||+|+|++|.++ .||||+|||+||++|++||+
T Consensus 248 Iae~vs~ni~~~nL~lL~~lm~m~rSLl~Np~i~lepYlh~L~PSvlTCvVsk~l~~~p~~dnhwaLRDfAA~ll~~i~k 327 (576)
T KOG2549|consen 248 IAEGVSVNIVQNNLELLIYLMRMVRSLLDNPNIFLEPYLHQLVPSVLTCVVSKNLCLRPELDNHWALRDFAARLLAQICK 327 (576)
T ss_pred HhhheeeccccccHHHHHHHHHHHHHHhcCCccchhhHHHHHhhHHHHhhhhhhccCCccccchHHHHHHHHHHHHHHHH
Confidence 99999999 7999999999999999999999999999999999999999999999975 89999999999999999999
Q ss_pred HhCCCchhHHHHHHHHHHHHhcCCCCCchhhhhHHHHHHhhChhhhhhhcccchHHHHHhhhhhhhhHhhhhhhhHHHHH
Q 009716 293 RFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAW 372 (528)
Q Consensus 293 kf~~~y~~L~~RI~~tL~k~llDp~k~l~t~YGAI~GL~aLG~~aVr~lilP~L~~y~~~Le~~l~~~~~~~~~~r~ea~ 372 (528)
+|++.|.+|++||++||.|+|+|+++++++|||||+||++||.++|+.+|+|+|..|+..|++++..+..+|.+.+.||+
T Consensus 328 ~f~~~y~~L~~Rit~tl~k~l~D~~~~~st~YGai~gL~~lg~~~I~~~ilp~L~~~~~~l~~~l~~~~~~n~~~i~ea~ 407 (576)
T KOG2549|consen 328 NFSTLYNNLQPRITRTLSKALLDNKKPLSTHYGAIAGLSELGHEVIRTVILPNLKEYNERLQSVLDVESLSNQLDIYEAN 407 (576)
T ss_pred hhhhHHHHHHHHHHHHHHHHhcCCCCCchhhhhHHHHHHHhhhhhhhheeccchHHHHHHhhhhcccchhhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhhhhhccchh--ccCCCcchhhcccc-c------CccccccccccCCCCcccccccCC-CCcccc--Cc
Q 009716 373 RVYGALQCAAGLCVYDRLKTV--LLRPPKQSRWESNR-K------GKRKASMDNLMLQPPVKKMATLGP-MGVMPV--NS 440 (528)
Q Consensus 373 ~v~~all~a~g~~~~~~~~~~--~~~~~~~~~~~~~~-~------~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~--~~ 440 (528)
+||++|+.|+..|+++++... .+.|-.+...++-| + .||++.-++..-+-|.+.+. +++ +..++. ..
T Consensus 408 ~v~~~llk~~~~ii~~~l~~~~~~~~~~~r~~~~~~g~~l~~e~~~~r~~~l~~~~~~~~~~~l~-~~p~~~~~~~~~~~ 486 (576)
T KOG2549|consen 408 KVYGALLKAENPIIRDKLNSAPDNPVPALRRLRGSLGESLLSEVVKKRQAPLDSSSVTLPVQQLV-APPVMSSAQSLTST 486 (576)
T ss_pred hHHHHHHHHhhHHHHhhhccccCCCCCcchhhcccccHHHHHHHHhhccCccccccccccccccc-CCcccccccccccc
Confidence 999999999999999999999 33444455555666 2 77776645554444555554 222 111111 11
Q ss_pred ccccCCCCCCCCCcccCCCCCcc--c--hhhhhhhhhhhhhccccchhhHHHHHHHHhhhccCccchhHHHHHHhccccc
Q 009716 441 MAVNMQGPSGGFSTPVEGPRAGV--S--MLRHLQNEKMLRREVSNQALKTSTVLAQAWKEDAEGGHLLASLYELFGESMF 516 (528)
Q Consensus 441 ~~~~~~~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~s~~l~q~wk~d~~~g~ll~sl~elfge~~l 516 (528)
+.+.+.-+..|.|..+..|.+.. + .-++.++ .+.+.|-.++...-+..++.|+++.+++..|....+..+.+..
T Consensus 487 ~~v~~~~~~~g~p~~~t~p~~~~~~~~~~~~~~~~--~~~~~~~~~vv~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~ 564 (576)
T KOG2549|consen 487 QQVSSPTEAPGSPSTSTGPVTSEVPSVVTESTSGP--KVVGPGKSRVVSLPSTGDGKGGATSHSRGVLPPASSPAPLSGS 564 (576)
T ss_pred ceecCCCCCCCCCccCCCCcccCCCCcccccccCC--ccccCCCceeeecccccccccCCCCCCCCccccccCCCCCCcc
Confidence 11222211112222111111111 0 0011111 3334446677777888999999999999999999999999999
Q ss_pred cccCCccccccC
Q 009716 517 SFTRKSELYFFL 528 (528)
Q Consensus 517 ~f~p~~e~~~fl 528 (528)
+|.++.+++.|.
