Citrus Sinensis ID: 038028

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-------290-------300-------310-------320-------330-------
MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVSKKREKKSKHKSKSSHGMQNGP
ccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccHHHHccccHHHHHHHHHHHHHHHHHccccEEEEcccHHHHHHHHHHHHHHHHcHHHHHHcHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHccccHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHcHHccccccccccc
ccccccccccEEEEccHHHHHHHHHHHHHHHHHHHHHHccHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHcccHHHHHHHHHHHHHHHHcccccHHHHHHHccccHHHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHcHcHHHHHHHHHHcccHHHHccccccc
madfqtsthranwifTPQELIEKYKASNRRAIQTLEKYGTtqmevdvdgsfsypepqnnakdnsekhsrpkplnieeEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWsvmehhpkniMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFdlivyppyrplegfinDMEDFCQVKNGELQMLKDLHETAKLEVDkimltdapllfppgqVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVmkykfpsekdmKHINRKlkscwghgshdvskkrekkskhksksshgmqngp
madfqtsthranwiftpqELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPqnnakdnsekhsrpkplnieeeQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAAlrnsnkvqrVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKfpsekdmkhINRKlkscwghgshdvskkrekkskhksksshgmqngp
MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVskkrekkskhkskssHGMQNGP
**********ANWIFTPQELIEKYKASNRRAIQTLEKY*******************************************RVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSE***KHINRKLKSCW*****************************
*ADFQTSTHRANWIFTPQELIEKYKASNRRAIQT**************************************LNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLK********************************
********HRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPE**************PKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWG****************************
******STHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEV***********************RPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSH************************
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVSKKREKKSKHKSKSSHGMQNGP
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 ?
Query337 2.2.26 [Sep-21-2011]
Q8W5S1336 Cyclin-H1-1 OS=Arabidopsi yes no 0.973 0.976 0.647 1e-124
Q10D80330 Cyclin-H1-1 OS=Oryza sati yes no 0.905 0.924 0.603 1e-109
P51946323 Cyclin-H OS=Homo sapiens yes no 0.727 0.758 0.356 1e-33
Q4R7U4323 Cyclin-H OS=Macaca fascic N/A no 0.727 0.758 0.356 1e-33
Q3ZBL9320 Cyclin-H OS=Bos taurus GN yes no 0.738 0.778 0.354 1e-33
Q9R1A0323 Cyclin-H OS=Rattus norveg yes no 0.697 0.727 0.369 2e-33
Q61458323 Cyclin-H OS=Mus musculus yes no 0.703 0.733 0.366 3e-33
P51947323 Cyclin-H OS=Xenopus laevi N/A no 0.649 0.678 0.373 1e-32
Q55F19286 Putative cyclin-H OS=Dict yes no 0.510 0.601 0.344 8e-24
P36613322 Cyclin mcs2 OS=Schizosacc yes no 0.652 0.683 0.291 2e-21
>sp|Q8W5S1|CCH11_ARATH Cyclin-H1-1 OS=Arabidopsis thaliana GN=CYCH1-1 PE=1 SV=1 Back     alignment and function desciption
 Score =  445 bits (1145), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/338 (64%), Positives = 269/338 (79%), Gaps = 10/338 (2%)

Query: 1   MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNA 60
           MADFQTST RA WIFTPQ+L E+YKA+N+RA+Q LEK GTTQ+EVD  GS +YP+ +  +
Sbjct: 1   MADFQTSTQRAKWIFTPQKLAERYKAANQRAVQMLEKCGTTQVEVDASGSLTYPKDKVGS 60

Query: 61  KDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVM 120
            D ++K  + KPL+ +EE+ MR FYE K++EVCSAF FP+KIQATAL YFKRFYLQWSVM
Sbjct: 61  GDQADK--KLKPLSADEERFMRAFYEAKVQEVCSAFAFPHKIQATALQYFKRFYLQWSVM 118

Query: 121 EHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
           +HHPK IMLTCVYAACKIEENHVSAEE+GKGI+QDH++IL YEM V Q+LEFDLIVY PY
Sbjct: 119 QHHPKEIMLTCVYAACKIEENHVSAEEIGKGINQDHRIILKYEMAVLQSLEFDLIVYAPY 178

Query: 181 RPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLAL 240
           R +EGF+N+ME+F Q ++ E+Q L+ L + A  E DK+MLTDAPLLFPPG      QLAL
Sbjct: 179 RAIEGFVNNMEEFLQARDDEIQKLESLLKGATAEADKVMLTDAPLLFPPG------QLAL 232

Query: 241 AALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHI 300
           A+LR +N V  V++++ YL +I+S+ NS H  S+LT+ LD I+  V  YK PSEKDMKHI
Sbjct: 233 ASLRIANGVLGVIDFDRYLENIVSQPNSEHTTSELTKLLDNIEYLVKNYKCPSEKDMKHI 292

