Citrus Sinensis ID: 008709

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-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------
MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEccccccccccccccccHHHHHHHHHHHHHHHHcccccEEEEcccccccccccEEccccEEEEEcHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccccccccccEEcc
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcHHHccHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHcccccEEEEEEccccEEEEEEcccccEEEEEEHHHHHHHHHHcccccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccccccccEEEEEccccccEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccccEEEcc
MGQMDSYEKDFEEHMLqdtgayysrkasnwiledscpeYMIKAEECLKKERDRVshylhsssepklvEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHkipkglepVANVFKQHITAEGTVLVQQAEdaatnqggssgavQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCnkavggssssELLATFCDNILkkggneklsDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLlfdrsanddhERSILTKLKqqcggqftskmegMVTDLTLARENQTSFEEYLSnnqnahpgidlSVTVLTtgfwpsykssdlnlpseMVKCVEVFKGFYetktkhrklTWIYSlgqcningkfeqKNIELIVSTYQAATLLLFntsdrlsysEIMTQLNLTHDDLVRLLHSLSCAKYKIllkepntktisqsdhfefnskFTDRMRrikiplppvderkkIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDylerdkenpnmfryla
MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLhsssepklvekVQHELLVVYATELLEkeqsgcrallredkvedLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAAtnqggssgavqeQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLlfdrsanddhersiltklkqqcggqftskMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYkssdlnlpsEMVKCVEVFKGFYetktkhrkltWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLkepntktisqsdhfefnskftdrmrrikiplppvderkkivedvdkdrrYAIDAALVRIMKSRKVLGHQQLVSECVEQlsrmfkpdikaIKKRMEDLitrdylerdkenpnmfryla
MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
*****************DTGAYYSRKASNWILEDSCPEYMIKAEECLKKE***VSHYL*******LVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQ**************VQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRS********ILTKLKQQCGGQFT****GMVTDLTLA*********YL***QNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKT*****HFEFNSKFTDRMRRIKIPLPPVD*RKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY***************
*GQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAED*********GAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKK**********IEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRI*******************DRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAE************VQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
*GQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA
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 ?
Query557 2.2.26 [Sep-21-2011]
Q94AH6738 Cullin-1 OS=Arabidopsis t yes no 1.0 0.754 0.874 0.0
Q9SRZ0742 Cullin-2 OS=Arabidopsis t no no 1.0 0.750 0.7 0.0
P0CH31721 Putative cullin-like prot no no 0.951 0.735 0.697 0.0
Q54NZ5769 Cullin-3 OS=Dictyostelium yes no 0.960 0.695 0.377 1e-105
A2A432970 Cullin-4B OS=Mus musculus yes no 0.949 0.545 0.378 1e-104
Q13620913 Cullin-4B OS=Homo sapiens yes no 0.949 0.579 0.376 1e-103
Q13619759 Cullin-4A OS=Homo sapiens no no 0.960 0.704 0.372 1e-101
Q3TCH7759 Cullin-4A OS=Mus musculus no no 0.949 0.696 0.376 1e-100
Q9ZVH4732 Cullin-3A OS=Arabidopsis no no 0.951 0.724 0.368 2e-95
Q9C9L0732 Cullin-3B OS=Arabidopsis no no 0.951 0.724 0.362 7e-94
>sp|Q94AH6|CUL1_ARATH Cullin-1 OS=Arabidopsis thaliana GN=CUL1 PE=1 SV=1 Back     alignment and function desciption
 Score = 1031 bits (2667), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 487/557 (87%), Positives = 529/557 (94%)

Query: 1   MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
           MGQM+ YE+DFE  MLQDT +YYSRKAS+WI EDSCP+YM+K+EECLKKER+RV+HYLHS
Sbjct: 182 MGQMERYEEDFESFMLQDTSSYYSRKASSWIQEDSCPDYMLKSEECLKKERERVAHYLHS 241

Query: 61  SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
           SSEPKLVEKVQHELLVV+A++LLEKE SGCRALLR+DKV+DLSRMYRLYHKI +GLEPVA
Sbjct: 242 SSEPKLVEKVQHELLVVFASQLLEKEHSGCRALLRDDKVDDLSRMYRLYHKILRGLEPVA 301

Query: 121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
           N+FKQH+TAEG  LVQQAED ATNQ  ++ +VQEQVLIRK+IELHDKYM YVT CF NHT
Sbjct: 302 NIFKQHVTAEGNALVQQAEDTATNQVANTASVQEQVLIRKVIELHDKYMVYVTECFQNHT 361