T Consensus 565 ~~~~~~q~~~~~ 576 (576)
T KOG2549|consen 565 PACGSKQESVDS 576 (576)
T ss_pred ccccccccccCC
Confidence 999999999774
|
|
| >COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
|---|
| >cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >PF07571 DUF1546: Protein of unknown function (DUF1546); InterPro: IPR011442 These proteins are associated with IPR004823 from INTERPRO in transcription initiation factor TFIID subunit 6 (TAF6) | Back alignment and domain information |
|---|
| >PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex | Back alignment and domain information |
|---|
| >smart00803 TAF TATA box binding protein associated factor | Back alignment and domain information |
|---|
| >cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution | Back alignment and domain information |
|---|
| >PLN00035 histone H4; Provisional | Back alignment and domain information |
|---|
| >PTZ00015 histone H4; Provisional | Back alignment and domain information |
|---|
| >COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >smart00417 H4 Histone H4 | Back alignment and domain information |
|---|
| >cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins | Back alignment and domain information |
|---|
| >PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ] | Back alignment and domain information |
|---|
| >PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin | Back alignment and domain information |
|---|
| >cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >KOG3467 consensus Histone H4 [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO) | Back alignment and domain information |
|---|
| >cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome | Back alignment and domain information |
|---|
| >smart00428 H3 Histone H3 | Back alignment and domain information |
|---|
| >PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [] | Back alignment and domain information |
|---|
| >PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C | Back alignment and domain information |
|---|
| >PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region | Back alignment and domain information |
|---|
| >KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
|---|
| >PLN00161 histone H3; Provisional | Back alignment and domain information |
|---|
| >PLN00160 histone H3; Provisional | Back alignment and domain information |
|---|
| >PLN00121 histone H3; Provisional | Back alignment and domain information |
|---|
| >PTZ00018 histone H3; Provisional | Back alignment and domain information |
|---|
| >KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription] | Back alignment and domain information |
|---|
| >cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ] | Back alignment and domain information |
|---|
| >PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T | Back alignment and domain information |
|---|
| >PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [] | Back alignment and domain information |
|---|
| >KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
|---|
| >COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription] | Back alignment and domain information |
|---|
| >KOG4336 consensus TBP-associated transcription factor Prodos [Transcription] | Back alignment and domain information |
|---|
| >smart00414 H2A Histone 2A | Back alignment and domain information |
|---|
| >KOG2389 consensus Predicted bromodomain transcription factor [Transcription] | Back alignment and domain information |
|---|
| >KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription] | Back alignment and domain information |
|---|
| >PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex | Back alignment and domain information |
|---|
| >COG5262 HTA1 Histone H2A [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] | Back alignment and domain information |
|---|
| >PLN00154 histone H2A; Provisional | Back alignment and domain information |
|---|
| >PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 [] | Back alignment and domain information |
|---|
| >smart00427 H2B Histone H2B | Back alignment and domain information |
|---|
| >KOG1756 consensus Histone 2A [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins | Back alignment and domain information |
|---|
| >KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] | Back alignment and domain information |
|---|
| >PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B | Back alignment and domain information |
|---|
| >PTZ00017 histone H2A; Provisional | Back alignment and domain information |
|---|
| >PTZ00463 histone H2B; Provisional | Back alignment and domain information |
|---|
| >PLN00158 histone H2B; Provisional | Back alignment and domain information |
|---|
| >PLN00156 histone H2AX; Provisional | Back alignment and domain information |
|---|
| >KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport] | Back alignment and domain information |
|---|
| >PLN00153 histone H2A; Provisional | Back alignment and domain information |
|---|