Query: 301 NRKLKSCWGH-GSHDVSKKREKKSKHKS-KSSHGMQNG 336
           NRKLKSC GH  SHD SKKREK+SKHKS +SS+   NG
Sbjct: 293 NRKLKSCLGHSSSHDESKKREKRSKHKSHRSSNDTPNG 330
Associates with CDK-2 and CDK-3 and activates the CDK kinases.
Arabidopsis thaliana (taxid: 3702)
>sp|Q10D80|CCH11_ORYSJ Cyclin-H1-1 OS=Oryza sativa subsp. japonica GN=CYCH1-1 PE=1 SV=1 Back     alignment and function description
>sp|P51946|CCNH_HUMAN Cyclin-H OS=Homo sapiens GN=CCNH PE=1 SV=1 Back     alignment and function description
>sp|Q4R7U4|CCNH_MACFA Cyclin-H OS=Macaca fascicularis GN=CCNH PE=2 SV=1 Back     alignment and function description
>sp|Q3ZBL9|CCNH_BOVIN Cyclin-H OS=Bos taurus GN=CCNH PE=2 SV=1 Back     alignment and function description
>sp|Q9R1A0|CCNH_RAT Cyclin-H OS=Rattus norvegicus GN=Ccnh PE=2 SV=2 Back     alignment and function description
>sp|Q61458|CCNH_MOUSE Cyclin-H OS=Mus musculus GN=Ccnh PE=2 SV=2 Back     alignment and function description
>sp|P51947|CCNH_XENLA Cyclin-H OS=Xenopus laevis GN=ccnh PE=1 SV=1 Back     alignment and function description
>sp|Q55F19|CCNH_DICDI Putative cyclin-H OS=Dictyostelium discoideum GN=cycH PE=3 SV=1 Back     alignment and function description
>sp|P36613|CGM2_SCHPO Cyclin mcs2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mcs2 PE=1 SV=1 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 ?
Query337
118489222363 unknown [Populus trichocarpa x Populus d 0.937 0.870 0.716 1e-140
356516489335 PREDICTED: cyclin-H1-1 isoform 1 [Glycin 0.913 0.919 0.748 1e-139
255646066335 unknown [Glycine max] 0.913 0.919 0.745 1e-139
225450865335 PREDICTED: cyclin-H1-1 [Vitis vinifera] 0.913 0.919 0.735 1e-138
357441691 501 Cyclin-H1-1 [Medicago truncatula] gi|355 0.943 0.634 0.704 1e-136
356563799335 PREDICTED: cyclin-H1-1-like isoform 1 [G 0.913 0.919 0.729 1e-135
4106515332 CAK associated cyclinH homolog [Populus 0.973 0.987 0.713 1e-135
224123530334 predicted protein [Populus trichocarpa] 0.973 0.982 0.711 1e-134
255542680312 cyclin h, putative [Ricinus communis] gi 0.919 0.993 0.688 1e-131
449448360332 PREDICTED: cyclin-H1-1-like [Cucumis sat 0.905 0.918 0.713 1e-130
>gi|118489222|gb|ABK96417.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
 Score =  503 bits (1295), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 233/325 (71%), Positives = 280/325 (86%), Gaps = 9/325 (2%)

Query: 1   MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNA 60
           MADFQ+S+H+A WIFTPQ+L EKYKA+N RA Q LEKYGTT+M VDVDGS SYPEPQ N 
Sbjct: 1   MADFQSSSHKAKWIFTPQQLAEKYKATNNRAKQMLEKYGTTRMRVDVDGSLSYPEPQVNM 60

Query: 61  KDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVM 120
            +N++KHSR KP+++EEEQ MRV+YE KLREVCSAFYFP+KIQATALLYFKRFYLQWSVM
Sbjct: 61  TENADKHSRSKPISVEEEQFMRVYYEYKLREVCSAFYFPHKIQATALLYFKRFYLQWSVM 120

Query: 121 EHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
           EH PK++MLTC+YAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQ+LEFDLIVY PY
Sbjct: 121 EHDPKHVMLTCIYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQSLEFDLIVYAPY 180

Query: 181 RPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLAL 240
           R +EGF+ D+E+FC   + +++ LK   E A  E+DKIMLTDAP++FPPG      QLAL
Sbjct: 181 RSVEGFVADIEEFCHPTDEDIEKLK---EIAVAEIDKIMLTDAPVMFPPG------QLAL 231

Query: 241 AALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHI 300
           AAL+++N+V RV+++E YL S+LSRQNS H+IS+++E+L  ++ WV KY FP++KDMKHI
Sbjct: 232 AALQSANEVHRVLDFERYLESVLSRQNSAHMISEISESLHAVEKWVKKYSFPTDKDMKHI 291

Query: 301 NRKLKSCWGHGSHDVSKKREKKSKH 325
           NRKLKSCWGH SHD +KKREKKSKH
Sbjct: 292 NRKLKSCWGHNSHDDNKKREKKSKH 316

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356516489|ref|XP_003526926.1| PREDICTED: cyclin-H1-1 isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|255646066|gb|ACU23520.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|225450865|ref|XP_002284178.1| PREDICTED: cyclin-H1-1 [Vitis vinifera] gi|296089659|emb|CBI39478.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357441691|ref|XP_003591123.1| Cyclin-H1-1 [Medicago truncatula] gi|355480171|gb|AES61374.1| Cyclin-H1-1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356563799|ref|XP_003550146.1| PREDICTED: cyclin-H1-1-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|4106515|gb|AAD02871.1| CAK associated cyclinH homolog [Populus tremula x Populus tremuloides] Back     alignment and taxonomy information
>gi|224123530|ref|XP_002330144.1| predicted protein [Populus trichocarpa] gi|222871600|gb|EEF08731.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255542680|ref|XP_002512403.1| cyclin h, putative [Ricinus communis] gi|223548364|gb|EEF49855.1| cyclin h, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449448360|ref|XP_004141934.1| PREDICTED: cyclin-H1-1-like [Cucumis sativus] gi|449524742|ref|XP_004169380.1| PREDICTED: cyclin-H1-1-like [Cucumis sativus] 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 ?
Query337
TAIR|locus:2143671336 CYCH;1 "cyclin H;1" [Arabidops 0.908 0.910 0.647 4e-106
UNIPROTKB|E1C948322 CCNH "Uncharacterized protein" 0.661 0.692 0.359 1e-36
RGD|69419323 Ccnh "cyclin H" [Rattus norveg 0.673 0.702 0.371 1.7e-36
UNIPROTKB|Q4R7U4323 CCNH "Cyclin-H" [Macaca fascic 0.667 0.696 0.373 2.7e-36
UNIPROTKB|E2R5P2323 CCNH "Uncharacterized protein" 0.670 0.699 0.366 3.5e-36
UNIPROTKB|P51946323 CCNH "Cyclin-H" [Homo sapiens 0.670 0.699 0.366 3.5e-36
MGI|MGI:1913921323 Ccnh "cyclin H" [Mus musculus 0.679 0.708 0.367 4.4e-36
UNIPROTKB|Q3ZBL9320 CCNH "Cyclin-H" [Bos taurus (t 0.670 0.706 0.362 7.2e-36
UNIPROTKB|C9K506323 CCNH "Uncharacterized protein" 0.664 0.693 0.362 7.2e-36
UNIPROTKB|F1MG12320 CCNH "Cyclin-H" [Bos taurus (t 0.670 0.706 0.362 9.2e-36
TAIR|locus:2143671 CYCH;1 "cyclin H;1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 204/315 (64%), Positives = 251/315 (79%)

