Citrus Sinensis ID: 047665
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 | 530 | 2.2.26 [Sep-21-2011] | |||||||
| A8KBY2 | 423 | Transcription factor IIIB | yes | no | 0.377 | 0.472 | 0.259 | 2e-09 | |
| P61999 | 300 | Transcription initiation | N/A | no | 0.469 | 0.83 | 0.237 | 2e-09 | |
| P61998 | 300 | Transcription initiation | yes | no | 0.469 | 0.83 | 0.237 | 2e-09 | |
| Q9V0V5 | 300 | Transcription initiation | yes | no | 0.469 | 0.83 | 0.233 | 1e-08 | |
| Q5JGN1 | 300 | Transcription initiation | yes | no | 0.469 | 0.83 | 0.237 | 2e-08 | |
| O59151 | 300 | Transcription initiation | yes | no | 0.469 | 0.83 | 0.230 | 3e-08 | |
| Q9P6R0 | 492 | Transcription factor IIIB | yes | no | 0.464 | 0.5 | 0.220 | 9e-07 | |
| Q2NEL6 | 311 | Transcription initiation | yes | no | 0.464 | 0.790 | 0.225 | 4e-06 | |
| P58109 | 306 | Transcription initiation | no | no | 0.462 | 0.800 | 0.234 | 6e-06 | |
| O26971 | 310 | Transcription initiation | yes | no | 0.464 | 0.793 | 0.231 | 1e-05 |
| >sp|A8KBY2|BRF2_DANRE Transcription factor IIIB 50 kDa subunit OS=Danio rerio GN=brf2 PE=2 SV=1 | Back alignment and function desciption |
|---|
Score = 64.7 bits (156), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 105/231 (45%), Gaps = 31/231 (13%)
Query: 111 ILIGACSYVVMRLDDKSLPISEVASVLNCDVYELGRMITRVVEFLNLKLPEVDIVSMFER 170
IL G C + + R + + + + +L+ D Y++G + + + LNL+ +V I M E
Sbjct: 114 ILAGCCMFHICRQNSWPVFMGTIGYLLDADNYQMGTIYQELTKSLNLQTTQVCITRMLES 173
Query: 171 VIRNSRL------QGFTNLDESMLDRMRKQGVLLLNCAVKWFLTTGRRPMPV-VVAVLVF 223
+ +L + F+ + ++D Q LL A ++ TGRRP P+ + AV V
Sbjct: 174 FCYDFKLAPDEVEEVFSVAQQRLVD----QTSALLELAADTWILTGRRPFPLFLAAVYVA 229
Query: 224 VVELNGVS---------VKIENVAKEVHC-TVVTCRKRYKELLEALVKVAQALPWGKDVT 273
LN ++ KI +++ C + T KR ELLE L K+ + LPW +
Sbjct: 230 WQSLNPLARMKYSLMKFCKIAKAPEQLWCKSKDTINKRLNELLEVLCKLGRELPWVRPTD 289
Query: 274 ---------VKNVLKNAPFVMNYMEMKSMEKRKEERDGLNCGGIDLGDVVS 315
V+++LK+ ++ + +K EK+ EE +L D S
Sbjct: 290 IQMNTVTTLVEDILKHRKALL-ILAVKHYEKQLEETQTSQYSESELSDSKS 339
|
General activator of RNA polymerase III transcription. Factor exclusively required for RNA polymerase III transcription of genes with promoter elements upstream of the initiation sites. Danio rerio (taxid: 7955) |
| >sp|P61999|TF2B_PYRWO Transcription initiation factor IIB OS=Pyrococcus woesei GN=tfb PE=1 SV=1 | Back alignment and function description |
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| >sp|P61998|TF2B_PYRFU Transcription initiation factor IIB OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=tfb PE=1 SV=1 | Back alignment and function description |
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| >sp|Q9V0V5|TF2B_PYRAB Transcription initiation factor IIB OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=tfb PE=3 SV=1 | Back alignment and function description |
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| >sp|Q5JGN1|TF2B1_PYRKO Transcription initiation factor IIB 1 OS=Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) GN=tfb1 PE=3 SV=1 | Back alignment and function description |
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| >sp|O59151|TF2B_PYRHO Transcription initiation factor IIB OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) GN=tfb PE=3 SV=1 | Back alignment and function description |
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| >sp|Q9P6R0|TF3B_SCHPO Transcription factor IIIB 60 kDa subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=brf1 PE=1 SV=2 | Back alignment and function description |
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| >sp|Q2NEL6|TF2B_METST Transcription initiation factor IIB OS=Methanosphaera stadtmanae (strain DSM 3091) GN=tfb PE=3 SV=1 | Back alignment and function description |
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| >sp|P58109|TF2B2_PYRKO Transcription initiation factor IIB 2 OS=Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) GN=tfb2 PE=3 SV=1 | Back alignment and function description |
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| >sp|O26971|TF2B_METTH Transcription initiation factor IIB OS=Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) GN=tfb PE=3 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 | 530 | ||||||
| 255552348 | 532 | conserved hypothetical protein [Ricinus | 0.990 | 0.986 | 0.632 | 0.0 | |
| 225443816 | 530 | PREDICTED: uncharacterized protein LOC10 | 0.986 | 0.986 | 0.557 | 1e-168 | |
| 225454256 | 535 | PREDICTED: uncharacterized protein LOC10 | 0.962 | 0.953 | 0.539 | 1e-163 | |
| 147777649 | 535 | hypothetical protein VITISV_019153 [Viti | 0.962 | 0.953 | 0.537 | 1e-163 | |
| 356497852 | 536 | PREDICTED: transcription factor IIIB 50 | 0.971 | 0.960 | 0.550 | 1e-159 | |
| 147778777 | 503 | hypothetical protein VITISV_003231 [Viti | 0.935 | 0.986 | 0.527 | 1e-154 | |
| 224077348 | 529 | predicted protein [Populus trichocarpa] | 0.986 | 0.988 | 0.570 | 1e-151 | |
| 449462673 | 525 | PREDICTED: uncharacterized protein LOC10 | 0.977 | 0.986 | 0.514 | 1e-150 | |
| 357448657 | 532 | hypothetical protein MTR_2g031410 [Medic | 0.977 | 0.973 | 0.498 | 1e-140 | |
| 297802394 | 530 | zinc ion binding protein [Arabidopsis ly | 0.975 | 0.975 | 0.452 | 1e-123 |
| >gi|255552348|ref|XP_002517218.1| conserved hypothetical protein [Ricinus communis] gi|223543589|gb|EEF45118.1| conserved hypothetical protein [Ricinus communis] | Back alignment and taxonomy information |
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Score = 677 bits (1748), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 337/533 (63%), Positives = 414/533 (77%), Gaps = 8/533 (1%)
Query: 1 MPCTSCGSKTLTREDISGSLICVSCGVVQAFDNYDAQLYGRDGPTGIYVHVGTAGTGSAL 60
MPC SCG ++L R+DI+GSL+C SCG VQ FDNY+ G +GP G++V VGT+GTGS L
Sbjct: 1 MPCYSCGHRSLIRDDITGSLVCDSCGTVQKFDNYETHTGGVNGPQGVFVRVGTSGTGSTL 60
Query: 61 NYKEKKIYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVV 120
NYKEKKI+E+NKLID++ +KL+L GQ+ IK+MID ITDGE+G GDWFP+LIGAC+YVV
Sbjct: 61 NYKEKKIFEANKLIDDIAYKLNLLGQKVTDIKSMIDNITDGEYGQGDWFPVLIGACAYVV 120
Query: 121 MRLDDK-SLPISEVASVLNCDVYELGRMITRVVEFLNLKLPEVDIVSMFERVIRNSRLQG 179
+R ++K +L I+E+ ++ CDVYELGRM+TRVV+ LN+KLPE DIV+ FE+V+RN L
Sbjct: 121 VRNENKTTLSIAEIGDLIGCDVYELGRMVTRVVDHLNIKLPEFDIVTSFEKVVRN--LFN 178
Query: 180 FTNLDESMLDRMRKQGVLLLNCAVKWFLTTGRRPMPVVVAVLVFVVELNGV-SVKIENVA 238
++ +RMR+QGV L+ C + WFLTTGRRP+P+V AVLV V ELNGV V+IE+VA
Sbjct: 179 LGRVESDKFERMREQGVFLIQCMINWFLTTGRRPLPIVAAVLVLVAELNGVEGVRIEDVA 238
Query: 239 KEVHCTVVTCRKRYKELLEALVKVAQALPWGKDVTVKNVLKNAPFVMNYMEMKSMEKRKE 298
+EVH V TC+ RYKELLEALVKVAQ LPWGKDVTVKNV+KN PFV+ YMEMKSMEK
Sbjct: 239 REVHAAVSTCKLRYKELLEALVKVAQVLPWGKDVTVKNVVKNGPFVLRYMEMKSMEKCDG 298
Query: 299 ERDGLNCGGIDLGDVVSECLKK-DVEYRIEGGGVE-SDPRYLEVEERSGLALTGVDCVHK 356
R GL+ GG DLG+VVS+CL+K DVEY +E VE D RY EVE S L+ G D + K
Sbjct: 299 HRKGLHYGGFDLGEVVSQCLRKDDVEYGVEEKSVECGDSRYFEVETGSELSKMGDDGMKK 358
Query: 357 TQLSHECLAMIYTRFANEIDDGKLLEESEVIHGVKGRGGYELHAYRDWWCGKSELSKKVL 416
QLSHECL+M+Y +F NE GK EE + K + +EL A DWW GKSELSKK+
Sbjct: 359 LQLSHECLSMVYNKFLNEASCGKYKEEIGRAYRRKSKRAFELFA-TDWWNGKSELSKKIF 417
Query: 417 LKKILEKDVGLDVMPPSFVNGCMVNERRRAKINAAKIRIDKIMNPSRASTGDVDNVYFLE 476
LK+ILEKDVGLD+MPPSFVNGC+V ERRRAKINAAK+RI++I++P A +GD ++ L+
Sbjct: 418 LKQILEKDVGLDLMPPSFVNGCVVVERRRAKINAAKLRIERIVHPWTADSGDCSDIDILQ 477
Query: 477 SVHTRKRKRK-PVAEIDWEDLIIETLLLHQVKEEEIEAGHYNTLLDLHVFNSG 528
+HT KRKRK P IDWED +IETLLLHQVKEEEIE GHYNTLLDLHVFNSG
Sbjct: 478 DLHTNKRKRKTPAKGIDWEDFVIETLLLHQVKEEEIEKGHYNTLLDLHVFNSG 530