Query: 181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
           LFHKALKEAFEIFCNK V GSSS+ELLATFCDNILKKGG+EKLSDEAIE+TLEKVVKLLA
Sbjct: 362 LFHKALKEAFEIFCNKTVAGSSSAELLATFCDNILKKGGSEKLSDEAIEDTLEKVVKLLA 421

Query: 241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
           YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA
Sbjct: 422 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 481

Query: 301 RENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYET 360
           RENQ SFE+YL +N  A+PGIDL+VTVLTTGFWPSYKS D+NLPSEM+KCVEVFKGFYET
Sbjct: 482 RENQNSFEDYLGSNPAANPGIDLTVTVLTTGFWPSYKSFDINLPSEMIKCVEVFKGFYET 541

Query: 361 KTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLT 420
           KTKHRKLTWIYSLG C+INGKF+QK IELIVSTYQAA LLLFNT+D+LSY+EI+ QLNL+
Sbjct: 542 KTKHRKLTWIYSLGTCHINGKFDQKAIELIVSTYQAAVLLLFNTTDKLSYTEILAQLNLS 601

Query: 421 HDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKI 480
           H+DLVRLLHSLSCAKYKILLKEPNTKT+SQ+D FEFNSKFTDRMRRIKIPLPPVDERKK+
Sbjct: 602 HEDLVRLLHSLSCAKYKILLKEPNTKTVSQNDAFEFNSKFTDRMRRIKIPLPPVDERKKV 661

Query: 481 VEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 540
           VEDVDKDRRYAIDAA+VRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR
Sbjct: 662 VEDVDKDRRYAIDAAIVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 721

Query: 541 DYLERDKENPNMFRYLA 557
           DYLERDKENPNMFRYLA
Sbjct: 722 DYLERDKENPNMFRYLA 738
Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Regulator of mitotic processes which plays a role during gametogenesis and embryogenesis. Together with SKP1, RBX1 and a F-box protein, it forms a SCF complex. The functional specificity of this complex depends of the type of F-box protein. SCF(UFO) is implicated in floral organ development. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1/ZTL), SCF(ADO2/LKP2), SCF(ADO3/FKF1) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9SRZ0|CUL2_ARATH Cullin-2 OS=Arabidopsis thaliana GN=CUL2 PE=1 SV=1 Back     alignment and function description
>sp|P0CH31|CLL1_ARATH Putative cullin-like protein 1 OS=Arabidopsis thaliana GN=At1g43140 PE=3 SV=1 Back     alignment and function description
>sp|Q54NZ5|CUL3_DICDI Cullin-3 OS=Dictyostelium discoideum GN=culC PE=3 SV=1 Back     alignment and function description
>sp|A2A432|CUL4B_MOUSE Cullin-4B OS=Mus musculus GN=Cul4b PE=1 SV=1 Back     alignment and function description
>sp|Q13620|CUL4B_HUMAN Cullin-4B OS=Homo sapiens GN=CUL4B PE=1 SV=4 Back     alignment and function description
>sp|Q13619|CUL4A_HUMAN Cullin-4A OS=Homo sapiens GN=CUL4A PE=1 SV=3 Back     alignment and function description
>sp|Q3TCH7|CUL4A_MOUSE Cullin-4A OS=Mus musculus GN=Cul4a PE=1 SV=1 Back     alignment and function description
>sp|Q9ZVH4|CUL3A_ARATH Cullin-3A OS=Arabidopsis thaliana GN=CUL3A PE=1 SV=1 Back     alignment and function description
>sp|Q9C9L0|CUL3B_ARATH Cullin-3B OS=Arabidopsis thaliana GN=CUL3B 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 ?
Query557
297814051 738 ATCUL1 [Arabidopsis lyrata subsp. lyrata 1.0 0.754 0.874 0.0
18411983 738 cullin 1 [Arabidopsis thaliana] gi|79324 1.0 0.754 0.874 0.0
386688468 738 cullin 1-like protein A [Prunus avium] 1.0 0.754 0.865 0.0
224123204 744 predicted protein [Populus trichocarpa] 1.0 0.748 0.842 0.0
225432272 744 PREDICTED: cullin-1 isoform 1 [Vitis vin 1.0 0.748 0.841 0.0
449450670 744 PREDICTED: cullin-1-like [Cucumis sativu 1.0 0.748 0.837 0.0
224107343 742 predicted protein [Populus trichocarpa] 1.0 0.750 0.835 0.0
255551707 744 Cullin-1, putative [Ricinus communis] gi 1.0 0.748 0.833 0.0
386688470 744 cullin 1-like protein B [Prunus avium] 1.0 0.748 0.826 0.0
356521881 739 PREDICTED: cullin-1-like isoform 2 [Glyc 0.996 0.751 0.822 0.0
>gi|297814051|ref|XP_002874909.1| ATCUL1 [Arabidopsis lyrata subsp. lyrata] gi|297320746|gb|EFH51168.1| ATCUL1 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
 Score = 1033 bits (2672), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 487/557 (87%), Positives = 530/557 (95%)