Query:     1 MADFQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNA 60
             MADFQTST RA WIFTPQ+L E+YKA+N+RA+Q LEK GTTQ+EVD  GS +YP+ +  +
Sbjct:     1 MADFQTSTQRAKWIFTPQKLAERYKAANQRAVQMLEKCGTTQVEVDASGSLTYPKDKVGS 60

Query:    61 KDNSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVM 120
              D ++K  + KPL+ +EE+ MR FYE K++EVCSAF FP+KIQATAL YFKRFYLQWSVM
Sbjct:    61 GDQADK--KLKPLSADEERFMRAFYEAKVQEVCSAFAFPHKIQATALQYFKRFYLQWSVM 118

Query:   121 EHHPKNIMLTCVYAACKIEENHVSAEELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
             +HHPK IMLTCVYAACKIEENHVSAEE+GKGI+QDH++IL YEM V Q+LEFDLIVY PY
Sbjct:   119 QHHPKEIMLTCVYAACKIEENHVSAEEIGKGINQDHRIILKYEMAVLQSLEFDLIVYAPY 178

Query:   181 RPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLAL 240
             R +EGF+N+ME+F Q ++ E+Q L+ L + A  E DK+MLTDAPLLFPPGQ      LAL
Sbjct:   179 RAIEGFVNNMEEFLQARDDEIQKLESLLKGATAEADKVMLTDAPLLFPPGQ------LAL 232

Query:   241 AALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHI 300
             A+LR +N V  V++++ YL +I+S+ NS H  S+LT+ LD I+  V  YK PSEKDMKHI
Sbjct:   233 ASLRIANGVLGVIDFDRYLENIVSQPNSEHTTSELTKLLDNIEYLVKNYKCPSEKDMKHI 292

Query:   301 NRKLKSCWGHGS-HD 314
             NRKLKSC GH S HD
Sbjct:   293 NRKLKSCLGHSSSHD 307
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;IDA
GO:0005675 "holo TFIIH complex" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0016591 "DNA-directed RNA polymerase II, holoenzyme" evidence=IEA
GO:0019901 "protein kinase binding" evidence=IEA
GO:0051726 "regulation of cell cycle" evidence=IEA;ISS
GO:0004672 "protein kinase activity" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0005737 "cytoplasm" evidence=IDA
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
GO:0006396 "RNA processing" evidence=RCA
GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA
GO:0010440 "stomatal lineage progression" evidence=RCA
GO:0042023 "DNA endoreduplication" evidence=RCA
GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=RCA
UNIPROTKB|E1C948 CCNH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|69419 Ccnh "cyclin H" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q4R7U4 CCNH "Cyclin-H" [Macaca fascicularis (taxid:9541)] Back     alignment and assigned GO terms
UNIPROTKB|E2R5P2 CCNH "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P51946 CCNH "Cyclin-H" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1913921 Ccnh "cyclin H" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q3ZBL9 CCNH "Cyclin-H" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|C9K506 CCNH "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|F1MG12 CCNH "Cyclin-H" [Bos taurus (taxid:9913)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q10D80CCH11_ORYSJNo assigned EC number0.60310.90500.9242yesno
Q8W5S1CCH11_ARATHNo assigned EC number0.64790.97320.9761yesno

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 ?
Query337
TIGR00569305 TIGR00569, ccl1, cyclin ccl1 2e-44
COG5333297 COG5333, CCL1, Cdk activating kinase (CAK)/RNA pol 3e-23
cd0004388 cd00043, CYCLIN, Cyclin box fold 4e-15
smart0038583 smart00385, CYCLIN, domain present in cyclins, TFI 4e-14
pfam00134127 pfam00134, Cyclin_N, Cyclin, N-terminal domain 8e-06
pfam0038271 pfam00382, TFIIB, Transcription factor TFIIB repea 0.003
>gnl|CDD|129660 TIGR00569, ccl1, cyclin ccl1 Back     alignment and domain information 
 Score =  154 bits (390), Expect = 2e-44
 Identities = 98/310 (31%), Positives = 160/310 (51%), Gaps = 40/310 (12%)

Query: 4   FQTSTHRANWIFTPQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDN 63
           ++ S+ + +W FT +E ++       +      K+     E            +   K  
Sbjct: 1   YRNSSQKRHWTFTSEEQLQ------EKRADANAKF----RE----------AHEEEEK-- 38