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Source: Ricinus communis Species: Ricinus communis Genus: Ricinus Family: Euphorbiaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|225443816|ref|XP_002266602.1| PREDICTED: uncharacterized protein LOC100261683 [Vitis vinifera] gi|297740496|emb|CBI30678.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|225454256|ref|XP_002275055.1| PREDICTED: uncharacterized protein LOC100260157 [Vitis vinifera] gi|297745306|emb|CBI40386.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|147777649|emb|CAN78204.1| hypothetical protein VITISV_019153 [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|356497852|ref|XP_003517770.1| PREDICTED: transcription factor IIIB 50 kDa subunit-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|147778777|emb|CAN71581.1| hypothetical protein VITISV_003231 [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|224077348|ref|XP_002305222.1| predicted protein [Populus trichocarpa] gi|222848186|gb|EEE85733.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|449462673|ref|XP_004149065.1| PREDICTED: uncharacterized protein LOC101208099 [Cucumis sativus] gi|449509052|ref|XP_004163479.1| PREDICTED: uncharacterized protein LOC101223951 [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|357448657|ref|XP_003594604.1| hypothetical protein MTR_2g031410 [Medicago truncatula] gi|355483652|gb|AES64855.1| hypothetical protein MTR_2g031410 [Medicago truncatula] | Back alignment and taxonomy information |
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| >gi|297802394|ref|XP_002869081.1| zinc ion binding protein [Arabidopsis lyrata subsp. lyrata] gi|297314917|gb|EFH45340.1| zinc ion binding protein [Arabidopsis lyrata subsp. lyrata] | 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 | 530 | ||||||
| TAIR|locus:2127953 | 527 | AT4G35540 [Arabidopsis thalian | 0.971 | 0.977 | 0.407 | 4.4e-100 | |
| ZFIN|ZDB-GENE-040801-43 | 423 | brf2 "BRF2, subunit of RNA pol | 0.309 | 0.387 | 0.251 | 6.9e-06 | |
| WB|WBGene00000271 | 759 | brf-1 [Caenorhabditis elegans | 0.452 | 0.316 | 0.223 | 9.2e-06 | |
| POMBASE|SPBC13E7.10c | 492 | brf1 "transcription factor TFI | 0.464 | 0.5 | 0.222 | 0.00012 |
| TAIR|locus:2127953 AT4G35540 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 993 (354.6 bits), Expect = 4.4e-100, P = 4.4e-100
Identities = 219/538 (40%), Positives = 307/538 (57%)
Query: 1 MPCTSCGSKTLTREDISGSLICVSCGVVQAFDNYDAQLYGRDGPTGIYVHVGTAGTGSAL 60
M C C R++ +G+ C CG ++ +DNY+AQL G GP G Y+ VGT G GS L
Sbjct: 1 MRCKRCNGSNFERDEDTGNSYCGGCGTLREYDNYEAQLGGIRGPQGTYIRVGTIGRGSVL 60
Query: 61 NYKEKKIYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVV 120
+YK+KKIYE+N LI+E T +L+L G ++ IK+MI K+TDGEFG G+WFPILIGAC Y V
Sbjct: 61 DYKDKKIYEANNLIEETTERLNL-GNKTEVIKSMISKLTDGEFGQGEWFPILIGACCYAV 119
Query: 121 MRLDDKS-LPISEVASVLNCDVYELGRMITRVVEFLNLKLPEVDIVSMFERVIRNS-RLQ 178
+R + K L + EVA + CD+++LG MI RVV+ L+L+L E D+V +F + + NS RL
Sbjct: 120 VREEGKGVLSMEEVAYEVGCDLHQLGPMIKRVVDHLDLELREFDLVGLFTKTVTNSPRL- 178
Query: 179 GFTNLDESMLDRMRKQGVLLLNCAVKWFLTTGRRPMPXXXXXXXXXXXXXXXXXKIENVA 238
T++D +++ KQG L+NCA+KWFL+TGRRPMP KI+++A
Sbjct: 179 --TDVDRDKKEKIIKQGTFLMNCALKWFLSTGRRPMPLVVAVLAFVVQVNGVKVKIDDLA 236
Query: 239 KEVHCTVVTCRKRYKELLEALVKVAQ--ALPWGKDVTVKNVLKNAP--FVMNYXXXXXXX 294
K+ ++ TC+ RYKEL E LVKVA+ LPW KDVTVKNVLK++ F +
Sbjct: 237 KDASVSLTTCKTRYKELSEKLVKVAEEVGLPWAKDVTVKNVLKHSGTLFALMEAKSMKKR 296
Query: 295 XXXXXXDGLNCGGIDLGDVVSECLKKDVEYRIEGGGVESD-PRYLEVEERSGLALTGVDC 353
+ + G + D+V +CL K+ Y + + RY +VE L+L C
Sbjct: 297 KQGTGKELVRTDGFCVEDLVMDCLSKESMYCYDDDARQDTMSRYFDVEGERQLSL----C 352
Query: 354 VHKTQLSHECLAMIYTRFANEIDDGKLLEESEVIHGV--KGRGGYELHAYRDWWCGXXXX 411
+ +S L+ Y F + + G L + S+ + R + + + +WW G
Sbjct: 353 NYDDNISENQLSTKYNEFEDRVCGGTLAKRSQGSSQSMWQRRSVFGMVSTENWWKGKSEL 412
Query: 412 XXXXXXXXXXXXDVGLDVMPPSFVNGCMVNEXXXXXXXXXXXXXXXXMNPS-RASTGDVD 470
DVGL+ +PPS++ GC+ E +PS S G +
Sbjct: 413 SKRLLLKDLLEKDVGLEALPPSYIKGCVAVERRREKIKAAKLRINAIQHPSDNVSEGALS 472
Query: 471 NVYFLESVHTRKRKRKPVAEIDWEDLIIETLLLHQVKEEEIEAGHYNTLLDLHVFNSG 528
LE H++K KRK +EIDWEDL+I+TL+LH V EEEIE GHY TLLDLHVFNSG
Sbjct: 473 ----LELEHSKK-KRKKGSEIDWEDLVIQTLVLHNVNEEEIEKGHYKTLLDLHVFNSG 525
|
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| ZFIN|ZDB-GENE-040801-43 brf2 "BRF2, subunit of RNA polymerase III transcription initiation factor, BRF1-like" [Danio rerio (taxid:7955)] | Back alignment and assigned GO terms |
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| WB|WBGene00000271 brf-1 [Caenorhabditis elegans (taxid:6239)] | Back alignment and assigned GO terms |
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| POMBASE|SPBC13E7.10c brf1 "transcription factor TFIIIB complex subunit Brf1" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
|---|
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 | 530 | |||
| COG1405 | 285 | COG1405, SUA7, Transcription initiation factor TFI | 5e-14 | |
| PRK00423 | 310 | PRK00423, tfb, transcription initiation factor IIB | 9e-06 |
| >gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] | Back alignment and domain information |
|---|
Score = 72.3 bits (178), Expect = 5e-14
Identities = 67/290 (23%), Positives = 102/290 (35%), Gaps = 43/290 (14%)
Query: 1 MPCTSCGSKTLTREDISGSLICVSCGVVQ------------AFDNYDAQLYGRDGPTGIY 48
M C CGS + + G ++C CG+V AFD + G P
Sbjct: 2 MSCPECGSTNIITDYERGEIVCADCGLVLEDSLIDPGPEWRAFDERHERRVG--APLTPS 59
Query: 49 VH-------VGTAGTGSALNYKEKKIYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDG 101
+H +G ++ +I E L I + +
Sbjct: 60 IHDKGLSTIIGWGDKDKMYRLRKWQIRIRVSSAKERNLITALEELERIASALGLPESVRE 119
Query: 102 E----FGLGDWFPIL--------IGACSYVVMRLDDKSLPISEVASVLNCDVYELGRMIT 149
+ +L AC Y R++ + E+A L E+GR
Sbjct: 120 TAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGVSKKEIGRTYR 179
Query: 150 RVVEFLNLKLPEVDIVSMFERVIRNSRLQGFTNLDESMLDRMRKQGVLLLNCAVKWFLTT 209
+V L LK+P VD R S+L L D +R++ + ++ A + LT
Sbjct: 180 LLVRELKLKIPPVDPSDYIPRFA--SKL----GLS----DEVRRKAIEIVKKAKRAGLTA 229
Query: 210 GRRPMPVVVAVLVFVVELNGVSVKIENVAKEVHCTVVTCRKRYKELLEAL 259
G+ P + A + L G + VAK T VT R RYKEL +AL
Sbjct: 230 GKSPAGLAAAAIYLASLLLGERRTQKEVAKVAGVTEVTIRNRYKELADAL 279
|
Length = 285 |
| >gnl|CDD|234758 PRK00423, tfb, transcription initiation factor IIB; Reviewed | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 530 | |||
| KOG1598 | 521 | consensus Transcription initiation factor TFIIIB, | 100.0 | |
| PRK00423 | 310 | tfb transcription initiation factor IIB; Reviewed | 100.0 | |
| COG1405 | 285 | SUA7 Transcription initiation factor TFIIIB, Brf1 | 100.0 | |
| KOG1597 | 308 | consensus Transcription initiation factor TFIIB [T | 100.0 | |
| PF00382 | 71 | TFIIB: Transcription factor TFIIB repeat; InterPro | 99.62 | |
| PF00382 | 71 | TFIIB: Transcription factor TFIIB repeat; InterPro | 99.43 | |
| PRK00423 | 310 | tfb transcription initiation factor IIB; Reviewed | 99.29 | |
| KOG0835 | 367 | consensus Cyclin L [General function prediction on | 99.16 | |
| TIGR00569 | 305 | ccl1 cyclin ccl1. University). | 99.15 | |
| KOG0834 | 323 | consensus CDK9 kinase-activating protein cyclin T | 98.91 | |
| COG1405 | 285 | SUA7 Transcription initiation factor TFIIIB, Brf1 | 98.89 | |
| PF08271 | 43 | TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013 | 98.81 | |
| cd00043 | 88 | CYCLIN Cyclin box fold. Protein binding domain fun | 98.75 | |
| COG5333 | 297 | CCL1 Cdk activating kinase (CAK)/RNA polymerase II | 98.7 | |
| KOG1597 | 308 | consensus Transcription initiation factor TFIIB [T | 98.66 | |
| smart00385 | 83 | CYCLIN domain present in cyclins, TFIIB and Retino | 98.63 | |
| cd00043 | 88 | CYCLIN Cyclin box fold. Protein binding domain fun | 98.47 | |