| >PLN00157 histone H2A; Provisional | Back alignment and domain information |
|---|
| >KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >KOG0212 consensus Uncharacterized conserved protein [Function unknown] | Back alignment and domain information |
|---|
| >KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only] | Back alignment and domain information |
|---|
| >PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18) | Back alignment and domain information |
|---|
| >PRK07452 DNA polymerase III subunit delta; Validated | Back alignment and domain information |
|---|
| >KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription] | Back alignment and domain information |
|---|
| >PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site | Back alignment and domain information |
|---|
| >cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex | Back alignment and domain information |
|---|
| >PTZ00252 histone H2A; Provisional | Back alignment and domain information |
|---|
| >PRK06585 holA DNA polymerase III subunit delta; Reviewed | Back alignment and domain information |
|---|
| >PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal | Back alignment and domain information |
|---|
| >PRK05574 holA DNA polymerase III subunit delta; Reviewed | Back alignment and domain information |
|---|
| >TIGR01128 holA DNA polymerase III, delta subunit | Back alignment and domain information |
|---|
| >PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex | Back alignment and domain information |
|---|
| >COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >cd00020 ARM Armadillo/beta-catenin-like repeats | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 528 | ||||
| 4atg_A | 196 | Taf6 C-Terminal Domain From Antonospora Locustae Le | 1e-27 | ||
| 1taf_B | 70 | Drosophila Tbp Associated Factors Dtafii42DTAFII62 | 3e-08 |
| >pdb|4ATG|A Chain A, Taf6 C-Terminal Domain From Antonospora Locustae Length = 196 | Back alignment and structure |
|
| >pdb|1TAF|B Chain B, Drosophila Tbp Associated Factors Dtafii42DTAFII62 HETEROTETRAMER Length = 70 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} Length = 196 | Back alignment and structure |
|---|
Score = 242 bits (619), Expect = 6e-78
Identities = 70/205 (34%), Positives = 112/205 (54%), Gaps = 10/205 (4%)
Query: 165 KHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSL 224
H+L KELQLYFDKI + S + A+ L +SGL LVPYF ISE + +S
Sbjct: 2 SHMLPKELQLYFDKILSMI----KSDMKDIAIECLEKESGLQQLVPYFIQHISELILKSF 57
Query: 225 KNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVA 284
K +L + + SL++N H+ I+PYLHQ++PS++TC++ K + + D+R A
Sbjct: 58 KEAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVIGKSIVDD------DVRKMSA 111
Query: 285 DLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILP 344
D++ I + Y+ L RV +TL ++DP +S YGA+ L+ L +VV+ +I
Sbjct: 112 DIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGALYCLSILSKNVVNTVIRE 171
Query: 345 NLELYLKFLEPEMLLEKQKNEMKRH 369
+ E Y + + + + N + H
Sbjct: 172 HAEEYKRTIGKKKVTNLLDNVLNVH 196
|
| >1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 Length = 70 | Back alignment and structure |
|---|
| >2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} Length = 103 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Length = 102 | Back alignment and structure |
|---|
| >1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ... Length = 103 | Back alignment and structure |
|---|
| >1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 Length = 70 | Back alignment and structure |
|---|
| >2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B Length = 84 | Back alignment and structure |
|---|
| >1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A Length = 68 | Back alignment and structure |
|---|
| >2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} Length = 235 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 528 | |||
| 4atg_A | 196 | TAF6; transcription, TFIID; HET: NHE; 1.89A {Anton | 100.0 | |
| 1taf_B | 70 | TFIID TBP associated factor 62; transcription init | 99.91 | |
| 2hue_C | 84 | Histone H4; mini beta sheet, elongated beta sandwh | 99.72 | |
| 1id3_B | 102 | Histone H4; nucleosome core particle, chromatin, p | 99.69 | |
| 2yfw_B | 103 | Histone H4, H4; cell cycle, kinetochore, centromer | 99.64 | |
| 1tzy_D | 103 | Histone H4-VI; histone-fold, tetramer-dimer-dimer, | 99.64 | |
| 1ku5_A | 70 | HPHA, archaeal histon; histone fold, DNA binding p | 99.22 | |
| 2ly8_A | 121 | Budding yeast chaperone SCM3; centromere protein, | 99.01 | |
| 1f1e_A | 154 | Histone fold protein; archaeal histone protein, DN | 98.94 | |
| 2l5a_A | 235 | Histone H3-like centromeric protein CSE4, protein | 98.9 | |
| 1b67_A | 68 | Protein (histone HMFA); DNA binding protein; 1.48A | 98.85 | |
| 1taf_A | 68 | TFIID TBP associated factor 42; transcription init | 98.79 | |
| 3b0c_T | 111 | CENP-T, centromere protein T; histone fold, DNA bi | 98.74 | |
| 1f1e_A | 154 | Histone fold protein; archaeal histone protein, DN | 98.65 | |
| 1n1j_A | 93 | NF-YB; histone-like PAIR, DNA binding protein; 1.6 | 98.41 | |