Query: 64  SEKHSRPKPLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVME 121
               ++P  L  EEE  +  +YE +L + CSAF    P  +  TA++YFKRFYL  SVME
Sbjct: 39  -VLEAKPIFLTPEEELDLVKYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVME 97

Query: 122 HHPKNIMLTCVYAACKIEENHVSAEELGKGISQDH----QMILNYEMIVYQALEFDLIVY 177
           +HPK IMLTCV+ ACK+EE +VS ++    + +      + +L YE+++ Q L F LIV+
Sbjct: 98  YHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVH 157

Query: 178 PPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQ 237
            PYRPLEGF+ D     + +   L+  + L + A   +++ +LTDA LL+ P Q+     
Sbjct: 158 NPYRPLEGFLID----IKTRLPGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQI----- 208

Query: 238 LALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDM 297
            ALAA+ ++   +  +N ESYL+  LS   +   +  L + +  +   V KY+ P  + +
Sbjct: 209 -ALAAILHTAS-RAGLNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKV 266

Query: 298 KHINRKLKSC 307
             + +KL  C
Sbjct: 267 AALKKKLDEC 276

All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity) [DNA metabolism, DNA replication, recombination, and repair]. Length = 305
>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|238003 cd00043, CYCLIN, Cyclin box fold Back     alignment and domain information
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain Back     alignment and domain information
>gnl|CDD|109440 pfam00382, TFIIB, Transcription factor TFIIB repeat Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 337
TIGR00569305 ccl1 cyclin ccl1. University). 100.0
KOG2496325 consensus Cdk activating kinase (CAK)/RNA polymera 100.0
KOG0794264 consensus CDK8 kinase-activating protein cyclin C 100.0
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 100.0
COG5333297 CCL1 Cdk activating kinase (CAK)/RNA polymerase II 100.0
KOG0835367 consensus Cyclin L [General function prediction on 99.97
KOG0656335 consensus G1/S-specific cyclin D [Cell cycle contr 99.8
PRK00423310 tfb transcription initiation factor IIB; Reviewed 99.77
PF00134127 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR 99.6
KOG0655408 consensus G1/S-specific cyclin E [Cell cycle contr 99.59
KOG0653391 consensus Cyclin B and related kinase-activating p 99.58
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 99.45
COG5024440 Cyclin [Cell division and chromosome partitioning] 99.42
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 99.37
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 99.37
KOG1597308 consensus Transcription initiation factor TFIIB [T 98.95
KOG0654359 consensus G2/Mitotic-specific cyclin A [Cell cycle 98.76
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 98.7
KOG1598 521 consensus Transcription initiation factor TFIIIB, 98.43
PF08613149 Cyclin: Cyclin; InterPro: IPR013922 Cyclins are eu 97.98
PRK00423310 tfb transcription initiation factor IIB; Reviewed 97.96
KOG4164497 consensus Cyclin ik3-1/CABLES [Cell cycle control, 97.92
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 97.6
COG1405285 SUA7 Transcription initiation factor TFIIIB, Brf1 96.86
cd0004388 CYCLIN Cyclin box fold. Protein binding domain fun 95.79
KOG1597308 consensus Transcription initiation factor TFIIB [T 94.8
smart0038583 CYCLIN domain present in cyclins, TFIIB and Retino 94.73
PF01857135 RB_B: Retinoblastoma-associated protein B domain; 94.04
KOG0835367 consensus Cyclin L [General function prediction on 92.57
PF02984118 Cyclin_C: Cyclin, C-terminal domain; InterPro: IPR 90.54
PF0038271 TFIIB: Transcription factor TFIIB repeat; InterPro 90.36
KOG1674218 consensus Cyclin [General function prediction only 88.92
TIGR00569305 ccl1 cyclin ccl1. University). 86.14
KOG0834323 consensus CDK9 kinase-activating protein cyclin T 85.94
>TIGR00569 ccl1 cyclin ccl1 Back     alignment and domain information 
Probab=100.00  E-value=3.2e-66  Score=491.17  Aligned_cols=280  Identities=36%  Similarity=0.597  Sum_probs=251.3

Q ss_pred             CCcccccccccCC-hHHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q 038028            4 FQTSTHRANWIFT-PQELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMR   82 (337)
Q Consensus         4 y~~STQ~r~W~Ft-~e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l~   82 (337)
                      ||+|||+|+|+|| +++|.++|.++|++++++++..+.         +               .+....+||+|||..++
T Consensus         1 y~~StQ~r~W~F~~~~~L~~~R~~~N~~~~~~~~~~~~---------~---------------~~~~~~~Lt~eeE~~l~   56 (305)
T TIGR00569         1 YRNSSQKRHWTFTSEEQLQEKRADANAKFREAHEEEEK---------V---------------LEAKPIFLTPEEELDLV   56 (305)
T ss_pred             CCCCcccccCcCCCHHHHHHHHHHHHHHHHHHHhhhcc---------c---------------cccccCCCCHHHHHHHH
Confidence            8999999999999 999999999999998877632110         0               01245699999999999


Q ss_pred             HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc----cH
Q 038028           83 VFYENKLREVCSAFY--FPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ----DH  156 (337)
Q Consensus        83 ~~~~~~I~~~~~~l~--lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~----~~  156 (337)
                      .||+.+|+++|.+|+  ||+.|++||++||||||+++|+++|||++|++||||||||+||+++++++|+..+..    ++
T Consensus        57 ~~y~~~i~~~~~~lkp~Lpq~viaTAivyf~RFy~~~Sv~~~~p~~Ia~tclfLA~KvEE~~~si~~fv~~~~~~~~~~~  136 (305)
T TIGR00569        57 KYYEKRLLDFCSAFKPTMPTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLKETPLKAL  136 (305)
T ss_pred             HHHHHHHHHHHHHhcCCCCchHHHHHHHHHhHHhccCchhhcCHHHHHHHHHHHHHhccccCcCHHHHHhhccCCchhhH
Confidence            999999999999999  999999999999999999999999999999999999999999999999999986654    46