| smart00385 | 83 | CYCLIN domain present in cyclins, TFIIB and Retino | 98.39 | |
| KOG1598 | 521 | consensus Transcription initiation factor TFIIIB, | 98.35 | |
| KOG0794 | 264 | consensus CDK8 kinase-activating protein cyclin C | 98.3 | |
| KOG0656 | 335 | consensus G1/S-specific cyclin D [Cell cycle contr | 98.1 | |
| PF00134 | 127 | Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR | 97.39 | |
| PF01857 | 135 | RB_B: Retinoblastoma-associated protein B domain; | 97.29 | |
| KOG2496 | 325 | consensus Cdk activating kinase (CAK)/RNA polymera | 97.28 | |
| KOG4557 | 262 | consensus Origin recognition complex, subunit 6 [R | 97.23 | |
| KOG0653 | 391 | consensus Cyclin B and related kinase-activating p | 96.75 | |
| PF02984 | 118 | Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR | 96.53 | |
| COG5024 | 440 | Cyclin [Cell division and chromosome partitioning] | 96.41 | |
| PF11781 | 36 | RRN7: RNA polymerase I-specific transcription init | 96.4 | |
| PHA00626 | 59 | hypothetical protein | 95.93 | |
| PF09862 | 113 | DUF2089: Protein of unknown function (DUF2089); In | 95.07 | |
| COG2051 | 67 | RPS27A Ribosomal protein S27E [Translation, riboso | 94.64 | |
| PF01667 | 55 | Ribosomal_S27e: Ribosomal protein S27; InterPro: I | 94.16 | |
| KOG0835 | 367 | consensus Cyclin L [General function prediction on | 94.12 | |
| PRK00415 | 59 | rps27e 30S ribosomal protein S27e; Reviewed | 94.08 | |
| KOG0655 | 408 | consensus G1/S-specific cyclin E [Cell cycle contr | 94.03 | |
| TIGR01206 | 54 | lysW lysine biosynthesis protein LysW. This very s | 93.68 | |
| PRK00420 | 112 | hypothetical protein; Validated | 93.51 | |
| PF13248 | 26 | zf-ribbon_3: zinc-ribbon domain | 93.07 | |
| PRK00464 | 154 | nrdR transcriptional regulator NrdR; Validated | 93.05 | |
| PF02984 | 118 | Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR | 93.02 | |
| PLN00209 | 86 | ribosomal protein S27; Provisional | 92.69 | |
| COG1645 | 131 | Uncharacterized Zn-finger containing protein [Gene | 92.58 | |
| PTZ00083 | 85 | 40S ribosomal protein S27; Provisional | 92.57 | |
| PF08792 | 33 | A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: I | 92.55 | |
| TIGR02393 | 238 | RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter | 91.89 | |
| PF14803 | 34 | Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C. | 91.2 | |
| PF08274 | 30 | PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR01 | 91.16 | |
| PF13240 | 23 | zinc_ribbon_2: zinc-ribbon domain | 90.99 | |
| smart00778 | 37 | Prim_Zn_Ribbon Zinc-binding domain of primase-heli | 90.93 | |
| PF02150 | 35 | RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; I | 90.92 | |
| PRK00432 | 50 | 30S ribosomal protein S27ae; Validated | 90.24 | |
| COG1997 | 89 | RPL43A Ribosomal protein L37AE/L43A [Translation, | 90.12 | |
| TIGR02098 | 38 | MJ0042_CXXC MJ0042 family finger-like domain. This | 89.94 | |
| PRK11827 | 60 | hypothetical protein; Provisional | 89.47 | |
| TIGR00244 | 147 | transcriptional regulator NrdR. Members of this al | 89.26 | |
| PF13404 | 42 | HTH_AsnC-type: AsnC-type helix-turn-helix domain; | 89.26 | |
| smart00661 | 52 | RPOL9 RNA polymerase subunit 9. | 88.82 | |
| PF03966 | 68 | Trm112p: Trm112p-like protein; InterPro: IPR005651 | 88.73 | |
| PF14354 | 61 | Lar_restr_allev: Restriction alleviation protein L | 88.59 | |
| smart00342 | 84 | HTH_ARAC helix_turn_helix, arabinose operon contro | 88.49 | |
| PRK07408 | 256 | RNA polymerase sigma factor SigF; Reviewed | 88.22 | |
| TIGR00569 | 305 | ccl1 cyclin ccl1. University). | 87.75 | |
| PRK00398 | 46 | rpoP DNA-directed RNA polymerase subunit P; Provis | 87.51 | |
| PF00134 | 127 | Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR | 87.36 | |
| PF01780 | 90 | Ribosomal_L37ae: Ribosomal L37ae protein family; I | 87.34 | |
| PF06677 | 41 | Auto_anti-p27: Sjogren's syndrome/scleroderma auto | 87.3 | |
| PF09538 | 108 | FYDLN_acid: Protein of unknown function (FYDLN_aci | 86.13 | |
| COG4888 | 104 | Uncharacterized Zn ribbon-containing protein [Gene | 86.07 | |
| PRK05657 | 325 | RNA polymerase sigma factor RpoS; Validated | 85.99 | |
| TIGR02394 | 285 | rpoS_proteo RNA polymerase sigma factor RpoS. A si | 85.67 | |
| COG2835 | 60 | Uncharacterized conserved protein [Function unknow | 84.73 | |
| PF09297 | 32 | zf-NADH-PPase: NADH pyrophosphatase zinc ribbon do | 83.9 | |
| PF08613 | 149 | Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu | 83.87 | |
| KOG1010 | 920 | consensus Rb (Retinoblastoma tumor suppressor)-rel | 83.86 | |
| PF13412 | 48 | HTH_24: Winged helix-turn-helix DNA-binding; PDB: | 83.57 | |
| PTZ00255 | 90 | 60S ribosomal protein L37a; Provisional | 83.25 | |
| PF10571 | 26 | UPF0547: Uncharacterised protein family UPF0547; I | 83.16 | |
| TIGR03655 | 53 | anti_R_Lar restriction alleviation protein, Lar fa | 83.1 | |
| PF07282 | 69 | OrfB_Zn_ribbon: Putative transposase DNA-binding d | 82.8 | |
| COG2888 | 61 | Predicted Zn-ribbon RNA-binding protein with a fun | 82.64 | |
| PF13730 | 55 | HTH_36: Helix-turn-helix domain | 82.27 | |
| TIGR00686 | 109 | phnA alkylphosphonate utilization operon protein P | 81.93 | |
| PF04545 | 50 | Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 | 81.9 | |
| PF01325 | 60 | Fe_dep_repress: Iron dependent repressor, N-termin | 81.7 | |
| PF08273 | 40 | Prim_Zn_Ribbon: Zinc-binding domain of primase-hel | 81.69 | |
| PF04967 | 53 | HTH_10: HTH DNA binding domain; InterPro: IPR00705 | 81.51 | |
| PRK11169 | 164 | leucine-responsive transcriptional regulator; Prov | 81.46 | |
| TIGR02300 | 129 | FYDLN_acid conserved hypothetical protein TIGR0230 | 81.28 | |
| KOG1779 | 84 | consensus 40s ribosomal protein S27 [Translation, | 81.13 | |
| KOG0834 | 323 | consensus CDK9 kinase-activating protein cyclin T | 80.74 | |
| PF08613 | 149 | Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu | 80.69 | |
| TIGR00280 | 91 | L37a ribosomal protein L37a. This model finds euka | 80.59 | |
| KOG4557 | 262 | consensus Origin recognition complex, subunit 6 [R | 80.53 | |
| COG1998 | 51 | RPS31 Ribosomal protein S27AE [Translation, riboso | 80.5 | |
| PRK00135 | 188 | scpB segregation and condensation protein B; Revie | 80.41 | |
| PF12760 | 46 | Zn_Tnp_IS1595: Transposase zinc-ribbon domain; Int | 80.24 |
| >KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.3e-65 Score=541.60 Aligned_cols=492 Identities=24% Similarity=0.277 Sum_probs=415.7
Q ss_pred CCCCCCCCCCeEEecCCCcEEcCCCceeecccCcccCCCCCCCCCCcEEeecccCCCCCcchHhHHHHHHHHHHHHHHhh
Q 047665 1 MPCTSCGSKTLTREDISGSLICVSCGVVQAFDNYDAQLYGRDGPTGIYVHVGTAGTGSALNYKEKKIYESNKLIDELTFK 80 (530)
Q Consensus 1 M~Cp~CG~~~iv~D~~~G~~VCt~CG~Vle~~~f~~~~~~~g~p~gt~i~~g~~g~gs~~s~rer~L~~a~~~I~~i~~~ 80 (530)
|.|++||++++..|..+|..+|+.||+|+++++|..+....-+++|+|++.+++|.+.+..++++.++++.+.|+.++.+
T Consensus 1 ~~C~~C~~s~fe~d~a~g~~~C~~CG~v~E~~~ivsev~F~e~~~G~~v~~~~~g~~~s~e~r~~t~~n~r~~i~~~~~~ 80 (521)
T KOG1598|consen 1 MVCKNCGGSNFERDEATGNLYCTACGTVLEYNNIVAEVTFVEGAQGQFVRVGQSGAGSSLESREKTIYNARRLIEELTER 80 (521)
T ss_pred CcCCCCCCCCcccccccCCceeccccceeeccceeEEeeeecccceeEEeccccCCccchHHHHHHHHHHHhHHHHHHHh
Confidence 89999999999999999999999999999999998775444449999999999998877899999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHHHHhcCCCCChHHHHHHhCCCHHHHHHHHHHHHHHhhhc--
Q 047665 81 LDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVVMRLDDKSLPISEVASVLNCDVYELGRMITRVVEFLNLK-- 158 (530)
Q Consensus 81 LgLp~~i~e~A~~i~k~a~~~~l~rGR~~~~vaAAclYiACR~~~~P~TL~DIA~~~~vd~~~Lgr~~k~L~k~L~i~-- 158 (530)
|+|++ +++.|..+|+.+.+++|++||+...++|||+|++||+++.++.+.|++++++++++.||++|+++++.|.+.
