Citrus Sinensis ID: 023010

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------29
MSFARNYRQQGGTYHDRHWSSFNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVSSSNKTLVPPVSISNIEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVKSNSMAV
cccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHccccc
cccHEEcccccccccccccccccccccccccccccccEEEcccccccccccccccccccHHcccccccccEccccccccccccHHHcccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccEEEcHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccHccccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHEccccccc
msfarnyrqqggtyhdrhwssfnrdncssnsynnynynrswndnhvrnynnfhsysgkfrehyqydnpsyitasyvqpnnapsfkrrkfsasawgdsarnylqvpneyETAVsssnktlvppvsisnievstsmsckrdrskleddepvfmsrdeierfspsrkdGIDALRETHLRYSYCAFIQNLglrlelpqttiGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAkseetprplnDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSAnnsvksnsmav
msfarnyrqqggtyhdrhwssfnrDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAvsssnktlvppvsisnievstsmsckrdrskleddepvfmsrdeierfspsrkdGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLqsannsvksnsmav
MSFARNYRQQGGTYHDRHWSSFnrdncssnsynnynynrswndnHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVSSSNKTLVPPVSISNIEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRfiiataalflaaKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVKSNSMAV
****************RHWSSFNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQ****************W******YL****************************************************************IDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAK*********DVLRASSELYHKQNITLLSYLLPIVRVSTTISVL**************
*********************FNR***************SWNDNHVRNY***************************************************************************************************VFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQN******LL*IVRVSTTISVLQSANNSVKSNS***
*************YHDRHWSSFNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEY********KTLVPPVSISNIEVS*************DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSA***********
*SFARNYRQQGGTYHDRHWSSFNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVSSSNKT*VP*************************EPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNS*K******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MSFARNYRQQGGTYHDRHWSSFNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSYSGKFREHYQYDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVSSSNKTLVPPVSISNIEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVKSNSMAV
no confident homologs detected

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 ?
Query288 2.2.26 [Sep-21-2011]
Q2QQS5 543 Cyclin-T1-4 OS=Oryza sati yes no 0.364 0.193 0.590 5e-33
Q8GYM6 541 Cyclin-T1-4 OS=Arabidopsi yes no 0.371 0.197 0.579 2e-32
Q2RAC5 490 Cyclin-T1-3 OS=Oryza sati no no 0.364 0.214 0.590 7e-32
Q9FKE6 579 Cyclin-T1-5 OS=Arabidopsi no no 0.364 0.181 0.580 9e-32
Q56YF8 460 Cyclin-T1-2 OS=Arabidopsi no no 0.399 0.25 0.581 3e-31
Q8LBC0 317 Cyclin-T1-3 OS=Arabidopsi no no 0.364 0.331 0.542 1e-27
Q0E474 446 Cyclin-T1-1 OS=Oryza sati no no 0.364 0.235 0.495 9e-27
Q6Z7H3 630 Cyclin-T1-2 OS=Oryza sati no no 0.336 0.153 0.494 2e-24
Q9C8P7 247 Putative cyclin-T1-1 OS=A no no 0.329 0.384 0.494 4e-19
Q9QWV9 724 Cyclin-T1 OS=Mus musculus yes no 0.361 0.143 0.390 3e-14
>sp|Q2QQS5|CCT14_ORYSJ Cyclin-T1-4 OS=Oryza sativa subsp. japonica GN=CYCT1-1 PE=2 SV=1 Back     alignment and function desciption
 Score =  141 bits (356), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 62/105 (59%), Positives = 82/105 (78%)

Query: 150 FMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFV 209
           + SR EIE  SPSR+DGID  +E++LR SYC F+Q+LG+RL++PQ TI TA+V CHRF++
Sbjct: 37  YFSRKEIEENSPSRRDGIDLKKESYLRKSYCTFLQDLGMRLKVPQVTIATAIVFCHRFYL 96

Query: 210 RRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQN 254
           R+SHA +DR  IAT  +FLA K EETPRPL DV+  S E+ HK++
Sbjct: 97  RQSHAKNDRRTIATVCMFLAGKVEETPRPLKDVILVSYEIIHKKD 141