Q ss_pred             HHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCcchH
Q 038028          157 QMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVI  236 (337)
Q Consensus       157 ~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~~~~  236 (337)
                      +.|+++|+.||++|+|+|.|+|||++|.+|+.+++..+..    ....+.+.+.||.++||+++||+||.|+|++     
T Consensus       137 ~~Il~~E~~lL~~L~F~L~V~hPyr~L~~~l~dl~~~l~~----~~~~~~l~q~a~~~lndsl~Td~~L~y~Ps~-----  207 (305)
T TIGR00569       137 EQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDIKTRLPG----LENPEYLRKHADKFLNRTLLTDAYLLYTPSQ-----  207 (305)
T ss_pred             HHHHHHHHHHHHHCCCcEEeeCccHHHHHHHHHHHHhhcc----ccchHHHHHHHHHHHHHHHcCCceecCCHHH-----
Confidence            9999999999999999999999999999999999865421    1223568899999999999999999999999     


Q ss_pred             HHHHHHHHHHhccccccchHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCCChh
Q 038028          237 QLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSHDVS  316 (337)
Q Consensus       237 ~IAlAal~~A~~~~~~~~~e~y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~~~~~~~~~~~~i~~kL~~c~np~~~~~~  316 (337)
                       ||+||+++|++.++ +++.+|..++++.+++++.++.|.+.|++|..+++++..|+.++|++|++||+.|+||++.+.|
T Consensus       208 -IAlAAI~lA~~~~~-~~l~~~~~e~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~kl~~c~~~~~~~~~  285 (305)
T TIGR00569       208 -IALAAILHTASRAG-LNMESYLTEQLSVPGNREELPQLIDIMRELRILVKKYEEPRSEKVAALKKKLDECHSIEENLSS  285 (305)
T ss_pred             -HHHHHHHHHHHHhC-CCCcccchhhhcccccHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhChhhCcch
Confidence             99999999999775 5667777788888778889999999999999999999999999999999999999999999999


Q ss_pred             hh
Q 038028          317 KK  318 (337)
Q Consensus       317 ~~  318 (337)
                      .+
T Consensus       286 ~~  287 (305)
T TIGR00569       286 VK  287 (305)
T ss_pred             HH
Confidence            53

University).
>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
>KOG0794 consensus CDK8 kinase-activating protein cyclin C [Transcription] 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
>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
>KOG0835 consensus Cyclin L [General function prediction only] Back     alignment and domain information
>KOG0656 consensus G1/S-specific cyclin D [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PRK00423 tfb transcription initiation factor IIB; Reviewed 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
>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
>cd00043 CYCLIN Cyclin box fold Back     alignment and domain information
>COG5024 Cyclin [Cell division and 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
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma Back     alignment and domain information
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>KOG0654 consensus G2/Mitotic-specific cyclin A [Cell cycle control, cell division, chromosome partitioning] 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
>KOG1598 consensus Transcription initiation factor TFIIIB, Brf1 subunit [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
>PRK00423 tfb transcription initiation factor IIB; Reviewed Back     alignment and domain information
>KOG4164 consensus Cyclin ik3-1/CABLES [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
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription] Back     alignment and domain information
>cd00043 CYCLIN Cyclin box fold 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
>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
>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
>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
>KOG1674 consensus Cyclin [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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query337
1kxu_A333 Cyclin H, A Positive Regulatory Subunit Of Cdk Acti 4e-34
1jkw_A323 Structure Of Cyclin Mcs2 Length = 323 8e-34
3rgf_B285 Crystal Structure Of Human Cdk8CYCC Length = 285 3e-11
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating Kinase Length = 333 Back     alignment and structure 
Iteration: 1

 Score =  141 bits (356), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 91/248 (36%), Positives = 142/248 (57%), Gaps = 22/248 (8%)
Query: 70  PKPLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVMEHHPKNI 127
           P  L   EE ++  +YE +L E CS F    P  +  TA +YFKRFYL  SVME+HP+ I
Sbjct: 55  PVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRII 114
Query: 128 MLTCVYAACKIEENHVSA-------EELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
           MLTC + ACK++E +VS+        E   G  +  + IL YE+++ Q L F LIV+ PY
Sbjct: 115 MLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVHNPY 174
Query: 181 RPLEGFINDMED-FCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLA 239
           RP EGF+ D++  +  ++N E+     L +TA   +++I LTDA LL+ P Q+      A
Sbjct: 175 RPFEGFLIDLKTRYPILENPEI-----LRKTADDFLNRIALTDAYLLYTPSQI------A 223
Query: 240 LAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKH 299
           L A+ +S   +  +  ESYLS  L  + +   +S L + + ++ + V KY+ P  +++  
Sbjct: 224 LTAILSSAS-RAGITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKYEPPRSEEVAV 282
Query: 300 INRKLKSC 307
           + +KL+ C
Sbjct: 283 LKQKLERC 290
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2 Length = 323 Back     alignment and structure
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC Length = 285 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 ?
Query337
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 2e-64
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 6e-45
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 2e-39
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 4e-36
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 4e-33
2ivx_A257 Cyclin-T2; transcription regulation, cell division 5e-33
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-05
1ais_B200 TFB TFIIB, protein (transcription initiation facto 9e-05
1c9b_A207 General transcription factor IIB; protein-DNA comp 1e-04
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 2e-04
>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
 Score =  205 bits (523), Expect = 2e-64
 Identities = 100/341 (29%), Positives = 164/341 (48%), Gaps = 49/341 (14%)