T Consensus 81 l~l~~-~~~~a~~~~k~a~~~nftkGr~~~~vvasClY~vcR~e~t~hlliDfS~~Lqv~Vy~LG~~~l~l~~~L~i~en 159 (521)
T KOG1598|consen 81 LNLGN-KTEVAFNFFKLAPDRNFTKGRRSTEVVAACLYLVCRLEKTDHLLIDFSSYLQVSVYDLGSNFLEVTDSLSIGEN 159 (521)
T ss_pred cCcch-HHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHHHHHhhCCceEEEEeccceEEehhhhhHHHHHHHHHhccccc
Confidence 99999 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -CCccchhhHHHHHHHhcccCCCCccchHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHcCCCCCHHHH
Q 047665 159 -LPEVDIVSMFERVIRNSRLQGFTNLDESMLDRMRKQGVLLLNCAVKWFLTTGRRPMPVVVAVLVFVVELNGVSVKIENV 237 (530)
Q Consensus 159 -~p~vdp~~~I~R~~~~L~l~~v~~v~~e~~~~V~~~A~~Ll~~a~~~~l~tGR~P~sIAAAAIYlAa~~~g~k~t~~eI 237 (530)
.|.+||+.||+||+..|.. .+ ..++|+.+|.+|+++|+++|+.+||+|.+||+||||+|++++|+++|..||
T Consensus 160 ~~plvDpsL~i~Rfa~~L~~--g~-----~~~~Vv~~a~~L~~rMkrdwm~tGRRPsglcGAaLliAar~h~~~rsi~dI 232 (521)
T KOG1598|consen 160 VSPLVDPSLYIVRFSCRLLF--GD-----KTEDVAKTATRLAQRMKRDWMQTGRRPSGLCGAALLIAARMHGFRRTIGDI 232 (521)
T ss_pred cccccCcceeeechhHhhhc--CC-----chHHHHHHHHHHHHHHHHHHHHhCCCccchhHHHHHHHHHHcCccccHHHH
Confidence 9999999999999998876 22 237899999999999999999999999999999999999999999999999
Q ss_pred HHHhCCCHHHHHHHHHHHHHHHHhhccc--CCCCccCcc----cccccChhHHHHHhHHHHHhhhhhhccCCcCCCCchh
Q 047665 238 AKEVHCTVVTCRKRYKELLEALVKVAQA--LPWGKDVTV----KNVLKNAPFVMNYMEMKSMEKRKEERDGLNCGGIDLG 311 (530)
Q Consensus 238 A~~~~VS~~TIrkRyKEL~e~L~~l~~~--lpW~~~v~~----knl~~~~pdIi~~~e~~~~~~~~~~~~~~~~~~~~~~ 311 (530)
+++++|++.||++||+||.+++..-++. + |-.++.. ........--=++++ .+++ +-.+...++..++-.
T Consensus 233 v~vvhV~e~Tl~kRl~Ef~~T~s~~Lti~ef-~~~d~e~~~~ppsft~~~~~~~k~~~--~~k~-~l~~~~~~~e~~~~~ 308 (521)
T KOG1598|consen 233 AKVVHVCESTLSKRLKEFSDTLSGDLTIDEL-AEIDLEYESDPPSFTASPSKEAKYVE--DKKK-MLSRTMQLVELANET 308 (521)
T ss_pred HHHHHHhHHHHHHHHHHHhccccccccHHHH-HhhhhhhccCcchhhcccchhhhhhh--hhhh-hhhhhhhhhhcccch
Confidence 9999999999999999999988655442 3 3212222 111111110001111 1111 111233455667777
Q ss_pred hhHHHhhhcCc--ceeccCCcccCCCcchhhhhccccccccccCccccccCHHHHHHHHHHHhhc--ccccchhhhhhcc
Q 047665 312 DVVSECLKKDV--EYRIEGGGVESDPRYLEVEERSGLALTGVDCVHKTQLSHECLAMIYTRFANE--IDDGKLLEESEVI 387 (530)
Q Consensus 312 ~~v~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~ 387 (530)
..|..|..... +|..+..+.. +.++++++. . ++ .+++--||. ++.+. .+.+.+.-++-+.