Query: 1   MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
           MGQM+ YE+DFE  MLQDT +YYSRKAS+WI EDSCP+YM+K+EECLKKER+RV+HYLHS
Sbjct: 182 MGQMERYEEDFESFMLQDTSSYYSRKASSWIQEDSCPDYMLKSEECLKKERERVTHYLHS 241

Query: 61  SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
           SSEPKLVEKVQHELLVVYA++LLEKE SGCRALLR+DKV+DLSRMYRLYHKI +GLEPVA
Sbjct: 242 SSEPKLVEKVQHELLVVYASQLLEKEHSGCRALLRDDKVDDLSRMYRLYHKIVRGLEPVA 301

Query: 121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
           N+FKQH+TAEG  LVQQAED ATNQ  ++ +VQEQVLIRK+IELHDKYM YVT CF NHT
Sbjct: 302 NIFKQHVTAEGNTLVQQAEDTATNQAANTASVQEQVLIRKVIELHDKYMVYVTECFQNHT 361

Query: 181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
           LFHKALKEAFEIFCNK V GSSS+ELLATFCDNILKKGG+EKLSDEAIE+TLEKVVKLLA
Sbjct: 362 LFHKALKEAFEIFCNKTVAGSSSAELLATFCDNILKKGGSEKLSDEAIEDTLEKVVKLLA 421

Query: 241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
           YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA
Sbjct: 422 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 481

Query: 301 RENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYET 360
           RENQ SFE+YL NN  A+PGIDL+VTVLTTGFWPSYKS D+NLPSEM+KCVEVFKGFYET
Sbjct: 482 RENQNSFEDYLGNNPAANPGIDLTVTVLTTGFWPSYKSFDINLPSEMIKCVEVFKGFYET 541

Query: 361 KTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLT 420
           KTKHRKLTWIYSLG C+INGKF+QK+IELIVSTYQAA LLLFNT+D+L+Y+EI+ QLNL+
Sbjct: 542 KTKHRKLTWIYSLGTCHINGKFDQKSIELIVSTYQAAVLLLFNTTDKLNYTEILAQLNLS 601

Query: 421 HDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKI 480
           H+DLVRLLHSLSCAKYKILLKEP+TKT+SQ+D FEFNSKFTDRMRRIKIPLPPVDERKK+
Sbjct: 602 HEDLVRLLHSLSCAKYKILLKEPSTKTVSQTDVFEFNSKFTDRMRRIKIPLPPVDERKKV 661

Query: 481 VEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 540
           VEDVDKDRRYAIDAA+VRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR
Sbjct: 662 VEDVDKDRRYAIDAAIVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 721