| 3b0c_W | 76 | CENP-W, centromere protein W; histone fold, DNA bi | 98.4 | |
| 4dra_A | 113 | Centromere protein S; DNA binding complex, DNA dam | 98.36 | |
| 3b0b_B | 107 | CENP-S, centromere protein S; histone fold, DNA bi | 98.35 | |
| 2hue_B | 77 | Histone H3; mini beta sheet, elongated beta sandwh | 98.33 | |
| 3nqj_A | 82 | Histone H3-like centromeric protein A; alpha helix | 98.28 | |
| 3v9r_A | 90 | MHF1, uncharacterized protein YOL086W-A; histone f | 98.2 | |
| 3vh5_A | 140 | CENP-S; histone fold, chromosome segregation, DNA | 98.04 | |
| 1jfi_B | 179 | DR1 protein, transcription regulator NC2 beta chai | 98.0 | |
| 2byk_B | 128 | Chrac-14; nucleosome sliding, histone fold, DNA-bi | 97.96 | |
| 1n1j_B | 97 | NF-YC; histone-like PAIR, DNA binding protein; 1.6 | 97.88 | |
| 3nqu_A | 140 | Histone H3-like centromeric protein A; alpha helix | 97.78 | |
| 2yfv_A | 100 | Histone H3-like centromeric protein CSE4; cell cyc | 97.77 | |
| 2nqb_C | 123 | Histone H2A; nucleosome, NCP, chromatin, structura | 97.71 | |
| 1tzy_C | 136 | Histone H3; histone-fold, tetramer-dimer-dimer, DN | 97.71 | |
| 2f8n_G | 120 | Core histone macro-H2A.1; nucleosome, NCP, macroh2 | 97.7 | |
| 1tzy_A | 129 | Histone H2A-IV; histone-fold, tetramer-dimer-dimer | 97.63 | |
| 3r45_A | 156 | Histone H3-like centromeric protein A; histone fol | 97.62 | |
| 2f8n_K | 149 | Histone H2A type 1; nucleosome, NCP, macroh2A, his | 97.61 | |
| 1id3_C | 131 | Histone H2A.1; nucleosome core particle, chromatin | 97.55 | |
| 1ibr_B | 462 | P95, importin beta-1 subunit, nuclear factor; smal | 97.53 | |
| 1jfi_A | 98 | Transcription regulator NC2 alpha chain; histone, | 97.53 | |
| 1f66_C | 128 | Histone H2A.Z; nucleosome, chromatin, histone vari | 97.39 | |
| 4g92_C | 119 | HAPE; transcription factor, nucleosome, minor groo | 97.33 | |
| 4fdd_A | 852 | Transportin-1; heat repeats, karyopherin, nuclear | 97.24 | |
| 2jss_A | 192 | Chimera of histone H2B.1 and histone H2A.Z; histon | 97.21 | |
| 2bpt_A | 861 | Importin beta-1 subunit; nuclear transport, nucleo | 97.11 | |
| 1qgr_A | 876 | Protein (importin beta subunit); transport recepto | 97.07 | |
| 2qk2_A | 242 | LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 | 96.89 | |
| 2nqb_D | 123 | Histone H2B; nucleosome, NCP, chromatin, structura | 96.77 | |
| 2bpt_A | 861 | Importin beta-1 subunit; nuclear transport, nucleo | 96.72 | |
| 4fdd_A | 852 | Transportin-1; heat repeats, karyopherin, nuclear | 96.69 | |
| 1tzy_B | 126 | Histone H2B; histone-fold, tetramer-dimer-dimer, D | 96.66 | |
| 1qgr_A | 876 | Protein (importin beta subunit); transport recepto | 96.64 | |
| 2qk1_A | 249 | Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h | 96.44 | |
| 2qk2_A | 242 | LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2 | 96.39 | |
| 2byk_A | 140 | Chrac-16; nucleosome sliding, histone fold, DNA-bi | 96.02 | |
| 2jss_A | 192 | Chimera of histone H2B.1 and histone H2A.Z; histon | 95.65 | |
| 1h3o_B | 76 | Transcription initiation factor TFIID 20/15 kDa su | 95.55 | |
| 1u6g_C | 1230 | TIP120 protein, CAND1; cullin repeat, heat repeat, | 95.4 | |
| 1bh9_B | 89 | TAFII28; histone fold, tata binding protein, trans | 95.23 | |
| 1u6g_C | 1230 | TIP120 protein, CAND1; cullin repeat, heat repeat, | 95.14 | |
| 1b3u_A | 588 | Protein (protein phosphatase PP2A); scaffold prote | 94.43 | |
| 1b3u_A | 588 | Protein (protein phosphatase PP2A); scaffold prote | 94.35 | |
| 2l5a_A | 235 | Histone H3-like centromeric protein CSE4, protein | 93.9 | |
| 2qk1_A | 249 | Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, h | 93.63 | |
| 1ibr_B | 462 | P95, importin beta-1 subunit, nuclear factor; smal | 93.48 | |
| 4dra_E | 84 | Centromere protein X; DNA binding complex, DNA dam | 91.23 | |
| 2x1g_F | 971 | Cadmus; transport protein, developmental protein, | 90.53 | |
| 1h3o_A | 75 | Transcription initiation factor TFIID 135 kDa subu | 90.24 | |
| 2x19_B | 963 | Importin-13; nuclear transport, protein transport; | 89.93 | |
| 3b0b_C | 81 | CENP-X, centromere protein X; histone fold, DNA bi | 88.91 | |
| 2of3_A | 266 | ZYG-9; multifunctional macromolecule, kinetochore, | 88.66 | |
| 4ffb_C | 278 | Protein STU2; tubulin fold, heat repeats, cytoskel | 88.14 | |
| 1wa5_C | 960 | Importin alpha RE-exporter; nuclear transport/comp | 87.77 | |
| 4hat_C | 1023 | Exportin-1; heat repeat, nuclear export, RAN-ranbp | 87.61 | |
| 4db8_A | 252 | Armadillo-repeat protein; solenoid repeat, de novo | 87.07 | |
| 4db6_A | 210 | Armadillo repeat protein; solenoid repeat, armadil | 86.63 | |
| 1wa5_B | 530 | Importin alpha subunit; nuclear transport/complex, | 86.1 | |
| 4hxt_A | 252 | De novo protein OR329; structural genomics, PSI-bi | 86.02 | |
| 2vgl_B | 591 | AP-2 complex subunit beta-1; cytoplasmic vesicle, | 84.8 | |
| 1wa5_B | 530 | Importin alpha subunit; nuclear transport/complex, | 83.96 | |
| 1wa5_C | 960 | Importin alpha RE-exporter; nuclear transport/comp | 83.92 | |
| 4db8_A | 252 | Armadillo-repeat protein; solenoid repeat, de novo | 83.57 | |