Query: 4   FQTSTHRANWIFTPQELIEKYKAS-NRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKD 62
           +  S+ + +W F+ +E + + +A  NR+        G                       
Sbjct: 2   YHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANGKVLP------------------- 42

Query: 63  NSEKHSRPKPLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVM 120
                + P  L   EE ++  +YE +L E CS F    P  +  TA +YFKRFYL  SVM
Sbjct: 43  -----NDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVM 97

Query: 121 EHHPKNIMLTCVYAACKIEENHVSAEELGKGISQD-------HQMILNYEMIVYQALEFD 173
           E+HP+ IMLTC + ACK++E +VS+ +    + +         + IL YE+++ Q L F 
Sbjct: 98  EYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFH 157

Query: 174 LIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVL 233
           LIV+ PYRP EGF+ D++    +    L+  + L +TA   +++I LTDA LL+ P Q+ 
Sbjct: 158 LIVHNPYRPFEGFLIDLKTRYPI----LENPEILRKTADDFLNRIALTDAYLLYTPSQI- 212

Query: 234 SVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPS 293
                AL A+ +S      +  ESYLS  L  + +   +S L + + ++ + V KY+ P 
Sbjct: 213 -----ALTAILSSASRAG-ITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKYEPPR 266

Query: 294 EKDMKHINRKLKSCW----GHGSHDVSKKREKKSKHKSKSS 330
            +++  + +KL  C             +K  +   + SK S
Sbjct: 267 SEEVAVLKQKLDRCHSAELALNVITKKRKGYEDDDYVSKKS 307
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} Length = 285 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 Length = 258 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
>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
>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
>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
>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
>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 Length = 257 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query337
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 100.0
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 100.0
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 100.0
2ivx_A257 Cyclin-T2; transcription regulation, cell division 100.0
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 100.0
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 100.0
1c9b_A207 General transcription factor IIB; protein-DNA comp 99.96
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 99.96
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 99.95
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 99.95
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 99.94
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 99.94
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 99.94
1f5q_B252 Gamma herpesvirus cyclin; herpesviral cyclin, cycl 99.91
1ais_B200 TFB TFIIB, protein (transcription initiation facto 99.91
1w98_B283 Cyclin E, G1/S-specific cyclin E1; cell cycle, tra 99.9
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 99.84
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 99.65
1ais_B200 TFB TFIIB, protein (transcription initiation facto 98.23
1c9b_A207 General transcription factor IIB; protein-DNA comp 97.93
2pmi_B293 PHO85 cyclin PHO80, aminoglycoside anti; cyclin-de 97.62
3k7a_M345 Transcription initiation factor IIB; RNA polymeras 96.06
4bbr_M345 Transcription initiation factor IIB; RNA polymeras 95.97
3rgf_B285 Cyclin-C; protein kinase complex, transferase,tran 95.77
1zp2_A235 RNA polymerase II holoenzyme cyclin-like subunit; 94.94
2i53_A258 Cyclin K; cell cycle, transcription, cyclin BOX, C 94.27
2ivx_A257 Cyclin-T2; transcription regulation, cell division 93.59
2cch_B260 Cyclin A2, cyclin-A; complex(transferase/cell divi 92.27
2b9r_A269 Human cyclin B1; cell cycle; 2.90A {Homo sapiens} 92.24
2f2c_A254 Cyclin homolog, V-cyclin; small molecule inhibitor 91.17
2pk2_A358 Cyclin-T1, protein TAT; TAR, twinning, transcripti 90.41
1g3n_C257 V-cyclin; cyclin-dependent kinase, INK4 inhibitor, 88.31
1jkw_A323 Cyclin H; cell cycle, cell division, nuclear prote 88.24
3g33_B306 CCND3 protein; Ser/Thr protein kinase, cell cycle, 86.08
2w96_A271 G1/S-specific cyclin-D1; serine/threonine-protein 85.87
3m03_A95 ORC6, origin recognition complex subunit 6; helix 84.99
4ell_A411 Retinoblastoma-associated protein; cyclin fold, tu 84.51
2r7g_A347 PP110, retinoblastoma-associated protein, P105-RB, 80.22
>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
Probab=100.00  E-value=2.3e-59  Score=449.28  Aligned_cols=284  Identities=34%  Similarity=0.569  Sum_probs=236.7

Q ss_pred             CCcccccccccCCh-HHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q 038028            4 FQTSTHRANWIFTP-QELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMR   82 (337)
Q Consensus         4 y~~STQ~r~W~Ft~-e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l~   82 (337)
                      ||+|||+++|+||+ ++|.+.|.++|+++++.+....             .|           .++..++||+++|..+|
T Consensus         2 y~~Stq~~~W~f~~~~~L~~~r~~~n~~~~~~~~~~~-------------~~-----------~~~~~~~lt~eeE~~lr   57 (323)
T 1jkw_A            2 YHNSSQKRHWTFSSEEQLARLRADANRKFRCKAVANG-------------KV-----------LPNDPVFLEPHEEMTLC   57 (323)
T ss_dssp             ---------CCCSCHHHHHHHHHHHHHHHHHHHHHTS-------------SS-----------CTTCTTSCCHHHHHHHH
T ss_pred             CCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhcc-------------CC-----------CccccCCCCHHHHHHHH
Confidence            99999999999996 7899999999999998874210             11           12577899999999999