Query: 541 DYLERDKENPNMFRYLA 557
           DYLERDKENPNMFRYLA
Sbjct: 722 DYLERDKENPNMFRYLA 738

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|18411983|ref|NP_567243.1| cullin 1 [Arabidopsis thaliana] gi|79324981|ref|NP_001031575.1| cullin 1 [Arabidopsis thaliana] gi|79324983|ref|NP_001031576.1| cullin 1 [Arabidopsis thaliana] gi|334186321|ref|NP_001190661.1| cullin 1 [Arabidopsis thaliana] gi|68052236|sp|Q94AH6.1|CUL1_ARATH RecName: Full=Cullin-1 gi|15028161|gb|AAK76704.1| putative cullin 1 protein [Arabidopsis thaliana] gi|22136936|gb|AAM91812.1| putative cullin 1 protein [Arabidopsis thaliana] gi|30524960|emb|CAC85264.1| cullin 1 [Arabidopsis thaliana] gi|222423687|dbj|BAH19810.1| AT4G02570 [Arabidopsis thaliana] gi|332656794|gb|AEE82194.1| cullin 1 [Arabidopsis thaliana] gi|332656795|gb|AEE82195.1| cullin 1 [Arabidopsis thaliana] gi|332656796|gb|AEE82196.1| cullin 1 [Arabidopsis thaliana] gi|332656797|gb|AEE82197.1| cullin 1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|386688468|gb|AFJ21664.1| cullin 1-like protein A [Prunus avium] Back     alignment and taxonomy information
>gi|224123204|ref|XP_002330364.1| predicted protein [Populus trichocarpa] gi|222871568|gb|EEF08699.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225432272|ref|XP_002272195.1| PREDICTED: cullin-1 isoform 1 [Vitis vinifera] gi|297736859|emb|CBI26060.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449450670|ref|XP_004143085.1| PREDICTED: cullin-1-like [Cucumis sativus] gi|449517495|ref|XP_004165781.1| PREDICTED: cullin-1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224107343|ref|XP_002314453.1| predicted protein [Populus trichocarpa] gi|222863493|gb|EEF00624.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255551707|ref|XP_002516899.1| Cullin-1, putative [Ricinus communis] gi|223543987|gb|EEF45513.1| Cullin-1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|386688470|gb|AFJ21665.1| cullin 1-like protein B [Prunus avium] Back     alignment and taxonomy information
>gi|356521881|ref|XP_003529579.1| PREDICTED: cullin-1-like isoform 2 [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 ?
Query557
TAIR|locus:2132377738 CUL1 "cullin 1" [Arabidopsis t 1.0 0.754 0.874 5.5e-267
TAIR|locus:2024755742 CUL2 "cullin 2" [Arabidopsis t 1.0 0.750 0.703 1.5e-216
TAIR|locus:2018645721 AT1G43140 [Arabidopsis thalian 0.473 0.366 0.753 3.3e-208
DICTYBASE|DDB_G0284903769 culC "cullin C" [Dictyostelium 0.761 0.551 0.393 3.2e-104
TAIR|locus:2200670732 CUL3 "AT1G26830" [Arabidopsis 0.956 0.728 0.373 1e-91
UNIPROTKB|Q6DE95768 cul3a "Cullin-3-A" [Xenopus la 0.649 0.471 0.320 1.5e-89
UNIPROTKB|Q6GPF3768 cul3b "Cullin-3-B" [Xenopus la 0.649 0.471 0.320 3e-89
ZFIN|ZDB-GENE-081007-1766 cul3b "cullin 3b" [Danio rerio 0.649 0.472 0.323 3e-89
FB|FBgn0261268934 Cul-3 "Cullin-3" [Drosophila m 0.662 0.395 0.319 3.3e-89
UNIPROTKB|E1BYQ3746 CUL3 "Uncharacterized protein" 0.649 0.485 0.320 3.9e-89
TAIR|locus:2132377 CUL1 "cullin 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2568 (909.0 bits), Expect = 5.5e-267, P = 5.5e-267
 Identities = 487/557 (87%), Positives = 529/557 (94%)

Query:     1 MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
             MGQM+ YE+DFE  MLQDT +YYSRKAS+WI EDSCP+YM+K+EECLKKER+RV+HYLHS
Sbjct:   182 MGQMERYEEDFESFMLQDTSSYYSRKASSWIQEDSCPDYMLKSEECLKKERERVAHYLHS 241

Query:    61 SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
             SSEPKLVEKVQHELLVV+A++LLEKE SGCRALLR+DKV+DLSRMYRLYHKI +GLEPVA
Sbjct:   242 SSEPKLVEKVQHELLVVFASQLLEKEHSGCRALLRDDKVDDLSRMYRLYHKILRGLEPVA 301

Query:   121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
             N+FKQH+TAEG  LVQQAED ATNQ  ++ +VQEQVLIRK+IELHDKYM YVT CF NHT
Sbjct:   302 NIFKQHVTAEGNALVQQAEDTATNQVANTASVQEQVLIRKVIELHDKYMVYVTECFQNHT 361

Query:   181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
             LFHKALKEAFEIFCNK V GSSS+ELLATFCDNILKKGG+EKLSDEAIE+TLEKVVKLLA
Sbjct:   362 LFHKALKEAFEIFCNKTVAGSSSAELLATFCDNILKKGGSEKLSDEAIEDTLEKVVKLLA 421

Query:   241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
             YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA
Sbjct:   422 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 481