| 2jdq_A | 450 | Importin alpha-1 subunit; transport, PB2 subunit, | 83.31 | |
| 2jdq_A | 450 | Importin alpha-1 subunit; transport, PB2 subunit, | 82.97 | |
| 2iw3_A | 986 | Elongation factor 3A; acetylation, ATP-binding, pr | 82.26 | |
| 4ffb_C | 278 | Protein STU2; tubulin fold, heat repeats, cytoskel | 81.57 | |
| 1xqr_A | 296 | HSPBP1 protein; armadillo repeat, superhelical twi | 81.34 | |
| 3ltj_A | 201 | Alpharep-4; protein engineering, heat-like repeat, | 80.92 |
| >4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae} | Back alignment and structure |
|---|
Probab=100.00 E-value=5.8e-59 Score=447.50 Aligned_cols=183 Identities=37% Similarity=0.632 Sum_probs=177.7
Q ss_pred cccCcHHHHHHHHHHHHHhhcCCChHHHHHHHHHhhhcCCccccchhhHHHHHHHHhhhcCCHHHHHHHHHHHHHhhcCC
Q 009716 165 KHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNP 244 (528)
Q Consensus 165 kh~LSkElQ~Yf~kIt~a~l~~~~~~~r~~AL~sL~tD~gL~qLLPYfv~FI~e~V~~nl~nl~~L~~llrmv~ALl~Np 244 (528)
||+||+|+|+||++||++|++ ..|++||++|++|||||||+|||++||+++|++|++|+..|.++|+|++||++||
T Consensus 2 kh~LS~Elq~yf~~It~a~~~----~~r~~aL~sL~~D~gL~~LlPyf~~fI~~~v~~nl~~l~~L~~lm~~~~ALl~N~ 77 (196)
T 4atg_A 2 SHMLPKELQLYFDKILSMIKS----DMKDIAIECLEKESGLQQLVPYFIQHISELILKSFKEAEVLKTCIALYFSLIKNK 77 (196)
T ss_dssp GGGSCHHHHHHHHHHHHHHTS----TTHHHHHHHHHHCSSCTTTHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHCT
T ss_pred CcccCHHHHHHHHHHHHHHHh----HHHHHHHHHHhcCCChhhhHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999997 4689999999999999999999999999999999999999999999999999999
Q ss_pred CcccccchhhhHHHHHHHHhccccCCCCCCCchHHHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhcCCCCCchhhh
Q 009716 245 HIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHY 324 (528)
Q Consensus 245 ~L~LepYLHqLlPsvLTCll~k~l~~~~~~~hw~LRd~AA~lL~~I~~kf~~~y~~L~~RI~~tL~k~llDp~k~l~t~Y 324 (528)
+++||||+|||||++|||+|++++|+. +|||+||++|+.||++||++|++|++||+++|+|+|+||++|+++||
T Consensus 78 ~l~lepYlH~LipsvLtCll~k~l~~~------~LRd~AA~lL~~I~~~~~~~y~~L~~RI~~tl~k~l~dp~~~l~t~Y 151 (196)
T 4atg_A 78 HVFIDPYLHQILPSLLTCVIGKSIVDD------DVRKMSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQY 151 (196)
T ss_dssp TCCCGGGHHHHHHHHHHHHHCTTCCCH------HHHHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHTCTTSCHHHHH
T ss_pred CCChHHHHHHHHHHHHHHHHhcccCHH------HHHHHHHHHHHHHHHHhCccCchHHHHHHHHHHHHHcCCCCChHHHH
Confidence 999999999999999999999999875 99999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHhhChhhhhhhcccchHHHHHhhhhhh
Q 009716 325 GAIQGLAALGPSVVHLLILPNLELYLKFLEPEM 357 (528)
Q Consensus 325 GAI~GL~aLG~~aVr~lilP~L~~y~~~Le~~l 357 (528)
|||+||++||++|||.+|+|+++.|++.++..-
T Consensus 152 GAi~GL~~lG~~~vr~~llP~l~~~~~~~~~~~ 184 (196)
T 4atg_A 152 GALYCLSILSKNVVNTVIREHAEEYKRTIGKKK 184 (196)
T ss_dssp HHHHHHHHHCHHHHHTHHHHHHHHHHHHTCCHH
T ss_pred HHHHHHHHhHHHHHHHhhhcCHHHHHHHHHHHH
Confidence 999999999999999999999999999887653
|
| >1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1 PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B | Back alignment and structure |
|---|
| >1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 | Back alignment and structure |
|---|
| >2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} | Back alignment and structure |
|---|
| >1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ... | Back alignment and structure |
|---|
| >1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A {Pyrococcus horikoshii} SCOP: a.22.1.2 | Back alignment and structure |
|---|
| >2ly8_A Budding yeast chaperone SCM3; centromere protein, CENH3 variants, partially unfolded; NMR {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 | Back alignment and structure |
|---|
| >2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1b67_A Protein (histone HMFA); DNA binding protein; 1.48A {Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A 1a7w_A 1b6w_A 1bfm_A | Back alignment and structure |
|---|
| >1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_T* 3vh5_T 3vh6_T | Back alignment and structure |
|---|
| >1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 | Back alignment and structure |
|---|
| >1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >3b0c_W CENP-W, centromere protein W; histone fold, DNA binding, DNA binding protein; HET: CIT; 2.20A {Gallus gallus} PDB: 3b0d_W* 3vh5_W 3vh6_W | Back alignment and structure |
|---|
| >4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A | Back alignment and structure |
|---|
| >3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} | Back alignment and structure |
|---|
| >2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding prote; 1.70A {Xenopus laevis} | Back alignment and structure |
|---|
| >3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.10A {Homo sapiens} | Back alignment and structure |
|---|
| >3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus, binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A | Back alignment and structure |
|---|
| >1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_B | Back alignment and structure |