T Consensus 309 ~~~~~~~~~~~~~~~l~~~~q~~-~~~~~~~e~---~-----~~----~~~e~~~ss---E~~dk~~~g~~~~~~~~~sd 372 (521)
T KOG1598|consen 309 WLVTLRHSLPVITGGLFLAWQDL-QPRDRLVES---Y-----DD----LASECPLSS---EDEDKPASGRLAELLAVLSD 372 (521)
T ss_pred hhhccccCCcccchhhhcccccc-hhhhhhhhh---h-----hh----hhhcCcccc---cccCCcCccccchhhhcccc
Confidence 77777777776 5556666666 777776665 1 11 244443444 55555 5667778888888
Q ss_pred cccccccccccccccccccccchhhHHHHHHHHHhhhcCCCCCCchhhhhhHHHHHHHHHHHHHHHhHHhhcCCCCCCCC
Q 047665 388 HGVKGRGGYELHAYRDWWCGKSELSKKVLLKKILEKDVGLDVMPPSFVNGCMVNERRRAKINAAKIRIDKIMNPSRASTG 467 (530)
Q Consensus 388 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pp~~~~~~~~~~~~~~~i~~ak~r~~~~~~~~~~~~~ 467 (530)
.+++.+....+....+||.++++.++..+.+++|++|.|.++.||+ +|++.+.|+|+.|+.+||.|+..|.||+....+
T Consensus 373 ~~~~~~~~~~~~~~~d~~~~~~~~~~~~l~r~~l~~~a~~~a~~~~-~n~e~l~E~~~~~~~~ak~~~~g~~~~~~k~~~ 451 (521)
T KOG1598|consen 373 MAEQLASVWLRVLTLDKRSGVKHIDDLLLERQLLEESAGRDATEPM-ENAETLVEERPGKAKAAKEREEGINSLSKKVGE 451 (521)
T ss_pred cchhhhhcchhhhhccccccccccCHHHHHHHHhhhHHhhhcchhh-hhHHHHHhhchhhhhhhHhhhhccccccccccc
Confidence 8888887677777788999999999999999999999999999996 999999999999999999999999999999988
Q ss_pred CCcccchhhhhhhhhhccCCCCCCChhHHHHHHHHhccCCHHHHhhcccccchhhhcccCC
Q 047665 468 DVDNVYFLESVHTRKRKRKPVAEIDWEDLIIETLLLHQVKEEEIEAGHYNTLLDLHVFNSG 528 (530)
Q Consensus 468 ~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~i~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~ 528 (530)
...+. .+.|..++.+++.. |+|++-+|.+..||++.++|||+ .|..+.|||+++
T Consensus 452 r~~s~---~~~t~~eavk~~~~-i~~~s~~in~~~L~~i~d~~~e~---~~~~p~~v~~~~ 505 (521)
T KOG1598|consen 452 RRNSP---ELLTAPEAVKSMKE-IKPVSSVINYSVLENISDAEIEQ---YTRTPQHVRDFQ 505 (521)
T ss_pred ccCCC---cccccHHHHHHHHh-ccccccchHHHHHHHHhhhhccc---ccCCchhhhhHH
Confidence 88888 88888888888843 99999999999999999999999 799999999976
|
|
| >PRK00423 tfb transcription initiation factor IIB; Reviewed | Back alignment and domain information |
|---|
| >COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] | Back alignment and domain information |
|---|
| >KOG1597 consensus Transcription initiation factor TFIIB [Transcription] | Back alignment and domain information |
|---|
| >PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >PRK00423 tfb transcription initiation factor IIB; Reviewed | Back alignment and domain information |
|---|
| >KOG0835 consensus Cyclin L [General function prediction only] | Back alignment and domain information |
|---|
| >TIGR00569 ccl1 cyclin ccl1 | Back alignment and domain information |
|---|
| >KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] | Back alignment and domain information |
|---|
| >PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule | Back alignment and domain information |
|---|
| >cd00043 CYCLIN Cyclin box fold | Back alignment and domain information |
|---|
| >COG5333 CCL1 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >KOG1597 consensus Transcription initiation factor TFIIB [Transcription] | Back alignment and domain information |
|---|
| >smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma | Back alignment and domain information |
|---|
| >cd00043 CYCLIN Cyclin box fold | Back alignment and domain information |
|---|
| >smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma | Back alignment and domain information |
|---|
| >KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] | Back alignment and domain information |
|---|
| >KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] | Back alignment and domain information |
|---|
| >KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation | Back alignment and domain information |
|---|
| >KOG2496 consensus Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell cycle control, cell division, chromosome partitioning; Transcription; Replication, recombination and repair] | Back alignment and domain information |
|---|
| >KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >KOG0653 consensus Cyclin B and related kinase-activating proteins [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >COG5024 Cyclin [Cell division and chromosome partitioning] | Back alignment and domain information |
|---|
| >PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[] | Back alignment and domain information |
|---|
| >PHA00626 hypothetical protein | Back alignment and domain information |
|---|
| >PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins | Back alignment and domain information |
|---|
| >COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
|---|
| >KOG0835 consensus Cyclin L [General function prediction only] | Back alignment and domain information |
|---|
| >PRK00415 rps27e 30S ribosomal protein S27e; Reviewed | Back alignment and domain information |
|---|
| >KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >TIGR01206 lysW lysine biosynthesis protein LysW | Back alignment and domain information |
|---|
| >PRK00420 hypothetical protein; Validated | Back alignment and domain information |
|---|
| >PF13248 zf-ribbon_3: zinc-ribbon domain | Back alignment and domain information |
|---|
| >PRK00464 nrdR transcriptional regulator NrdR; Validated | Back alignment and domain information |
|---|
| >PF02984 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR004367 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >PLN00209 ribosomal protein S27; Provisional | Back alignment and domain information |
|---|
| >COG1645 Uncharacterized Zn-finger containing protein [General function prediction only] | Back alignment and domain information |
|---|
| >PTZ00083 40S ribosomal protein S27; Provisional | Back alignment and domain information |
|---|
| >PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [] | Back alignment and domain information |
|---|
| >TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain | Back alignment and domain information |
|---|
| >PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C | Back alignment and domain information |
|---|
| >PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues | Back alignment and domain information |
|---|
| >PF13240 zinc_ribbon_2: zinc-ribbon domain | Back alignment and domain information |
|---|
| >smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase | Back alignment and domain information |
|---|
| >PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >PRK00432 30S ribosomal protein S27ae; Validated | Back alignment and domain information |
|---|
| >COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain | Back alignment and domain information |
|---|
| >PRK11827 hypothetical protein; Provisional | Back alignment and domain information |
|---|
| >TIGR00244 transcriptional regulator NrdR | Back alignment and domain information |
|---|
| >PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B | Back alignment and domain information |
|---|
| >smart00661 RPOL9 RNA polymerase subunit 9 | Back alignment and domain information |
|---|
| >PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function | Back alignment and domain information |
|---|
| >PF14354 Lar_restr_allev: Restriction alleviation protein Lar | Back alignment and domain information |
|---|
| >smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein | Back alignment and domain information |
|---|
| >PRK07408 RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
| >TIGR00569 ccl1 cyclin ccl1 | Back alignment and domain information |
|---|
| >PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional | Back alignment and domain information |
|---|
| >PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
|---|
| >PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27) | Back alignment and domain information |
|---|
| >PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues | Back alignment and domain information |
|---|
| >COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only] | Back alignment and domain information |
|---|
| >PRK05657 RNA polymerase sigma factor RpoS; Validated | Back alignment and domain information |
|---|
| >TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS | Back alignment and domain information |
|---|
| >COG2835 Uncharacterized conserved protein [Function unknown] | Back alignment and domain information |
|---|
| >PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains | Back alignment and domain information |
|---|
| >PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >KOG1010 consensus Rb (Retinoblastoma tumor suppressor)-related protein [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A | Back alignment and domain information |
|---|
| >PTZ00255 60S ribosomal protein L37a; Provisional | Back alignment and domain information |
|---|
| >PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines | Back alignment and domain information |
|---|
| >TIGR03655 anti_R_Lar restriction alleviation protein, Lar family | Back alignment and domain information |
|---|
| >PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins | Back alignment and domain information |
|---|
| >COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >PF13730 HTH_36: Helix-turn-helix domain | Back alignment and domain information |
|---|
| >TIGR00686 phnA alkylphosphonate utilization operon protein PhnA | Back alignment and domain information |
|---|
| >PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
| >PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family | Back alignment and domain information |
|---|