Query:   301 RENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYET 360
             RENQ SFE+YL +N  A+PGIDL+VTVLTTGFWPSYKS D+NLPSEM+KCVEVFKGFYET
Sbjct:   482 RENQNSFEDYLGSNPAANPGIDLTVTVLTTGFWPSYKSFDINLPSEMIKCVEVFKGFYET 541

Query:   361 KTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLT 420
             KTKHRKLTWIYSLG C+INGKF+QK IELIVSTYQAA LLLFNT+D+LSY+EI+ QLNL+
Sbjct:   542 KTKHRKLTWIYSLGTCHINGKFDQKAIELIVSTYQAAVLLLFNTTDKLSYTEILAQLNLS 601

Query:   421 HDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKI 480
             H+DLVRLLHSLSCAKYKILLKEPNTKT+SQ+D FEFNSKFTDRMRRIKIPLPPVDERKK+
Sbjct:   602 HEDLVRLLHSLSCAKYKILLKEPNTKTVSQNDAFEFNSKFTDRMRRIKIPLPPVDERKKV 661

Query:   481 VEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 540
             VEDVDKDRRYAIDAA+VRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR
Sbjct:   662 VEDVDKDRRYAIDAAIVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITR 721

Query:   541 DYLERDKENPNMFRYLA 557
             DYLERDKENPNMFRYLA
Sbjct:   722 DYLERDKENPNMFRYLA 738
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0031625 "ubiquitin protein ligase binding" evidence=IEA
GO:0000151 "ubiquitin ligase complex" evidence=IPI
GO:0009733 "response to auxin stimulus" evidence=IMP
GO:0009793 "embryo development ending in seed dormancy" evidence=IMP
GO:0005819 "spindle" evidence=IDA
GO:0009524 "phragmoplast" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0000794 "condensed nuclear chromosome" evidence=IDA
GO:0005737 "cytoplasm" evidence=IDA
GO:0009753 "response to jasmonic acid stimulus" evidence=IMP
GO:0009867 "jasmonic acid mediated signaling pathway" evidence=TAS
GO:0010265 "SCF complex assembly" evidence=IPI
GO:0042752 "regulation of circadian rhythm" evidence=RCA;IMP
GO:0005829 "cytosol" evidence=IDA
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0006396 "RNA processing" evidence=RCA
GO:0006486 "protein glycosylation" evidence=RCA
GO:0006499 "N-terminal protein myristoylation" evidence=RCA
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=RCA
GO:0007062 "sister chromatid cohesion" evidence=RCA
GO:0009790 "embryo development" evidence=RCA
GO:0009880 "embryonic pattern specification" evidence=RCA
GO:0010072 "primary shoot apical meristem specification" evidence=RCA
GO:0010162 "seed dormancy process" evidence=RCA
GO:0010431 "seed maturation" evidence=RCA
GO:0010564 "regulation of cell cycle process" evidence=RCA
GO:0043090 "amino acid import" evidence=RCA
GO:0045595 "regulation of cell differentiation" evidence=RCA
GO:0048316 "seed development" evidence=RCA
GO:0048366 "leaf development" evidence=IMP;RCA
GO:0048825 "cotyledon development" evidence=RCA
GO:0051301 "cell division" evidence=RCA
GO:0010087 "phloem or xylem histogenesis" evidence=IMP
TAIR|locus:2024755 CUL2 "cullin 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2018645 AT1G43140 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0284903 culC "cullin C" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
TAIR|locus:2200670 CUL3 "AT1G26830" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q6DE95 cul3a "Cullin-3-A" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
UNIPROTKB|Q6GPF3 cul3b "Cullin-3-B" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-081007-1 cul3b "cullin 3b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0261268 Cul-3 "Cullin-3" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|E1BYQ3 CUL3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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) ?
Q94AH6CUL1_ARATHNo assigned EC number0.87431.00.7547yesno

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 ?
Query557
pfam00888603 pfam00888, Cullin, Cullin family 1e-156
COG5647773 COG5647, COG5647, Cullin, a subunit of E3 ubiquiti 1e-101
smart00182143 smart00182, CULLIN, Cullin 3e-59
pfam1055768 pfam10557, Cullin_Nedd8, Cullin protein neddylatio 1e-28
smart0088468 smart00884, Cullin_Nedd8, Cullin protein neddylati 3e-26
pfam03450103 pfam03450, CO_deh_flav_C, CO dehydrogenase flavopr 0.002
>gnl|CDD|216175 pfam00888, Cullin, Cullin family Back     alignment and domain information 
 Score =  458 bits (1179), Expect = e-156
 Identities = 197/462 (42%), Positives = 280/462 (60%), Gaps = 18/462 (3%)