|---|
| >1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold, centromere, DNA binding protein; 2.50A {Homo sapiens} PDB: 3an2_A | Back alignment and structure |
|---|
| >2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.32A {Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A | Back alignment and structure |
|---|
| >2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* | Back alignment and structure |
|---|
| >1tzy_C Histone H3; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_C 1hq3_C 2aro_C 2f8n_A 2hio_C 3av1_A 3lel_A 3afa_A 3azi_A 3azj_A 3azk_A 3azl_A 3azm_A 3azn_A 2cv5_A* 1u35_A* 2nqb_A 2io5_B 2pyo_A* 3c9k_C ... | Back alignment and structure |
|---|
| >2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Homo sapiens} SCOP: a.22.1.1 PDB: 1u35_C | Back alignment and structure |
|---|
| >1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C 3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C 3azj_C 3azk_C 3azl_C 3azm_C ... | Back alignment and structure |
|---|
| >3r45_A Histone H3-like centromeric protein A; histone fold, centromere, CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens} | Back alignment and structure |
|---|
| >2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1 | Back alignment and structure |
|---|
| >1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 | Back alignment and structure |
|---|
| >1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A | Back alignment and structure |
|---|
| >1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B, tata-DNA, transcription initiation, NC2, negative cofactor, structural genomics, PSI; 2.62A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA interaction, nucleoprotein, supercoiled DNA, complex (nucleosome core/DNA); 2.60A {Homo sapiens} SCOP: a.22.1.1 | Back alignment and structure |
|---|
| >4g92_C HAPE; transcription factor, nucleosome, minor groove binding, CCAA complex, histone fold motif, specific binding to the ccaat- nucleus; HET: DNA; 1.80A {Aspergillus nidulans} PDB: 4g91_C* | Back alignment and structure |
|---|
| >4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* | Back alignment and structure |
|---|
| >2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 | Back alignment and structure |
|---|
| >2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A | Back alignment and structure |
|---|
| >1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A | Back alignment and structure |
|---|
| >2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} | Back alignment and structure |
|---|
| >2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D* | Back alignment and structure |
|---|
| >2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A | Back alignment and structure |
|---|
| >4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B* | Back alignment and structure |
|---|
| >1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ... | Back alignment and structure |
|---|
| >1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A | Back alignment and structure |
|---|
| >2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster} | Back alignment and structure |
|---|
| >2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein; 2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB: 2bym_A | Back alignment and structure |
|---|
| >2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 | Back alignment and structure |
|---|
| >1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A | Back alignment and structure |
|---|
| >1bh9_B TAFII28; histone fold, tata binding protein, transcription regulation complex; HET: PMB; 2.60A {Homo sapiens} SCOP: a.22.1.3 PDB: 1bh8_B* | Back alignment and structure |
|---|
| >1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A | Back alignment and structure |
|---|
| >1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A | Back alignment and structure |
|---|
| >1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A | Back alignment and structure |
|---|
| >2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A single chain of CSE4+SCM3+H4, fusion protein; NMR {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >2qk1_A Protein STU2; STU2P, XMAP215, DIS1, TOG, CH-TOG, heat repeat, microtubule plus END, +TIP, protein binding; 1.70A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear transport receptor, cell cycle, translation; HET: GNP; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A 1f59_A 1o6o_A 1o6p_A | Back alignment and structure |
|---|
| >4dra_E Centromere protein X; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_J | Back alignment and structure |
|---|
| >2x1g_F Cadmus; transport protein, developmental protein, mRNA processing, nuclear transport, mRNA splicing, mRNA transport; 3.35A {Drosophila melanogaster} | Back alignment and structure |
|---|
| >1h3o_A Transcription initiation factor TFIID 135 kDa subunit; transcription/TBP-associated factors, TBP-associated factors; 2.3A {Homo sapiens} SCOP: a.22.1.3 | Back alignment and structure |
|---|