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q8GYM6|CCT14_ARATH Cyclin-T1-4 OS=Arabidopsis thaliana GN=CYCT1-4 PE=1 SV=1 Back     alignment and function description
>sp|Q2RAC5|CCT13_ORYSJ Cyclin-T1-3 OS=Oryza sativa subsp. japonica GN=CYCT1-3 PE=3 SV=2 Back     alignment and function description
>sp|Q9FKE6|CCT15_ARATH Cyclin-T1-5 OS=Arabidopsis thaliana GN=CYCT1-5 PE=2 SV=2 Back     alignment and function description
>sp|Q56YF8|CCT12_ARATH Cyclin-T1-2 OS=Arabidopsis thaliana GN=CYCT1-2 PE=2 SV=2 Back     alignment and function description
>sp|Q8LBC0|CCT13_ARATH Cyclin-T1-3 OS=Arabidopsis thaliana GN=CYCT1-3 PE=1 SV=2 Back     alignment and function description
>sp|Q0E474|CCT11_ORYSJ Cyclin-T1-1 OS=Oryza sativa subsp. japonica GN=CYCT1-1 PE=3 SV=2 Back     alignment and function description
>sp|Q6Z7H3|CCT12_ORYSJ Cyclin-T1-2 OS=Oryza sativa subsp. japonica GN=CYCT1_2 PE=2 SV=2 Back     alignment and function description
>sp|Q9C8P7|CCT11_ARATH Putative cyclin-T1-1 OS=Arabidopsis thaliana GN=CYCT1-1 PE=3 SV=1 Back     alignment and function description
>sp|Q9QWV9|CCNT1_MOUSE Cyclin-T1 OS=Mus musculus GN=Ccnt1 PE=1 SV=3 Back     alignment and function description

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 ?
Query288
224099767323 predicted protein [Populus trichocarpa] 0.861 0.767 0.651 3e-90
297737019315 unnamed protein product [Vitis vinifera] 0.854 0.780 0.651 2e-84
225432602363 PREDICTED: cyclin-T1-4 [Vitis vinifera] 0.854 0.677 0.651 3e-84
255552333 403 Cyclin-L1, putative [Ricinus communis] g 0.895 0.640 0.628 4e-84
147794477 443 hypothetical protein VITISV_012971 [Viti 0.854 0.555 0.647 8e-83
449444781378 PREDICTED: cyclin-T1-4-like [Cucumis sat 0.895 0.682 0.561 2e-75
449512870378 PREDICTED: LOW QUALITY PROTEIN: cyclin-T 0.895 0.682 0.558 2e-74
363807118327 uncharacterized protein LOC100797811 [Gl 0.871 0.767 0.553 5e-68
356536023372 PREDICTED: cyclin-T1-4-like [Glycine max 0.881 0.682 0.554 7e-65
356541522372 PREDICTED: cyclin-T1-4-like [Glycine max 0.871 0.674 0.526 4e-64
>gi|224099767|ref|XP_002311610.1| predicted protein [Populus trichocarpa] gi|222851430|gb|EEE88977.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  337 bits (865), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 176/270 (65%), Positives = 207/270 (76%), Gaps = 22/270 (8%)

Query: 1   MSFARNYRQQGGTYHDRHWSS-----FNRDNCSSNSYNNYNYNRSWNDNHVRNYNNFHSY 55
           MSFARN+R  GGT HD  W+S     FN  N + ++  N NY+ +WN +++R+Y+     
Sbjct: 1   MSFARNHRSHGGTGHDDRWNSLNGYNFNHGNRNIDANRNTNYSYNWNHSNIRDYS----- 55

Query: 56  SGKFREHYQ-YDNPSYITASYVQPNNAPSFKRRKFSASAWGDSARNYLQVPNEYETAVSS 114
           SGKFR+H   Y NP         P+ AP+FKRRKFSA  WGD  R+Y Q  N YE A  S
Sbjct: 56  SGKFRDHVNGYANP---------PSGAPAFKRRKFSADTWGDGGRHYPQY-NAYEYADLS 105