Query: 1   MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
           + +++ Y++DFE+  L+ T  +Y +++S ++ E+S  EYM K EE L++E +RV  YLHS
Sbjct: 159 LDKLEVYKEDFEKPFLEATSEFYKKESSKFLQENSVSEYMKKVEERLEEEEERVRLYLHS 218

Query: 61  SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
           S+E KL+E  +  L+     + LE   S  + LL  +K+EDL RMYRL  ++P GLEP+ 
Sbjct: 219 STEKKLIEVCEKVLI----EKHLEFLHSEFQRLLDNEKIEDLRRMYRLLSRVPNGLEPLR 274

Query: 121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
             F++HI  EG   V                   +  ++ ++ELHDKY   V   F N  
Sbjct: 275 KYFEKHIKKEGLAAVSDLA----------VETDPKDYVQTLLELHDKYDSLVNEAFNNDA 324

Query: 181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
           LF  AL +AFE F N     S S+ELLA +CD++LKK   + L++E +EE L+K++ L  
Sbjct: 325 LFLNALDKAFEEFINS--NSSKSAELLAKYCDSLLKKS-LKGLNEEELEEKLDKIIVLFK 381

Query: 241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
           YI DKD+F +FYRK LA+RLL   SA+DD E+ ++ KLKQ+CG QFTSK+E M  D++L+
Sbjct: 382 YIEDKDVFEKFYRKMLAKRLLNGTSASDDAEKKMIEKLKQECGYQFTSKLERMFKDISLS 441

Query: 301 RENQTSFEEYLSNNQNAHP-GIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYE 359
           +E   SF+ +L NN +    GIDLSV VL+TGFWP+  +   +LP E+ K +E F+ FY 
Sbjct: 442 KELNNSFKNHLENNLDLLSEGIDLSVLVLSTGFWPTLPTEPFSLPEELEKALEKFEEFYS 501

Query: 360 TKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNL 419
            K   RKLTW++SLG+  +  +F  K  EL VSTYQ A LLLFN  + L+  E+     L
Sbjct: 502 KKHSGRKLTWLHSLGRGELKAEFNDKTYELTVSTYQMAVLLLFNDQEELTVEELSEATGL 561

Query: 420 THDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFT 461
           + D L R L SL  AK  +L K P  +  S +  F  NS FT
Sbjct: 562 SDDLLRRTLQSLLKAKVLLLTKIPKGEEFSPNTVFSLNSDFT 603