| >PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4 | Back alignment and domain information |
|---|
| >PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif | Back alignment and domain information |
|---|
| >PRK11169 leucine-responsive transcriptional regulator; Provisional | Back alignment and domain information |
|---|
| >TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300 | Back alignment and domain information |
|---|
| >KOG1779 consensus 40s ribosomal protein S27 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >PF08613 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs) | Back alignment and domain information |
|---|
| >TIGR00280 L37a ribosomal protein L37a | Back alignment and domain information |
|---|
| >KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >PRK00135 scpB segregation and condensation protein B; Reviewed | Back alignment and domain information |
|---|
| >PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc | 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 | 530 | ||||
| 1d3u_B | 201 | Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+T | 4e-04 | ||
| 1ais_B | 200 | Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA- | 4e-04 |
| >pdb|1D3U|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA- Box Complex From Pyrococcus Woesei Length = 201 | Back alignment and structure |
|
| >pdb|1AIS|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box Complex From Pyrococcus Woesei Length = 200 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* Length = 200 | Back alignment and structure |
|---|
Score = 99.3 bits (247), Expect = 3e-24
Identities = 49/199 (24%), Positives = 84/199 (42%), Gaps = 8/199 (4%)
Query: 61 NYKEKKIYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVV 120
+ E+ + + +D +T +L L + + + G ++ AC Y
Sbjct: 3 DAAERNLAFALSELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAA 62
Query: 121 MRLDDKSLPISEVASVLNCDVYELGRMITRVVEFLNLKLPEVDIVSMFERVIRNSRLQGF 180
RL + E+A + D E+GR + LNL + V + V + +
Sbjct: 63 CRLLKVPRTLDEIADIARVDKKEIGRSYRFIARNLNLTPKK-LFVKPTDYVNKFA----- 116
Query: 181 TNLDESMLDRMRKQGVLLLNCAVKWFLTTGRRPMPVVVAVLVFVVELNGVSVKIENVAKE 240
L + +++R++ + +L+ A K LT+G+ P +V A L L G VA+
Sbjct: 117 DELG--LSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEV 174
Query: 241 VHCTVVTCRKRYKELLEAL 259
T VT R RYKEL+E L
Sbjct: 175 ARVTEVTVRNRYKELVEKL 193
|
| >3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} Length = 345 | Back alignment and structure |
|---|
| >1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* Length = 207 | 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 |
|---|
| >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 |
|---|
| >3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 530 | |||
| 4bbr_M | 345 | Transcription initiation factor IIB; RNA polymeras | 100.0 | |
| 3k7a_M | 345 | Transcription initiation factor IIB; RNA polymeras | 100.0 | |
| 1ais_B | 200 | TFB TFIIB, protein (transcription initiation facto | 100.0 | |
| 1c9b_A | 207 | General transcription factor IIB; protein-DNA comp | 100.0 | |
| 1zp2_A | 235 | RNA polymerase II holoenzyme cyclin-like subunit; | 99.85 | |
| 2i53_A | 258 | Cyclin K; cell cycle, transcription, cyclin BOX, C | 99.78 | |
| 2ivx_A | 257 | Cyclin-T2; transcription regulation, cell division | 99.77 | |
| 2b9r_A | 269 | Human cyclin B1; cell cycle; 2.90A {Homo sapiens} | 99.75 | |
| 2w96_A | 271 | G1/S-specific cyclin-D1; serine/threonine-protein | 99.73 | |
| 3rgf_B | 285 | Cyclin-C; protein kinase complex, transferase,tran | 99.73 | |
| 2cch_B | 260 | Cyclin A2, cyclin-A; complex(transferase/cell divi | 99.72 | |
| 2pk2_A | 358 | Cyclin-T1, protein TAT; TAR, twinning, transcripti | 99.68 | |
| 2f2c_A | 254 | Cyclin homolog, V-cyclin; small molecule inhibitor | 99.66 | |
| 1g3n_C | 257 | V-cyclin; cyclin-dependent kinase, INK4 inhibitor, | 99.65 | |
| 1jkw_A | 323 | Cyclin H; cell cycle, cell division, nuclear prote | 99.61 | |
| 1w98_B | 283 | Cyclin E, G1/S-specific cyclin E1; cell cycle, tra | 99.57 | |
| 3g33_B | 306 | CCND3 protein; Ser/Thr protein kinase, cell cycle, | 99.55 | |
| 1ais_B | 200 | TFB TFIIB, protein (transcription initiation facto | 99.3 | |
| 1c9b_A | 207 | General transcription factor IIB; protein-DNA comp | 99.08 | |
| 1f5q_B | 252 | Gamma herpesvirus cyclin; herpesviral cyclin, cycl | 98.95 | |
| 4bbr_M | 345 | Transcription initiation factor IIB; RNA polymeras | 98.62 | |
| 1dl6_A | 58 | Transcription factor II B (TFIIB); zinc ribbon, ge | 98.55 | |
| 3k7a_M | 345 | Transcription initiation factor IIB; RNA polymeras | 98.41 | |
| 3k1f_M | 197 | Transcription initiation factor IIB; RNA polymeras | 98.29 | |
| 1pft_A | 50 | TFIIB, PFTFIIBN; N-terminal domain, transcription | 98.23 | |
| 3h4c_A | 260 | Transcription factor TFIIB-like; cyclin, transcrip | 97.55 | |
| 1zp2_A | 235 | RNA polymerase II holoenzyme cyclin-like subunit; | 96.87 | |
| 3m03_A | 95 | ORC6, origin recognition complex subunit 6; helix | 96.55 | |
| 2cch_B | 260 | Cyclin A2, cyclin-A; complex(transferase/cell divi | 96.52 | |
| 2b9r_A | 269 | Human cyclin B1; cell cycle; 2.90A {Homo sapiens} | 96.47 | |
| 2i53_A | 258 | Cyclin K; cell cycle, transcription, cyclin BOX, C | 96.16 | |
| 3rgf_B | 285 | Cyclin-C; protein kinase complex, transferase,tran | 96.1 | |
| 2w96_A | 271 | G1/S-specific cyclin-D1; serine/threonine-protein | 96.08 | |
| 2ivx_A | 257 | Cyclin-T2; transcription regulation, cell division | 96.07 | |
| 1jkw_A | 323 | Cyclin H; cell cycle, cell division, nuclear prote | 95.94 | |
| 2f2c_A | 254 | Cyclin homolog, V-cyclin; small molecule inhibitor | 95.43 | |
| 2pk2_A | 358 | Cyclin-T1, protein TAT; TAR, twinning, transcripti | 95.05 | |
| 1g3n_C | 257 | V-cyclin; cyclin-dependent kinase, INK4 inhibitor, | 95.0 | |
| 4ell_A | 411 | Retinoblastoma-associated protein; cyclin fold, tu | 94.98 | |
| 1vq8_Z | 83 | 50S ribosomal protein L37AE; ribosome 50S, protein | 94.28 | |
| 1qxf_A | 66 | GR2, 30S ribosomal protein S27E; structural genomi | 94.27 | |
| 2js4_A | 70 | UPF0434 protein BB2007; NESG, northeast structural | 94.19 | |
| 2pk7_A | 69 | Uncharacterized protein; NESG, PLR1, putative tetr | 94.18 | |
| 2hf1_A | 68 | Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A | 94.17 | |
| 3j20_W | 63 | 30S ribosomal protein S27E; archaea, archaeal, KIN | 94.09 | |
| 2jr6_A | 68 | UPF0434 protein NMA0874; solution, structural geno | 94.02 | |
| 2jny_A | 67 | Uncharacterized BCR; structure, CGR1, NESG, struct | 93.78 | |
| 4elj_A | 656 | Retinoblastoma-associated protein; cyclin fold, tu | 93.74 | |
| 2qdj_A | 304 | Retinoblastoma-associated protein; cyclin fold, cy | 93.67 | |
| 2r7g_A | 347 | PP110, retinoblastoma-associated protein, P105-RB, | 93.63 | |
| 2xzm_6 | 81 | RPS27E; ribosome, translation; 3.93A {Tetrahymena | 93.22 | |
| 3g33_B | 306 | CCND3 protein; Ser/Thr protein kinase, cell cycle, | 93.07 | |
| 3u5c_b | 82 | RP61, YS20, 40S ribosomal protein S27-A; translati | 92.91 | |
| 3j20_Y | 50 | 30S ribosomal protein S27AE; archaea, archaeal, KI | 92.12 | |
| 3iz6_X | 86 | 40S ribosomal protein S27 (S27E); eukaryotic ribos | 91.97 | |
| 1w98_B | 283 | Cyclin E, G1/S-specific cyclin E1; cell cycle, tra | 90.72 | |
| 4elj_A | 656 | Retinoblastoma-associated protein; cyclin fold, tu | 88.63 | |
| 2lnb_A | 80 | Z-DNA-binding protein 1; structural genomics, nort | 87.83 | |
| 3iz5_m | 92 | 60S ribosomal protein L43 (L37AE); eukaryotic ribo | 87.43 | |
| 3izc_m | 92 | 60S ribosomal protein RPL43 (L37AE); eukaryotic ri | 86.68 | |
| 3m03_A | 95 | ORC6, origin recognition complex subunit 6; helix | 86.51 | |
| 4a17_Y | 103 | RPL37A, 60S ribosomal protein L32; eukaryotic ribo | 86.36 | |
| 1tc3_C | 51 | Protein (TC3 transposase); DNA binding, helix-turn | 84.55 | |
| 2kpi_A | 56 | Uncharacterized protein SCO3027; zinc finger, PSI- | 84.2 | |
| 2r7g_A | 347 | PP110, retinoblastoma-associated protein, P105-RB, | 84.11 | |
| 3j21_i | 83 | 50S ribosomal protein L37AE; archaea, archaeal, KI | 83.95 | |
| 3o9x_A | 133 | Uncharacterized HTH-type transcriptional regulato; | 83.91 | |
| 2k4x_A | 55 | 30S ribosomal protein S27AE; metal-binding, ribonu | 83.6 | |
| 2jt1_A | 77 | PEFI protein; solution structure, winged helix-tur | 82.34 | |
| 2akl_A | 138 | PHNA-like protein PA0128; two domains, Zn binding | 82.34 | |
| 1qyp_A | 57 | RNA polymerase II; transcription, RPB9, Zn ribbon, | 81.92 | |
| 1ffk_W | 73 | Ribosomal protein L37AE; ribosome assembly, RNA-RN | 81.89 | |
| 3ga8_A | 78 | HTH-type transcriptional regulator MQSA (YGIT/B30; | 81.62 | |
| 3cc2_Z | 116 | 50S ribosomal protein L37AE, 50S ribosomal protein | 81.55 | |
| 1nui_A | 255 | DNA primase/helicase; zinc-biding domain, toprim f | 81.22 | |
| 2jpc_A | 61 | SSRB; DNA binding protein, structural genomics, PS | 80.99 | |
| 2o8x_A | 70 | Probable RNA polymerase sigma-C factor; promoter r | 80.08 | |
| 3hug_A | 92 | RNA polymerase sigma factor; ECF sigma factor, zin | 80.04 |
| >4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M | Back alignment and structure |
|---|
Probab=100.00 E-value=1.5e-52 Score=435.84 Aligned_cols=268 Identities=15% Similarity=0.210 Sum_probs=132.6
Q ss_pred CCCCCCCC--CCeEEecCCCcEEcCCCceeec---------ccCcccCC------CCCCCCCCcEEee---------ccc
Q 047665 1 MPCTSCGS--KTLTREDISGSLICVSCGVVQA---------FDNYDAQL------YGRDGPTGIYVHV---------GTA 54 (530)
Q Consensus 1 M~Cp~CG~--~~iv~D~~~G~~VCt~CG~Vle---------~~~f~~~~------~~~g~p~gt~i~~---------g~~ 54 (530)
+.||+||+ +++++|+.+|++||++||+|++ |+.|+++. .+.|+|.+++++. +..