Q ss_pred             HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhccccc------
Q 038028           83 VFYENKLREVCSAFY--FPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGISQ------  154 (337)
Q Consensus        83 ~~~~~~I~~~~~~l~--lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~~------  154 (337)
                      .+|+.||+++|..|+  ||+.|++||++||||||+++|++++++++|++||||||||+||+++++++|+..+..      
T Consensus        58 ~~~~~~I~ev~~~l~~~Lp~~t~~tA~~~~~RF~~~~s~~~~~~~lva~acLfLA~K~EE~~~~l~d~v~~~~~~p~~~~  137 (323)
T 1jkw_A           58 KYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQE  137 (323)
T ss_dssp             HHHHHHHHHHHHHCTTTCCHHHHHHHHHHHHHHGGGSCTTTSCHHHHHHHHHHHHHHHTTCCCCHHHHGGGSSSCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhhhCChhhcCHHHHHHHHHHHHHhhhcCCCCHHHHHHHhccChhhhH
Confidence            999999999999999  999999999999999999999999999999999999999999999999999876643      


Q ss_pred             -cHHHHHHHHHHHHHHcCCcceeCCChhHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHhcCcceecCCCCCc
Q 038028          155 -DHQMILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVL  233 (337)
Q Consensus       155 -~~~~Il~~E~~lL~~L~F~L~v~~P~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~~A~~~l~ds~~Td~~l~y~Ps~~~  233 (337)
                       ++++|+.+|+.||++|+|+|.++|||++|.+|+.+++..+..    .+....+.+.||.+++++++||+++.|+|++  
T Consensus       138 ~~~~~Il~~E~~iL~~L~f~l~v~~P~~~L~~~l~~l~~~~~~----~~~~~~l~~~A~~~l~~sl~t~~~l~~~Ps~--  211 (323)
T 1jkw_A          138 KALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPI----LENPEILRKTADDFLNRIALTDAYLLYTPSQ--  211 (323)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCCCCCSHHHHHHHHHHHHHHCTT----CCCHHHHHHHHHHHHHHHTTSTHHHHSCHHH--
T ss_pred             HHHHHHHHHHHHHHHHCCCcEEcCChHHHHHHHHHHHHHHhcc----CCCHHHHHHHHHHHHHHHHhccHHHcCCHHH--
Confidence             378999999999999999999999999999999988654321    1123567889999999999999999999999  


Q ss_pred             chHHHHHHHHHHHhccccccchHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhhhcCCCCC
Q 038028          234 SVIQLALAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKHINRKLKSCWGHGSH  313 (337)
Q Consensus       234 ~~~~IAlAal~~A~~~~~~~~~e~y~~~~~~~~~~~~~~~~l~~~l~~i~~~~~~~~~~~~~~~~~i~~kL~~c~np~~~  313 (337)
                          ||+||+|+|+..++ .++..|+..+|....++..+++|.++++.|..++..+..|+.++++.|++||++|+||+++
T Consensus       212 ----IAaAai~lA~~~~~-~~~~~w~~~l~~~~~~~~~~~~l~~~~~~i~~l~~~~~~~~~~~~k~i~~KL~~c~~p~~~  286 (323)
T 1jkw_A          212 ----IALTAILSSASRAG-ITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKYEPPRSEEVAVLKQKLDRCHSAELA  286 (323)
T ss_dssp             ----HHHHHHHHHHHHHS-CCCTTHHHHHTTSCSSSCCTHHHHHHHHHHHHHHHTCCCCCHHHHHHHHHHHHHHHHSCSC
T ss_pred             ----HHHHHHHHHHHHcC-CChHHHHHHHhccccccccHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHhChhcC
Confidence                99999999998654 4456799988765445667899999999999999999999999999999999999999999


Q ss_pred             ChhhhHhhh
Q 038028          314 DVSKKREKK  322 (337)
Q Consensus       314 ~~~~~~~~~  322 (337)
                      |.++.++||
T Consensus       287 ~~~~~~~~~  295 (323)
T 1jkw_A          287 LNVITKKRK  295 (323)
T ss_dssp             C--------
T ss_pred             CcHHHHHHh
Confidence            998877754
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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
>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
>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
>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
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_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
>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
>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
>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
>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
>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
>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
>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
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M Back     alignment and structure
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET: BAX; 2.20A {Homo sapiens} 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
>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
>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
>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
>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
>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
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor, cell cycle; 1.98A {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

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 337
d1jkwa1151 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo s 2e-29
d1jkwa2126 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo 6e-26
d2ivxa1143 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) 2e-20
d2i53a1144 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) 3e-20
d1f5qb1141 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesviru 2e-08
d1g3nc1132 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's sarcoma 4e-08
d1bu2a1127 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saim 5e-08
d1vola195 a.74.1.2 (A:113-207) Transcription factor IIB (TFI 1e-07
d2cchb1128 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [T 7e-07
d1aisb198 a.74.1.2 (B:1108-1205) Transcription factor IIB (T 8e-07
d1aisb295 a.74.1.2 (B:1206-1300) Transcription factor IIB (T 6e-05
d1w98b2140 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human 2e-04
d1vola2109 a.74.1.2 (A:208-316) Transcription factor IIB (TFI 0.002
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure

class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin H (mcs2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  108 bits (271), Expect = 2e-29
 Identities = 55/175 (31%), Positives = 83/175 (47%), Gaps = 34/175 (19%)

Query: 13  WIFTPQELIEKYKAS-NRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPK 71
           W F+ +E + + +A  NR+        G                            + P 
Sbjct: 1   WTFSSEEQLARLRADANRKFRCKAVANG------------------------KVLPNDPV 36

Query: 72  PLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVMEHHPKNIML 129
            L   EE ++  +YE +L E CS F    P  +  TA +YFKRFYL  SVME+HP+ IML
Sbjct: 37  FLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIML 96