Length = 603
>gnl|CDD|227934 COG5647, COG5647, Cullin, a subunit of E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>gnl|CDD|214545 smart00182, CULLIN, Cullin Back     alignment and domain information
>gnl|CDD|204512 pfam10557, Cullin_Nedd8, Cullin protein neddylation domain Back     alignment and domain information
>gnl|CDD|214883 smart00884, Cullin_Nedd8, Cullin protein neddylation domain Back     alignment and domain information
>gnl|CDD|217566 pfam03450, CO_deh_flav_C, CO dehydrogenase flavoprotein C-terminal domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 557
KOG2166725 consensus Cullins [Cell cycle control, cell divisi 100.0
KOG2167661 consensus Cullins [Cell cycle control, cell divisi 100.0
COG5647773 Cullin, a subunit of E3 ubiquitin ligase [Posttran 100.0
KOG2284728 consensus E3 ubiquitin ligase, Cullin 2 component 100.0
KOG2285777 consensus E3 ubiquitin ligase, Cullin 1 component 100.0
PF00888588 Cullin: Cullin family; InterPro: IPR001373 Cullins 100.0
smart00182142 CULLIN Cullin. 100.0
KOG2165765 consensus Anaphase-promoting complex (APC), subuni 99.97
PF1055768 Cullin_Nedd8: Cullin protein neddylation domain; I 99.81
TIGR0161095 phage_O_Nterm phage replication protein O, N-termi 94.4
PF0208283 Rrf2: Transcriptional regulator; InterPro: IPR0009 94.16
PF1341248 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 93.05
PF0933952 HTH_IclR: IclR helix-turn-helix domain; InterPro: 92.88
PF1280262 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP 92.72
PF0822057 HTH_DeoR: DeoR-like helix-turn-helix domain; Inter 92.14
PF0104759 MarR: MarR family; InterPro: IPR000835 The MarR-ty 90.66
PF1346368 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL 90.45
TIGR02698130 CopY_TcrY copper transport repressor, CopY/TcrY fa 89.94
COG3682123 Predicted transcriptional regulator [Transcription 89.75
TIGR02337118 HpaR homoprotocatechuate degradation operon regula 89.43
PF0102247 HTH_5: Bacterial regulatory protein, arsR family; 89.16
PF1284061 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_ 88.76
PRK11512144 DNA-binding transcriptional repressor MarR; Provis 88.2
smart0055068 Zalpha Z-DNA-binding domain in adenosine deaminase 87.98
PRK11920153 rirA iron-responsive transcriptional regulator; Re 87.76
PF0901269 FeoC: FeoC like transcriptional regulator; InterPr 87.61
PRK10857164 DNA-binding transcriptional regulator IscR; Provis 86.82
PF03965115 Penicillinase_R: Penicillinase repressor; InterPro 86.68
PF0827955 HTH_11: HTH domain; InterPro: IPR013196 Winged hel 85.39
TIGR01889109 Staph_reg_Sar staphylococcal accessory regulator f 84.82
TIGR02010135 IscR iron-sulfur cluster assembly transcription fa 84.71
COG1959150 Predicted transcriptional regulator [Transcription 83.74
COG3355126 Predicted transcriptional regulator [Transcription 82.31
PF0197868 TrmB: Sugar-specific transcriptional regulator Trm 81.97
smart00347101 HTH_MARR helix_turn_helix multiple antibiotic resi 81.95
smart0042053 HTH_DEOR helix_turn_helix, Deoxyribose operon repr 81.85
smart0034691 HTH_ICLR helix_turn_helix isocitrate lyase regulat 80.83
>KOG2166 consensus Cullins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=100.00  E-value=4.3e-96  Score=792.54  Aligned_cols=537  Identities=68%  Similarity=1.088  Sum_probs=505.1

Q ss_pred             CccccHHhhhHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHccccCCCcHhHHHHHHHHHHHHHHHHHH
Q 008709            3 QMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATEL   82 (557)
Q Consensus         3 ~l~~Y~~~fE~~~L~~t~~yY~~~~~~~i~~~~~~~Yl~~~~~~l~~E~~r~~~~l~~~t~~~l~~~l~~~LI~~~~~~l   82 (557)
                      .+.+|...||++|+..|..||..+++.|+...++.+|+.+++.++.+|.+|+..|++..+..++.+.+...++..+.+.+
T Consensus       189 ~~s~Y~~~Fe~~fl~~t~~~y~~~~~~~l~~~~~~~yl~k~e~~l~~e~~r~~~yl~~~~e~~~~~~le~~~~~~~~~~~  268 (725)
T KOG2166|consen  189 ELSFYEEDFERKFLQDTASYYSEEASEWLEENSCLDYLKKIEECLKEERERVTHYLHSSTEPKLVEVVEDELIVVFADDL  268 (725)
T ss_pred             chhHHHHHhHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            36799999999999999999999999999988999999999999999999999999988888999999999999999999


Q ss_pred             HHHhhhHHHHhhccCCHHHHHHHHHhhccCCCChhhHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCccchHHHHHHHH
Q 008709           83 LEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKII  162 (557)
Q Consensus        83 l~~~~~gl~~ll~~~~~~~L~~ly~l~~~~~~~l~~l~~~~~~~i~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~I~~l~  162 (557)
                      ++..++|+..|+.+++.++|.+||++++++++|++.++..++.|+..+|..++.......        ...+..+|..++
T Consensus       269 ~e~~~sgf~~~l~~~~~edl~~my~l~~r~~~gl~~l~~~~~~~~~~eg~~l~~r~~~~~--------~~~~~~~v~~~l  340 (725)
T KOG2166|consen  269 EEMEHSGFRALLNDDKLEDLSRMYRLFRRILPGLEPLASVFKQHVREEGNALVARPAETA--------ATNPVEYVQGLL  340 (725)
T ss_pred             HHHhcchHHHHHhccchhHHHHHHHHhhcccccchhHHHHHHHHHHhhHHHHhhhhhhhc--------ccchHHHHhccH
Confidence            999999999999999999999999999999999999999999999999988887664321        046889999999