T Consensus 22 ~~Cp~C~~~~~~lv~D~~~G~~vC~~CGlVl~e~~iD~g~EWR~f~~d~~~~~d~sRvG~~~~~~~~~~glsT~I~~~~~ 101 (345)
T 4bbr_M 22 LTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTRSEWRTFSNDDHNGDDPSRVGEASNPLLDGNNLSTRIGKGET 101 (345)
T ss_dssp CCCSSCCCSSCCEEEEGGGTEEEETTTCBEEESCCBCHHHHHTTTSCSCSSSCCSSCCEEEECHHHHCSCCCCEEECCSS
T ss_pred CcCCCCCCCCCceeEECCCCcEEeCCCCCCccCcccccCccccCCCcccccCCCcCCCCCCCCccccCCCcceeecCCCC
Confidence 47999997 6899999999999999999998 45665332 2346665444432 111
Q ss_pred CC---C---------CCcchHhHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHHHH
Q 047665 55 GT---G---------SALNYKEKKIYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVVMR 122 (530)
Q Consensus 55 g~---g---------s~~s~rer~L~~a~~~I~~i~~~LgLp~~i~e~A~~i~k~a~~~~l~rGR~~~~vaAAclYiACR 122 (530)
+. + +..+++||+|..|++.|+++|.+|+||..++++|..+|+++.+.++++||+.+.++|||||+|||
T Consensus 102 ~~~~~~~~L~r~q~r~~~~~~er~L~~a~~~I~~~~~~L~Lp~~v~d~A~~lyk~a~~~~~~rGrs~e~vaAAclYiACR 181 (345)
T 4bbr_M 102 TDMRFTKELNKAQGKNVMDKKDNEVQAAFAKITMLCDAAELPKIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCR 181 (345)
T ss_dssp CCHHHHHHHHHHHHHTCCCCSSSSTTHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHHHHH
T ss_pred cchhhHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHH
Confidence 11 1 12466789999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCChHHHHHHhCCCHHHHHHHHHHHHHHhhhc------------CCccchhhHHHHHHHhcccCCCCccchHHHHH
Q 047665 123 LDDKSLPISEVASVLNCDVYELGRMITRVVEFLNLK------------LPEVDIVSMFERVIRNSRLQGFTNLDESMLDR 190 (530)
Q Consensus 123 ~~~~P~TL~DIA~~~~vd~~~Lgr~~k~L~k~L~i~------------~p~vdp~~~I~R~~~~L~l~~v~~v~~e~~~~ 190 (530)
++++|+|++||++++++++++|+++|+.|.+.|++. +|+++|+.||+|||++|++ + ..
T Consensus 182 ~~~~prtl~eI~~~~~v~~keigr~~k~l~~~L~l~~~~~~~~~~~~~~~~~~p~~~i~Rf~s~L~l---~-------~~ 251 (345)
T 4bbr_M 182 RAEVARTFKEIQSLIHVKTKEFGKTLNIMKNILRGKSEDGFLKIDTDNMSGAQNLTYIPRFCSHLGL---P-------MQ 251 (345)
T ss_dssp HTCCBCCHHHHHHHHTCCTTHHHHHHHHHHHCC-----------------------------------------------
T ss_pred hcCCCccHHHHHHHhCCCHHHHHHHHHHHHHHhCccccccccccccccCCCCCHHHHHHHHHHHcCC---c-------HH
Confidence 999999999999999999999999999999999974 7889999999999999997 4 46
Q ss_pred HHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHhhcccCCCCc
Q 047665 191 MRKQGVLLLNCAVKWFLTTGRRPMPVVVAVLVFVVELNGVSVKIENVAKEVHCTVVTCRKRYKELLEALVKVAQALPWGK 270 (530)
Q Consensus 191 V~~~A~~Ll~~a~~~~l~tGR~P~sIAAAAIYlAa~~~g~k~t~~eIA~~~~VS~~TIrkRyKEL~e~L~~l~~~lpW~~ 270 (530)
+.+.|.+|++.+.+.|+++||+|.+|||||||+|++++|.++|+++||++++||++|||+||+||++++.+++++- |..
T Consensus 252 v~~~A~~i~~~~~~~~i~~GR~P~~IAAAaIylAa~l~g~~~t~~eIa~v~~Vse~TIr~rykel~~~~~~l~~~~-~~~ 330 (345)
T 4bbr_M 252 VTTSAEYTAKKCKEIKEIAGKSPITIAVVSIYLNILLFQIPITAAKVGQTLQVTEGTIKSGYKILYEHRDKLVDPQ-LIA 330 (345)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcCHH-Hhh
Confidence 8899999999999999999999999999999999999999999999999999999999999999999999999652 654
Q ss_pred --cCccccccc
Q 047665 271 --DVTVKNVLK 279 (530)
Q Consensus 271 --~v~~knl~~ 279 (530)
.++.+++|+
T Consensus 331 ~~~~~~~~l~~ 341 (345)
T 4bbr_M 331 NGVVSLDNLPG 341 (345)
T ss_dssp -----------
T ss_pred cccCchhhCCC
Confidence 466777754
|
| >3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* | Back alignment and structure |
|---|
| >1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* | Back alignment and structure |
|---|
| >1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
| >2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* | Back alignment and structure |
|---|
| >2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* | Back alignment and structure |
|---|
| >2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A | Back alignment and structure |
|---|
| >3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} | Back alignment and structure |
|---|
| >2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... | Back alignment and structure |
|---|
| >2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C | Back alignment and structure |
|---|
| >2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A | Back alignment and structure |
|---|
| >1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A | Back alignment and structure |
|---|
| >1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} | Back alignment and structure |
|---|
| >1ais_B TFB TFIIB, protein (transcription initiation factor IIB); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B* | Back alignment and structure |
|---|
| >1c9b_A General transcription factor IIB; protein-DNA complex, cyclin-like fold, helix-turn-helix, transcription/DNA complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2 PDB: 1tfb_A 2phg_A 1vol_A* | Back alignment and structure |
|---|
| >1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent kinase. protein/protein complex, transferase; 2.50A {Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M | Back alignment and structure |
|---|
| >1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A | Back alignment and structure |
|---|
| >3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1 | Back alignment and structure |
|---|
| >3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} | Back alignment and structure |
|---|
| >1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
| >3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens} | Back alignment and structure |
|---|
| >2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 2x1n_B* 1vyw_B* ... | Back alignment and structure |
|---|
| >2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B* | Back alignment and structure |
|---|
| >2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive transcription elongation factor, P-TEFB; 1.50A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} | Back alignment and structure |
|---|
| >2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A | Back alignment and structure |
|---|
| >2ivx_A Cyclin-T2; transcription regulation, cell division, phosphorylation, NU protein, cell cycle, transcription; 1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A 3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B* 3lq5_B* 3my1_B* 3tn8_B* | Back alignment and structure |
|---|
| >1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A | Back alignment and structure |
|---|
| >2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C-TERM domain of kinase, cell cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A | Back alignment and structure |
|---|
| >2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C | Back alignment and structure |
|---|
| >1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin, cell cycle, signaling protein; 2.90A {Human herpesvirus 8} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {Homo sapiens} | Back alignment and structure |
|---|
| >1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ... | Back alignment and structure |
|---|
| >1qxf_A GR2, 30S ribosomal protein S27E; structural genomics, beta sheet, PSI, protein structure initiative; NMR {Archaeoglobus fulgidus} SCOP: g.41.8.4 | Back alignment and structure |
|---|
| >2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50} | Back alignment and structure |
|---|
| >2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1 | Back alignment and structure |
|---|
| >2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1 | Back alignment and structure |
|---|
| >3j20_W 30S ribosomal protein S27E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} | Back alignment and structure |
|---|
| >2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis} | Back alignment and structure |
|---|
| >2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1 | Back alignment and structure |
|---|
| >4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} | Back alignment and structure |
|---|
| >2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge, antitumor protein; 2.00A {Homo sapiens} | Back alignment and structure |
|---|
| >2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B | Back alignment and structure |
|---|
| >2xzm_6 RPS27E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_6 | Back alignment and structure |
|---|
| >3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP-BIN cell division, disease mutation, kinase; 3.00A {Homo sapiens} | Back alignment and structure |
|---|
| >3u5c_b RP61, YS20, 40S ribosomal protein S27-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_X 3u5g_b | Back alignment and structure |
|---|
| >3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} | Back alignment and structure |
|---|
| >3iz6_X 40S ribosomal protein S27 (S27E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} | Back alignment and structure |
|---|
| >1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET: TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 | Back alignment and structure |
|---|
| >4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor protein, phosphorylation, cell; HET: TPO; 2.70A {Homo sapiens} | Back alignment and structure |
|---|
| >2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA binding protein, origin recognition CO DNA replication; HET: MES; 2.50A {Homo sapiens} | Back alignment and structure |
|---|
| >4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_Y 4a1c_Y 4a1e_Y | Back alignment and structure |
|---|
| >1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 | Back alignment and structure |
|---|
| >2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all beta, structural genomics, protein structure initiative; NMR {Streptomyces coelicolor} | Back alignment and structure |
|---|
| >2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3 PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B | Back alignment and structure |
|---|
| >3j21_i 50S ribosomal protein L37AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} | Back alignment and structure |
|---|
| >3o9x_A Uncharacterized HTH-type transcriptional regulato; HTH-XRE DNA binding motif, transcriptional regulator, bacter antitoxin, Zn binding protein, transcription regulator-DNA; HET: DNA; 2.10A {Escherichia coli} PDB: 3gn5_A* 3gn5_B* 2kz8_A | Back alignment and structure |
|---|
| >2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8 | Back alignment and structure |
|---|
| >2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2} | Back alignment and structure |
|---|
| >2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5 | Back alignment and structure |
|---|
| >1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1 | Back alignment and structure |
|---|
| >1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1* 1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1* 1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y* | Back alignment and structure |
|---|