Query: 115 SNKTLVPPVSISNIEVSTSMSCKRDRSKLEDDEPVFMSRDEIERFSPSRKDGIDALRETH 174
            N + VP  + SN EVSTS+SCKRD SKLE+DEPVF+S+DEIER SPSRKDGIDALRETH
Sbjct: 106 YNNS-VPLPTRSNDEVSTSISCKRDCSKLEEDEPVFLSKDEIERHSPSRKDGIDALRETH 164

Query: 175 LRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234
           LRYSYCAF+QNLGLRLELPQTTIGT MVLCHRFFVRRSHACHDR++IA AALFLAAKSEE
Sbjct: 165 LRYSYCAFLQNLGLRLELPQTTIGTGMVLCHRFFVRRSHACHDRYLIAVAALFLAAKSEE 224

Query: 235 TPRPLNDVLRASSELYHKQNITLLSYLLPI 264
           TPRPLN+V+R S E++HKQ+IT LSYLLP+
Sbjct: 225 TPRPLNNVVRVSCEIFHKQDITFLSYLLPV 254

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297737019|emb|CBI26220.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225432602|ref|XP_002277920.1| PREDICTED: cyclin-T1-4 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255552333|ref|XP_002517211.1| Cyclin-L1, putative [Ricinus communis] gi|223543846|gb|EEF45374.1| Cyclin-L1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|147794477|emb|CAN71612.1| hypothetical protein VITISV_012971 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449444781|ref|XP_004140152.1| PREDICTED: cyclin-T1-4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449512870|ref|XP_004164165.1| PREDICTED: LOW QUALITY PROTEIN: cyclin-T1-4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|363807118|ref|NP_001242338.1| uncharacterized protein LOC100797811 [Glycine max] gi|255636314|gb|ACU18496.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356536023|ref|XP_003536540.1| PREDICTED: cyclin-T1-4-like [Glycine max] Back     alignment and taxonomy information
>gi|356541522|ref|XP_003539224.1| PREDICTED: cyclin-T1-4-like [Glycine max] Back     alignment and taxonomy information

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 ?
Query288
TAIR|locus:2122940 460 CYCT1;2 [Arabidopsis thaliana 0.399 0.25 0.538 3.3e-26
TAIR|locus:2122975 541 CYCT1;4 [Arabidopsis thaliana 0.444 0.236 0.460 8e-26
TAIR|locus:2196919 317 CYCT1;3 "cyclin T 1;3" [Arabid 0.357 0.324 0.485 7.8e-23
TAIR|locus:2153358 590 AT5G45190 [Arabidopsis thalian 0.437 0.213 0.423 3.1e-21
TAIR|locus:2008698247 CYCT1;1 "cyclin T1;1" [Arabido 0.361 0.421 0.438 1.4e-16
UNIPROTKB|F1RJC3203 CCNL2 "Uncharacterized protein 0.340 0.482 0.367 2.7e-11
UNIPROTKB|F2Z2C9173 CCNT2 "Cyclin-T2" [Homo sapien 0.350 0.583 0.313 7.1e-10
UNIPROTKB|F8WDY7173 CCNT2 "Cyclin-T2" [Homo sapien 0.350 0.583 0.313 7.1e-10
UNIPROTKB|A9XU13184 CYCT1b "Cyclin-T1" [Homo sapie 0.357 0.559 0.307 1.2e-09
UNIPROTKB|F2Z3J5236 CCNL2 "Cyclin-L2" [Homo sapien 0.333 0.406 0.364 4.5e-09
TAIR|locus:2122940 CYCT1;2 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 298 (110.0 bits), Expect = 3.3e-26, P = 3.3e-26
 Identities = 63/117 (53%), Positives = 77/117 (65%)

Query:   141 SKLEDDE--PVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIG 198
             S L DDE  P F SR+EIER SPSR+DGID   ET LR SYC F++ LG RL++PQ TI 
Sbjct:    21 SNLHDDEIIPWFFSREEIERNSPSRRDGIDLKTETRLRDSYCTFLEILGERLKVPQVTIA 80