| >2x19_B Importin-13; nuclear transport, protein transport; HET: GTP; 2.80A {Homo sapiens} PDB: 2xwu_B | Back alignment and structure |
|---|
| >3b0b_C CENP-X, centromere protein X; histone fold, DNA binding, DNA, nucleus, DNA binding protein; 2.15A {Gallus gallus} PDB: 3vh5_D 3vh6_D | Back alignment and structure |
|---|
| >2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans} | Back alignment and structure |
|---|
| >4ffb_C Protein STU2; tubulin fold, heat repeats, cytoskeleton, microtubule, tubul domain, hydrolase; HET: GTP; 2.88A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1wa5_C Importin alpha RE-exporter; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1z3h_A | Back alignment and structure |
|---|
| >4hat_C Exportin-1; heat repeat, nuclear export, RAN-ranbp1, LMB, leptomycin B, protein transport-antibiotic complex; HET: GNP LMB; 1.78A {Saccharomyces cerevisiae} PDB: 4hau_C* 4hav_C* 4hb2_C* 4hax_C* 4haw_C* 4hay_C* 4hb3_C* 4haz_C* 4hb4_C* 3m1i_C* 4hb0_C* 4gmx_C* 4gpt_C* 3vyc_A 2l1l_B | Back alignment and structure |
|---|
| >4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} | Back alignment and structure |
|---|
| >4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A | Back alignment and structure |
|---|
| >1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A | Back alignment and structure |
|---|
| >4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene} | Back alignment and structure |
|---|
| >2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B | Back alignment and structure |
|---|
| >1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A | Back alignment and structure |
|---|
| >1wa5_C Importin alpha RE-exporter; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1z3h_A | Back alignment and structure |
|---|
| >4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct} | Back alignment and structure |
|---|
| >2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A | Back alignment and structure |
|---|
| >2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A | Back alignment and structure |
|---|
| >2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A | Back alignment and structure |
|---|
| >4ffb_C Protein STU2; tubulin fold, heat repeats, cytoskeleton, microtubule, tubul domain, hydrolase; HET: GTP; 2.88A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A* | Back alignment and structure |
|---|
| >3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic} | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 528 | ||||
| d1tafb_ | 70 | a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila mel | 2e-28 | |
| d2huec1 | 82 | a.22.1.1 (C:20-101) Histone H4 {African clawed fro | 9e-21 | |
| d1f1ea_ | 151 | a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy | 4e-13 | |
| d1f1ea_ | 151 | a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy | 5e-05 | |
| d1htaa_ | 68 | a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth | 6e-13 |
| >d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 70 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Histone-fold superfamily: Histone-fold family: TBP-associated factors, TAFs domain: TAF(II)62 species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Score = 105 bits (264), Expect = 2e-28
Identities = 29/66 (43%), Positives = 44/66 (66%)
Query: 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDV 61
S + E+++VIA+SIGV +LS D A LA DV +++ I+Q+A K M HA R L+ D+
Sbjct: 5 SSISAESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDI 64
Query: 62 DSALNL 67
D +L +
Sbjct: 65 DMSLKV 70
|
| >d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82 | Back information, alignment and structure |
|---|
| >d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 | Back information, alignment and structure |
|---|
| >d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151 | Back information, alignment and structure |
|---|
| >d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Length = 68 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 528 | |||
| d1tafb_ | 70 | TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta | 99.93 | |
| d2huec1 | 82 | Histone H4 {African clawed frog (Xenopus laevis) [ | 99.78 | |
| d1htaa_ | 68 | Archaeal histone {Archaeon Methanothermus fervidus | 99.45 | |
| d1f1ea_ | 151 | Archaeal histone {Archaeon Methanopyrus kandleri [ | 98.95 | |
| d1ku5a_ | 66 | Archaeal histone {Archaeon (Pyrococcus horikoshii) | 98.79 | |
| d1f1ea_ | 151 | Archaeal histone {Archaeon Methanopyrus kandleri [ | 98.26 | |
| d1n1ja_ | 87 | Nuclear transcription factor Y subunit beta (Nf-Yb | 98.07 | |
| d1jfia_ | 66 | Negative cofactor 2, NC2, alpha chain {Human (Homo | 97.88 | |
| d1q9ca_ | 172 | Histone domain of Son of sevenless protein {Human | 97.85 | |
| d2bykb1 | 89 | Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax | 97.73 | |
| d1tafa_ | 68 | TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta | 97.66 | |
| d1n1jb_ | 78 | Nuclear transcription factor Y subunit gamma (Nf-Y | 97.64 | |