| >3ga8_A HTH-type transcriptional regulator MQSA (YGIT/B30; helix-turn-helix, Zn-binding protein, DNA-binding, transcrip transcription regulation; HET: PE4; 1.70A {Escherichia coli k-12} PDB: 3hi2_A | Back alignment and structure |
|---|
| >3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z | Back alignment and structure |
|---|
| >1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2 | Back alignment and structure |
|---|
| >2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} | Back alignment and structure |
|---|
| >2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
| >3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} | 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 |
| 530 | ||||
| d1aisb2 | 95 | a.74.1.2 (B:1206-1300) Transcription factor IIB (T | 1e-06 | |
| d1aisb2 | 95 | a.74.1.2 (B:1206-1300) Transcription factor IIB (T | 1e-05 | |
| d1aisb1 | 98 | a.74.1.2 (B:1108-1205) Transcription factor IIB (T | 6e-06 | |
| d1aisb1 | 98 | a.74.1.2 (B:1108-1205) Transcription factor IIB (T | 3e-04 | |
| d1vola2 | 109 | a.74.1.2 (A:208-316) Transcription factor IIB (TFI | 1e-05 | |
| d1vola2 | 109 | a.74.1.2 (A:208-316) Transcription factor IIB (TFI | 2e-04 | |
| d1vola1 | 95 | a.74.1.2 (A:113-207) Transcription factor IIB (TFI | 3e-05 | |
| d1vola1 | 95 | a.74.1.2 (A:113-207) Transcription factor IIB (TFI | 3e-04 |
| >d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 95 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Cyclin-like superfamily: Cyclin-like family: Transcription factor IIB (TFIIB), core domain domain: Transcription factor IIB (TFIIB), core domain species: Archaeon Pyrococcus woesei [TaxId: 2262]
Score = 44.4 bits (105), Expect = 1e-06
Identities = 22/53 (41%), Positives = 27/53 (50%)
Query: 207 LTTGRRPMPVVVAVLVFVVELNGVSVKIENVAKEVHCTVVTCRKRYKELLEAL 259
LT+G+ P +V A L L G VA+ T VT R RYKEL+E L
Sbjct: 36 LTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTVRNRYKELVEKL 88
|
| >d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 95 | Back information, alignment and structure |
|---|
| >d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 98 | Back information, alignment and structure |
|---|
| >d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} Length = 98 | Back information, alignment and structure |
|---|
| >d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 109 | Back information, alignment and structure |
|---|
| >d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 109 | Back information, alignment and structure |
|---|
| >d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 95 | Back information, alignment and structure |
|---|
| >d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} Length = 95 | 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 | 530 | |||
| d1aisb1 | 98 | Transcription factor IIB (TFIIB), core domain {Arc | 99.8 | |
| d1vola1 | 95 | Transcription factor IIB (TFIIB), core domain {Hum | 99.8 | |
| d1vola2 | 109 | Transcription factor IIB (TFIIB), core domain {Hum | 99.74 | |
| d1aisb2 | 95 | Transcription factor IIB (TFIIB), core domain {Arc | 99.72 | |
| d1aisb2 | 95 | Transcription factor IIB (TFIIB), core domain {Arc | 99.71 | |
| d1vola2 | 109 | Transcription factor IIB (TFIIB), core domain {Hum | 99.64 | |
| d1vola1 | 95 | Transcription factor IIB (TFIIB), core domain {Hum | 99.45 | |
| d1aisb1 | 98 | Transcription factor IIB (TFIIB), core domain {Arc | 99.45 | |
| d1dl6a_ | 58 | Transcription initiation factor TFIIB, N-terminal | 98.75 | |
| d1pfta_ | 50 | Transcription initiation factor TFIIB, N-terminal | 98.65 | |
| d2ivxa1 | 143 | Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | 98.01 | |
| d2i53a1 | 144 | Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | 97.97 | |
| d1jkwa1 | 151 | Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 | 97.75 | |
| d2cchb1 | 128 | Cyclin A {Cow (Bos taurus) [TaxId: 9913]} | 97.03 | |
| d1bu2a1 | 127 | Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} | 96.96 | |
| d1g3nc1 | 132 | Viral cyclin {Kaposi's sarcoma-associated herpesvi | 96.77 | |
| d1w98b2 | 140 | G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax | 96.73 | |
| d1f5qb1 | 141 | Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] | 96.66 | |
| d2ivxa2 | 113 | Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | 96.47 | |
| d2i53a2 | 110 | Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | 96.43 | |
| d2r7ga2 | 142 | Retinoblastoma tumor suppressor domains {Human (Ho | 95.92 | |
| d1qxfa_ | 58 | Ribosomal protein S27e {Archaeon Archaeoglobus ful | 95.03 | |
| d2ivxa2 | 113 | Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | 95.01 | |
| d2cchb2 | 124 | Cyclin A {Cow (Bos taurus) [TaxId: 9913]} | 94.39 | |
| d1jkwa1 | 151 | Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 | 93.52 | |
| d2i53a2 | 110 | Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | 93.48 | |
| d2ivxa1 | 143 | Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | 93.16 | |
| d2i53a1 | 144 | Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | 93.08 | |
| d2akla2 | 38 | Hypothetical protein PA0128, N-terminal domain {Ps | 92.84 | |
| d2jnya1 | 59 | Uncharacterized protein Cgl1405/cg1592 {Corynebact | 92.41 | |
| d2pk7a1 | 59 | Uncharacterized protein PFL1779 {Pseudomonas fluor | 92.19 | |
| d2hf1a1 | 59 | Hypothetical protein CV3345 {Chromobacterium viola | 91.2 | |
| d1i1ga1 | 60 | LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} | 89.61 | |
| d2cfxa1 | 63 | Transcriptional regulator LrpC {Bacillus subtilis | 88.32 | |
| d2cyya1 | 60 | Putative transcriptional regulator PH1519 {Archaeo | 87.05 | |
| d1vd4a_ | 62 | Transcription initiation factor TFIIE-alpha {Human | 86.43 | |
| d2cg4a1 | 63 | Regulatory protein AsnC {Escherichia coli [TaxId: | 86.12 | |
| d1nuia2 | 54 | Zinc-binding domain of primase-helicase {Bacteriop | 84.37 | |
| d1vqoz1 | 73 | Ribosomal protein L37ae {Archaeon Haloarcula maris | 83.91 | |
| d1biaa1 | 63 | Biotin repressor, N-terminal domain {Escherichia c | 81.64 | |
| d1rp3a2 | 71 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 81.5 | |
| d1jkwa2 | 126 | Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 | 80.86 |
| >d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Cyclin-like superfamily: Cyclin-like family: Transcription factor IIB (TFIIB), core domain domain: Transcription factor IIB (TFIIB), core domain species: Archaeon Pyrococcus woesei [TaxId: 2262]
Probab=99.80 E-value=1.4e-19 Score=153.28 Aligned_cols=94 Identities=20% Similarity=0.253 Sum_probs=90.6
Q ss_pred HHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHhhCCCCCCCchhHHHHHHHHHHHHhcCCCCChHHHHHHhCCCHHHHHH
Q 047665 67 IYESNKLIDELTFKLDLTGQRSIQIKNMIDKITDGEFGLGDWFPILIGACSYVVMRLDDKSLPISEVASVLNCDVYELGR 146 (530)
Q Consensus 67 L~~a~~~I~~i~~~LgLp~~i~e~A~~i~k~a~~~~l~rGR~~~~vaAAclYiACR~~~~P~TL~DIA~~~~vd~~~Lgr 146 (530)
|..|++.|+++|+.|+||+.+.++|..+|+++.+.++.+|+++..++|||||+|||+++.|+|++|||++++++.++|++
T Consensus 2 L~~a~~~I~~~~~~L~L~~~i~~~A~~i~k~~~~~~~~~g~~~~~iaaA~iY~Acr~~~~~~t~~eIa~~~~is~~ti~k 81 (98)
T d1aisb1 2 LAFALSELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDEIADIARVDKKEIGR 81 (98)
T ss_dssp HHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTTTTTTCCHHHHHHHHHHHHHHHHTCCCCHHHHHHHTTSCHHHHHH
T ss_pred HHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHCCCHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhcCC
Q 047665 147 MITRVVEFLNLKLP 160 (530)
Q Consensus 147 ~~k~L~k~L~i~~p 160 (530)
+|+.|.+.|++++.
T Consensus 82 ~yk~i~~~L~l~~~ 95 (98)
T d1aisb1 82 SYRFIARNLNLTPK 95 (98)
T ss_dssp HHHHHHHHTTCCTT
T ss_pred HHHHHHHHcCCCcc
Confidence 99999999997543
|
| >d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} | Back information, alignment and structure |
|---|
| >d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} | Back information, alignment and structure |
|---|
| >d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} | Back information, alignment and structure |
|---|
| >d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} | Back information, alignment and structure |
|---|
| >d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} | Back information, alignment and structure |
|---|
| >d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} | Back information, alignment and structure |
|---|
| >d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} | Back information, alignment and structure |
|---|
| >d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} | Back information, alignment and structure |
|---|
| >d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1qxfa_ g.41.8.4 (A:) Ribosomal protein S27e {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} | Back information, alignment and structure |
|---|
| >d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} | Back information, alignment and structure |
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| >d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2i53a2 a.74.1.1 (A:158-267) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]} | Back information, alignment and structure |
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| >d2jnya1 b.171.1.1 (A:1-59) Uncharacterized protein Cgl1405/cg1592 {Corynebacterium glutamicum [TaxId: 1718]} | Back information, alignment and structure |
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| >d2pk7a1 b.171.1.1 (A:3-61) Uncharacterized protein PFL1779 {Pseudomonas fluorescens [TaxId: 294]} | Back information, alignment and structure |
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| >d2hf1a1 b.171.1.1 (A:2-60) Hypothetical protein CV3345 {Chromobacterium violaceum [TaxId: 536]} | Back information, alignment and structure |
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| >d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} | Back information, alignment and structure |
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| >d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
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| >d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} | Back information, alignment and structure |
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| >d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1nuia2 g.41.3.2 (A:10-63) Zinc-binding domain of primase-helicase {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
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| >d1vqoz1 g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]} | Back information, alignment and structure |
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| >d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
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| >d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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