Query:   199 TAMVLCHRFFVRRSHACHDRXXXXXXXXXXXXKSEETPRPLNDVLRASSELYHKQNI 255
             TA+  CHRFF+R+SHA +DR            K EETP  L DV+ AS E  HK+++
Sbjct:    81 TAIFFCHRFFLRQSHAKNDRQTIATVCMLLAGKVEETPVTLEDVIIASYERIHKKDL 137
GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA
GO:0004693 "cyclin-dependent protein serine/threonine kinase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=ISS
TAIR|locus:2122975 CYCT1;4 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2196919 CYCT1;3 "cyclin T 1;3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2153358 AT5G45190 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2008698 CYCT1;1 "cyclin T1;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1RJC3 CCNL2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z2C9 CCNT2 "Cyclin-T2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F8WDY7 CCNT2 "Cyclin-T2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|A9XU13 CYCT1b "Cyclin-T1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z3J5 CCNL2 "Cyclin-L2" [Homo sapiens (taxid:9606)] 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

Your Input:
fgenesh4_pg.C_LG_VIII001346
hypothetical protein (323 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query288
cd0004388 cd00043, CYCLIN, Cyclin box fold 3e-11
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 8e-11
COG5333 297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 1e-10
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-08
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information 
 Score = 58.0 bits (141), Expect = 3e-11
 Identities = 23/79 (29%), Positives = 39/79 (49%)

Query: 175 LRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEE 234
           +R +   F++ +   L L   T+  A+ L  RF +  S       ++A AAL+LAAK EE
Sbjct: 1   MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEE 60

Query: 235 TPRPLNDVLRASSELYHKQ 253
            P  L D++  +     ++
Sbjct: 61  IPPWLKDLVHVTGYATEEE 79

Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain. Length = 88
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information
>gnl|CDD|227640 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
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 288
KOG0834 323 consensus CDK9 kinase-activating protein cyclin T 99.96
TIGR00569 305 ccl1 cyclin ccl1. University). 99.91
KOG0835 367 consensus Cyclin L [General function prediction on 99.86
KOG0794 264 consensus CDK8 kinase-activating protein cyclin C 99.85
COG5333 297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 99.64
KOG2496 325 consensus Cdk activating kinase (CAK)/RNA polymera 99.56
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.37
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.33
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.16
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.06
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.78
KOG0656 335 consensus G1/S-specific cyclin D [Cell cycle contr 98.72
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 98.13
KOG1597308 consensus Transcription initiation factor TFIIB [T 97.95
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.84
COG5024 440 Cyclin [Cell division and chromosome partitioning] 97.55
KOG0655 408 consensus G1/S-specific cyclin E [Cell cycle contr 97.39
KOG0653 391 consensus Cyclin B and related kinase-activating p 97.35
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.02
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 96.54
KOG1597308 consensus Transcription initiation factor TFIIB [T 96.31
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 94.88
KOG1598 521 consensus Transcription initiation factor TFIIIB, 93.68
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 93.53
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 92.96
KOG0835 367 consensus Cyclin L [General function prediction on 92.66
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 88.65
TIGR00569305 ccl1 cyclin ccl1. University). 84.43
>KOG0834 consensus CDK9 kinase-activating protein cyclin T [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=99.96  E-value=3.5e-30  Score=244.71  Aligned_cols=133  Identities=36%  Similarity=0.572  Sum_probs=122.2