Query: 130 TCVYAACKIEENHVSAEELGKGI-------SQDHQMILNYEMIVYQALEFDLIVY 177
           TC + ACK++E +VS+ +    +        +  + IL YE+++ Q L F LIV+
Sbjct: 97  TCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVH 151
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Length = 126 Back     information, alignment and structure
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId: 9606]} Length = 144 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
>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
>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
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} Length = 128 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
>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
>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
>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

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query337
d1jkwa1151 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.98
d2ivxa1143 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.95
d2i53a1144 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.94
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 99.94
d2cchb1128 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 99.59
d1bu2a1127 Viral cyclin {Herpesvirus saimiri [TaxId: 10381]} 99.58
d1g3nc1132 Viral cyclin {Kaposi's sarcoma-associated herpesvi 99.57
d1w98b2140 G1/S-specific cyclin-E1 {Human (Homo sapiens) [Tax 99.56
d1f5qb1141 Viral cyclin {Murine herpesvirus 68 [TaxId: 33708] 99.53
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 99.29
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 99.23
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 99.15
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 99.07
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 98.84
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 98.61
d2ivxa2113 Cyclin-T2 {Human (Homo sapiens) [TaxId: 9606]} 97.08
d2cchb2124 Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 96.26
d2i53a2110 Cyclin K {Human (Homo sapiens) [TaxId: 9606]} 96.1
d1vola2109 Transcription factor IIB (TFIIB), core domain {Hum 93.51
d1aisb295 Transcription factor IIB (TFIIB), core domain {Arc 92.57
d1aisb198 Transcription factor IIB (TFIIB), core domain {Arc 90.1
d1vola195 Transcription factor IIB (TFIIB), core domain {Hum 89.12
d2r7ga2142 Retinoblastoma tumor suppressor domains {Human (Ho 86.58
d1jkwa2126 Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606 86.36
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Cyclin-like
superfamily: Cyclin-like
family: Cyclin
domain: Cyclin H (mcs2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=9e-32  Score=228.84  Aligned_cols=141  Identities=38%  Similarity=0.659  Sum_probs=124.4

Q ss_pred             ccCCh-HHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q 038028           13 WIFTP-QELIEKYKASNRRAIQTLEKYGTTQMEVDVDGSFSYPEPQNNAKDNSEKHSRPKPLNIEEEQSMRVFYENKLRE   91 (337)
Q Consensus        13 W~Ft~-e~L~~~r~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~eeE~~l~~~~~~~I~~   91 (337)
                      |+|++ ++|.+.|.++|+++++.......                        ..++.+.++|++||..+|.+|+.+|.+
T Consensus         1 W~F~~~~~l~~lr~~~n~~~~~~~~~~~~------------------------~~~~~~~~l~~~ee~~l~~~~~~~l~~   56 (151)
T d1jkwa1           1 WTFSSEEQLARLRADANRKFRCKAVANGK------------------------VLPNDPVFLEPHEEMTLCKYYEKRLLE   56 (151)
T ss_dssp             CCCSCHHHHHHHHHHHHHHHHHHHHHTSS------------------------SCTTCTTSCCHHHHHHHHHHHHHHHHH
T ss_pred             CcCCCHHHHHHHHHHHHHHHHHHHHhhcc------------------------cCcccccCCCHHHHHHHHHHHHHHHHH
Confidence            99976 56999999999999877542110                        012466799999999999999999999


Q ss_pred             HHHHcC--CCHHHHHHHHHHHHHHhccCcccccChHHHHHHHHHHHhhccCCCCCHHHhhcccc-------ccHHHHHHH
Q 038028           92 VCSAFY--FPNKIQATALLYFKRFYLQWSVMEHHPKNIMLTCVYAACKIEENHVSAEELGKGIS-------QDHQMILNY  162 (337)
Q Consensus        92 ~~~~l~--lp~~V~aTA~~yf~RFyl~~S~~~~~p~lv~~tcLfLA~K~EE~~~sl~~~~~~~~-------~~~~~Il~~  162 (337)
                      +|.+|+  +|+.|++||++||||||+++|+++++|++|++||||||||+||+++++++++..+.       .++++|+.+
T Consensus        57 ~~~~~k~~l~~~~~~tA~~~~~RF~~~~s~~~~~~~li~~acl~LA~K~ee~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  136 (151)
T d1jkwa1          57 FCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEY  136 (151)
T ss_dssp             HHHHCTTTCCHHHHHHHHHHHHHHGGGSCTTTSCHHHHHHHHHHHHHHHTTCCCCHHHHGGGSSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCCCHHHHHHHHHHHHHHhhcCccccccHHHHHHHHHHHHHHHcccCCCHHHHHHHHHhhcccccccHHHHHHH
Confidence            999876  89999999999999999999999999999999999999999999999999986542       468899999


Q ss_pred             HHHHHHHcCCcceeC
Q 038028          163 EMIVYQALEFDLIVY  177 (337)
Q Consensus       163 E~~lL~~L~F~L~v~  177 (337)
                      |+.||++|+|+|.||
T Consensus       137 E~~iL~~L~f~L~Vh  151 (151)
T d1jkwa1         137 ELLLIQQLNFHLIVH  151 (151)
T ss_dssp             HHHHHHHTTTCCCCC
T ss_pred             HHHHHHHcCCeeeeC
Confidence            999999999999886
>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
>d1jkwa2 a.74.1.1 (A:162-287) 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
>d2i53a2 a.74.1.1 (A:158-267) Cyclin K {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
>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
>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
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId: 9913]} 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
>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
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB), core domain {Archaeon Pyrococcus woesei [TaxId: 2262]} 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
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor domains {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