| d1jfib_ | 135 | Negative cofactor 2, NC2, beta chain {Human (Homo | 97.56 | |
| d1tzyc_ | 95 | Histone H3 {Chicken (Gallus gallus), erythrocytes | 97.07 | |
| d1ibrb_ | 458 | Importin beta {Human (Homo sapiens) [TaxId: 9606]} | 96.56 | |
| d1qbkb_ | 888 | Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 | 96.13 | |
| d2bpta1 | 861 | Importin beta {Baker's yeast (Saccharomyces cerevi | 95.65 | |
| d2bpta1 | 861 | Importin beta {Baker's yeast (Saccharomyces cerevi | 95.26 | |
| d1f66c_ | 103 | Histone H2A {Human (Homo sapiens), variant H2A.Z [ | 94.95 | |
| d1h3ob_ | 74 | TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom | 94.95 | |
| d1qgra_ | 876 | Importin beta {Human (Homo sapiens) [TaxId: 9606]} | 94.45 | |
| d2byka1 | 72 | Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax | 94.43 | |
| d1bh9b_ | 89 | TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} | 94.42 | |
| d1b3ua_ | 588 | Constant regulatory domain of protein phosphatase | 94.34 | |
| d1b3ua_ | 588 | Constant regulatory domain of protein phosphatase | 94.32 | |
| d1u35c1 | 106 | macro-H2A.1, histone domain {Human (Homo sapiens) | 93.88 | |
| d1qgra_ | 876 | Importin beta {Human (Homo sapiens) [TaxId: 9606]} | 93.7 | |
| d1tzya_ | 106 | Histone H2A {Chicken (Gallus gallus), erythrocytes | 93.53 | |
| d1tzyb_ | 92 | Histone H2B {Chicken (Gallus gallus), erythrocytes | 93.43 | |
| d1ibrb_ | 458 | Importin beta {Human (Homo sapiens) [TaxId: 9606]} | 93.21 | |
| d1u6gc_ | 1207 | Cullin-associated NEDD8-dissociated protein 1 (Tip | 92.76 | |
| d1u6gc_ | 1207 | Cullin-associated NEDD8-dissociated protein 1 (Tip | 92.53 | |
| d1qbkb_ | 888 | Karyopherin beta2 {Human (Homo sapiens) [TaxId: 96 | 90.8 | |
| d1h3oa_ | 50 | TAF(II)-135, (TAF(II)-130, hTAF4), histone fold do | 88.98 | |
| d2vglb_ | 579 | Adaptin beta subunit N-terminal fragment {Human (H | 84.55 | |
| d1w5sa2 | 287 | CDC6-like protein APE0152, N-terminal domain {Aero | 84.27 | |
| d2vglb_ | 579 | Adaptin beta subunit N-terminal fragment {Human (H | 80.92 |
| >d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Histone-fold superfamily: Histone-fold family: TBP-associated factors, TAFs domain: TAF(II)62 species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Probab=99.93 E-value=4.1e-26 Score=181.91 Aligned_cols=66 Identities=44% Similarity=0.637 Sum_probs=64.2
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHHhc
Q 009716 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (528)
Q Consensus 2 s~~~~e~V~~iAes~Gi~~Lsdeaa~~La~dveyrlreIiqeA~kfm~hskR~~Lt~~DI~~AL~~ 67 (528)
|.+|.|+||+||||+||.+|+||+++.||+|||||||||+|+|+|||||+||++||++|||+|||+
T Consensus 5 S~~~~esik~iAeS~Gi~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALkv 70 (70)
T d1tafb_ 5 SSISAESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLKV 70 (70)
T ss_dssp CCCCHHHHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC-
T ss_pred ccCCHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHcC
Confidence 689999999999999999999999999999999999999999999999999999999999999984
|
| >d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} | Back information, alignment and structure |
|---|
| >d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} | Back information, alignment and structure |
|---|
| >d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} | Back information, alignment and structure |
|---|
| >d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} | Back information, alignment and structure |
|---|
| >d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} | Back information, alignment and structure |
|---|
| >d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} | Back information, alignment and structure |
|---|
| >d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} | Back information, alignment and structure |
|---|
| >d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} | Back information, alignment and structure |
|---|
| >d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
| >d2bpta1 a.118.1.1 (A:1-861) Importin beta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
| >d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} | Back information, alignment and structure |
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| >d1bh9b_ a.22.1.3 (B:) TAF(II)28 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1qgra_ a.118.1.1 (A:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} | Back information, alignment and structure |
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| >d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} | Back information, alignment and structure |
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| >d1ibrb_ a.118.1.1 (B:) Importin beta {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1qbkb_ a.118.1.1 (B:) Karyopherin beta2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1h3oa_ a.22.1.3 (A:) TAF(II)-135, (TAF(II)-130, hTAF4), histone fold domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} | Back information, alignment and structure |
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