Q ss_pred             CCCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHH
Q 023010          145 DDEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATA  224 (288)
Q Consensus       145 ~~~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaA  224 (288)
                      ....|+|+++|+++.+||+.+|++.++|..+|..++.||+++|.+|++|+.+++||++||||||+.+++.+++++.||++
T Consensus         8 ~~~~w~~s~e~~~~~tpSr~~g~~~~~E~~~r~~~~~fI~elg~~L~~~~~ti~tA~~~~hRFy~~~s~~~~~~~~vA~s   87 (323)
T KOG0834|consen    8 ETSRWYFSKEQLEENTPSRRDGIDLKKELRLRQEGAKFIQELGVRLKMPQKTIATAIVIFHRFYMFHSFKKFDPYTVAAS   87 (323)
T ss_pred             cccccccCHHHHccCChhhccCCchhHHHHHHHHHHHHHHHHHHHcCCCccchhhhhhhhhhhhhhcccccCcHHHHHHH
Confidence            35689999999998999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCCCCCChHHHHHHHHhhhhccCcceeccccchhHHHHHHHHHHhhccccc
Q 023010          225 ALFLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVSTTISVLQSANNSVK  282 (288)
Q Consensus       225 CLFLAcKvEEtprkLRDII~va~~Il~k~~~~l~~y~~p~e~~~~~~~vlqa~n~~~~  282 (288)
                      |||||||+||+|++++|||.+++.++++.+     ......+++..++||+.+.-.|.
T Consensus        88 clfLAgKvEetp~kl~dIi~~s~~~~~~~~-----~~~~~~~~~~~~~Iv~~E~~lL~  140 (323)
T KOG0834|consen   88 CLFLAGKVEETPRKLEDIIKVSYRYLNPKD-----LELEEVYWELKERIVQLELLLLE  140 (323)
T ss_pred             HHHHHhhcccCcccHHHHHHHHHHHcCccc-----ccHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999977     23456677788888887765443

>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] 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
>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
>cd00043 CYCLIN Cyclin box fold 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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>KOG0656 consensus G1/S-specific cyclin D [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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>COG5024 Cyclin [Cell division and chromosome partitioning] Back     alignment and domain information
>KOG0655 consensus G1/S-specific cyclin E [Cell cycle control, cell division, chromosome partitioning] 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
>KOG4164 consensus Cyclin ik3-1/CABLES [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
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] 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
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [Transcription] 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
>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
>KOG0835 consensus Cyclin L [General function prediction only] 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
>TIGR00569 ccl1 cyclin ccl1 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 ?
Query288
2w2h_A 264 Structural Basis Of Transcription Activation By The 6e-09
2ivx_A 257 Crystal Structure Of Human Cyclin T2 At 1.8 A Resol 1e-08
3tnh_B 259 Cdk9CYCLIN T IN COMPLEX WITH CAN508 Length = 259 2e-08
3mi9_B 266 Crystal Structure Of Hiv-1 Tat Complexed With Human 2e-08
2pk2_A 358 Cyclin Box Structure Of The P-Tefb Subunit Cyclin T 4e-08
3blh_B 260 Crystal Structure Of Human Cdk9CYCLINT1 Length = 26 1e-07
2i53_A 258 Crystal Structure Of Cyclin K Length = 258 1e-05
>pdb|2W2H|A Chain A, Structural Basis Of Transcription Activation By The Cyclin T1-Tat-Tar Rna Complex From Eiav Length = 264 Back     alignment and structure 
Iteration: 1

 Score = 58.2 bits (139), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 1/104 (0%)
Query: 150 FMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFV 209
           + +R+++E  SPSR+ G+D  +E   R      +Q++G RL + Q TI TA+V  HRF++
Sbjct: 10  YFTREQLEN-SPSRRFGLDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 68
Query: 210 RRSHACHDRXXXXXXXXXXXXKSEETPRPLNDVLRASSELYHKQ 253
            +S     R            K EE P+ L  V++ +    H Q
Sbjct: 69  IQSFTRFHRNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQ 112
>pdb|2IVX|A Chain A, Crystal Structure Of Human Cyclin T2 At 1.8 A Resolution (Casp Target) Length = 257 Back     alignment and structure
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508 Length = 259 Back     alignment and structure
>pdb|3MI9|B Chain B, Crystal Structure Of Hiv-1 Tat Complexed With Human P-Tefb Length = 266 Back     alignment and structure
>pdb|2PK2|A Chain A, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1 Derived From A Fusion Complex With Eiav Tat Length = 358 Back     alignment and structure
>pdb|3BLH|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1 Length = 260 Back     alignment and structure
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K Length = 258 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query288
2i53_A 258 Cyclin K; cell cycle, transcription, cyclin BOX, C 6e-33
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 7e-33
2ivx_A 257 Cyclin-T2; transcription regulation, cell division 2e-29
3rgf_B 285 Cyclin-C; protein kinase complex, transferase,tran 1e-27
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 4e-27
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 7e-25
>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 Length = 258 Back     alignment and structure
 Score =  120 bits (302), Expect = 6e-33
 Identities = 30/104 (28%), Positives = 53/104 (50%), Gaps = 1/104 (0%)

Query: 150 FMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFV 209
           +  + ++   +PS+ +G+D   E   R     FI ++G RL L   T+ T ++  HRF++
Sbjct: 16  YWDKKDLAH-TPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFYM 74

Query: 210 RRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQ 253
             S     R++     LFLA K EETP+   D+++ +  L +  
Sbjct: 75  FHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDV 118
>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 Length = 358 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* Length = 257 Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 Back     alignment and structure
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Length = 235 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 Length = 323 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query288
2ivx_A 257 Cyclin-T2; transcription regulation, cell division 99.94
2i53_A 258 Cyclin K; cell cycle, transcription, cyclin BOX, C 99.92
2pk2_A 358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 99.91
3rgf_B 285 Cyclin-C; protein kinase complex, transferase,tran 99.91
1jkw_A 323 Cyclin H; cell cycle, cell division, nuclear prote 99.89
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 99.85
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.68
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.48
3g33_B 306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.39
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.38
2cch_B 260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.38
2b9r_A 269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.37
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.35
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.29
1w98_B 283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.23
3k7a_M 345 Transcription initiation factor IIB; RNA polymeras 99.2
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 99.07
4bbr_M 345 Transcription initiation factor IIB; RNA polymeras 98.96
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.09
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.89
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 96.88
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 96.58
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 95.79
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 95.76
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 95.63
2ivx_A257 Cyclin-T2; transcription regulation, cell division 93.96
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 93.7
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 92.4
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 92.3
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 92.1
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 91.04
3m03_A95 ORC6, origin recognition complex subunit 6; helix 89.59
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 89.59
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 88.8
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 87.62
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 85.82
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 83.08
2qdj_A 304 Retinoblastoma-associated protein; cyclin fold, cy 83.06
3h4c_A 260 Transcription factor TFIIB-like; cyclin, transcrip 81.92
>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
Probab=99.94  E-value=1.9e-26  Score=205.99  Aligned_cols=109  Identities=37%  Similarity=0.576  Sum_probs=104.4

Q ss_pred             CCCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHH
Q 023010          146 DEPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAA  225 (288)
Q Consensus       146 ~~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaAC  225 (288)
                      .++||||++||+ .+||+.+||++++|..+|..++++|+++|..|+||+.|++||++||||||+++++.+++++.|++||
T Consensus         2 ~~~w~~t~e~l~-~~ps~~~g~~~~~e~~~R~~~~~~i~~v~~~l~l~~~t~~~A~~~~dRf~~~~~~~~~~~qlv~~ac   80 (257)
T 2ivx_A            2 SSRWFFTREQLE-NTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTA   80 (257)
T ss_dssp             CGGGSCCHHHHH-SCHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCHHHHHHHH
T ss_pred             CCCeeecHHHHH-hChHhhcCCCHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhhCChhhhCHHHHHHHH
Confidence            468999999996 7999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCChHHHHHHHHhhhhccCc
Q 023010          226 LFLAAKSEETPRPLNDVLRASSELYHKQNI  255 (288)
Q Consensus       226 LFLAcKvEEtprkLRDII~va~~Il~k~~~  255 (288)
                      ||||||+||.|++++||+.+++.++++..+
T Consensus        81 L~lA~K~EE~p~~l~d~~~~~~~~~~~~~~  110 (257)
T 2ivx_A           81 LFLAAKVEEQARKLEHVIKVAHACLHPLEP  110 (257)
T ss_dssp             HHHHHHHTTCCCCHHHHHHHHHHHHCTTSC
T ss_pred             HHHHhccccCCcCHHHHHHHHHHHhccCCC
Confidence            999999999999999999999998887654
>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
>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
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} 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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M 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
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat domains, transcription-cell cycle complex; 3.00A {Schizosaccharomyces pombe} Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_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
>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
>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
>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
>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
>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
>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
>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
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {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
>3h4c_A Transcription factor TFIIB-like; cyclin, transcription factor TFIIB repeat; 2.30A {Trypanosoma brucei brucei} 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 ?
Query 288
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 1e-31
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 7e-31
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 6e-22
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 2e-07
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 1e-04
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 2e-04
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 4e-04
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 0.001
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin K
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (282), Expect = 1e-31
 Identities = 32/115 (27%), Positives = 58/115 (50%), Gaps = 2/115 (1%)

Query: 141 SKLEDDEPV-FMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGT 199
           + L+  +P  +  + ++   +PS+ +G+D   E   R     FI ++G RL L   T+ T
Sbjct: 2   ANLDHTKPCWYWDKKDLAH-TPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLAT 60

Query: 200 AMVLCHRFFVRRSHACHDRFIIATAALFLAAKSEETPRPLNDVLRASSELYHKQN 254
            ++  HRF++  S     R++     LFLA K EETP+   D+++ +  L +   
Sbjct: 61  GIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQ 115
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68 [TaxId: 33708]} Length = 141 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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} Length = 132 Back     information, alignment and structure
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} Length = 127 Back     information, alignment and structure
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Length = 140 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 ?
Query288
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.97
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.96
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.89
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.06
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.01
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 98.96
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 98.95
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 98.9
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 98.88
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 98.84
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.66
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.62
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 96.7
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 95.9
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 85.97
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 84.06
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin-T2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.6e-31  Score=218.26  Aligned_cols=130  Identities=32%  Similarity=0.444  Sum_probs=113.9

Q ss_pred             CCccccHHHHHHhCCCccCCCCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhhcccCcCcccHHHHHHHHH
Q 023010          147 EPVFMSRDEIERFSPSRKDGIDALRETHLRYSYCAFIQNLGLRLELPQTTIGTAMVLCHRFFVRRSHACHDRFIIATAAL  226 (288)
Q Consensus       147 ~~WlFT~eELe~~tPS~~dGL~~eeE~~LR~~~~~fIq~~G~~L~LPq~tiATAiVyfHRFYlr~S~~~~d~~~VAaACL  226 (288)
                      .+|+||++||+ .+||+++||++++|..+|..+|.||+++|.+|+||+.|++||++||||||+++++.+++++.||+|||
T Consensus         3 ~~w~~t~~~l~-~~pS~~~gi~~~~E~~~R~~~~~~i~~~~~~l~l~~~t~~~A~~l~~Rf~~~~s~~~~~~~~va~acl   81 (143)
T d2ivxa1           3 SRWFFTREQLE-NTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTAL   81 (143)
T ss_dssp             GGGSCCHHHHH-SCHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTSCTTTSCHHHHHHHHH
T ss_pred             CCCCCCHHHHH-hCcccccCCCHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCccccCHHHHHHHHH
Confidence            57999999997 69999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCChHHHHHHHHhhhhccCcceeccccchhHHH-HHHHHHHhhccc
Q 023010          227 FLAAKSEETPRPLNDVLRASSELYHKQNITLLSYLLPIVRVS-TTISVLQSANNS  280 (288)
Q Consensus       227 FLAcKvEEtprkLRDII~va~~Il~k~~~~l~~y~~p~e~~~-~~~~vlqa~n~~  280 (288)
                      |||||+||+++++++|++++..+.++....+.   ...+.+. ..++++..+.-.
T Consensus        82 ~LA~K~eE~~~~~~~ii~~~~~~~~~~~~~~~---~~~~~~~~~~~~i~~~E~~i  133 (143)
T d2ivxa1          82 FLAAKVEEQARKLEHVIKVAHACLHPLEPLLD---TKCDAYLQQTRELVILETIM  133 (143)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHCTTSCCCC---TTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccccccHHHHHHHHHHHhcccchhhh---hchhhhHHHHHHHHHHHHHH
Confidence            99999999999999999999999998766322   3333333 345555544433
>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
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma-associated herpesvirus [TaxId: 37296]} 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
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 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
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {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
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core domain {Human (Homo sapiens) [TaxId: 9606]} 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
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {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