Q ss_pred             HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhcCCCCCCcHHHHHHHHHHHhhcCCCCCCChHHHHHhhhhHhhhhccc
Q 008709          163 ELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYI  242 (557)
Q Consensus       163 ~l~~~~~~li~~~F~~~~~f~~~l~~af~~~~n~~~~~~~~~e~La~y~d~~l~~~~~~~~~~~~~~~~l~~i~~lf~~l  242 (557)
                      +++++|..++..||+++..|..+++.||..|+|.+...  .+|+||+|||.++|++. .+.++++++..++.++.+|+|+
T Consensus       341 ~~~~~~~~~~~~~f~~d~~f~~~ld~a~~~fin~n~~~--~~E~la~y~D~~lkk~~-k~~~e~~ie~~l~~v~~l~~yi  417 (725)
T KOG2166|consen  341 ELHDKYKVLVKECFANDTLFKKALDAAFEEFINKNVAT--SAELLATYCDDILKKGS-KKLSDEAIEDTLEKVVKLLKYI  417 (725)
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHcccCCC--cHHHHHHHhHHHhcccc-cCCchhHHHhHhhcceeeeeec
Confidence            99999999999999999999999999999999998632  26999999999999953 5678999999999999999999


Q ss_pred             cChhHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHhCChhhHhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCCCcc
Q 008709          243 SDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGID  322 (557)
Q Consensus       243 ~~Kd~F~~~Y~~~L~~RLL~~~~~~~~~E~~~i~~Lk~~~G~~~~~kl~~Ml~D~~~S~~l~~~f~~~~~~~~~~~~~~~  322 (557)
                      .+||+|+.+|++.||+|||+++|.|++.|+.||.+|++.||.+||.+|++|++|+..|+++...|.++  .+....++++
T Consensus       418 sdKdvF~~~Ykk~lakRLl~~~S~sdd~E~~mIsklk~~~g~~~T~kL~~Mf~D~~~s~~l~~~F~~~--~~~~~~~~~d  495 (725)
T KOG2166|consen  418 SDKDVFAEFYKKVLARRLLFDRSASDDHEKSLITKLKNLCGEQFTSKLEGMFTDLTLSRELQTAFADY--ANYSANLGID  495 (725)
T ss_pred             cHHHHHHHHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHhHHHHHHHhhcccHHHHHHHHHHHHhh--hchhccCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999987  2222345799


Q ss_pred             eEEEEeecCCCCCCCCCCCcCCHhHHHHHHHHHHHHhhcCCCceEEeccCCceEEEEeEecCeeEEEEEcHHHHHHHHhh
Q 008709          323 LSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLF  402 (557)
Q Consensus       323 f~~~VLs~~~WP~~~~~~~~lP~~l~~~~~~F~~~Y~~~~~~R~L~w~~~lg~~~l~~~~~~~~~~l~~s~~Qa~iLl~F  402 (557)
                      |.|.|||.++||.+++.++.||++|.++++.|..||..+|+||+|.|.|++|.|+|.+++.+++++++||++||+||++|
T Consensus       496 f~v~VLt~g~WP~~~~~~~~LP~el~~~~e~F~~~Y~~kh~gR~L~w~~~l~~~ei~~~~~~~~~~l~vst~Qm~VLlLF  575 (725)
T KOG2166|consen  496 FTVTVLTTGFWPSYKSTDINLPSEMSDCVEMFKGFYATKHNGRRLTWIYSLGTGEINGKFDKKTVELQVSTYQMAVLLLF  575 (725)
T ss_pred             eeEEEeecCCcCCccCCCCCCChhHHHHHHHHHHHHhhccCCCeeeeeeccCceEEEEEecCceEEEEEEhHHHHHHHHc
Confidence            99999999999998888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCcCHHHHHHHhCCCHHHHHHHHHhhhcccceeeecCCCCCCCCCCCeEEEccCCCCCcceeeecCCCchhhhhhHH
Q 008709          403 NTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVE  482 (557)
Q Consensus       403 n~~~~~t~~el~~~~~i~~~~l~~~L~~L~~~k~~iL~~~~~~~~~~~~~~~~~N~~f~~~~~~i~i~~~~~~e~~~~~~  482 (557)
                      |+.+.+|+++|.+.|+++.+++.++|+||.+.|.+++.. |.+.. ++++.|.+|.+|+++++|++++.++..+.+.+.+
T Consensus       576 N~~d~lt~~eI~~~t~i~~~~l~~~L~Sl~~~K~~v~~~-~~s~~-~~~~~~~~N~~f~sk~~Rv~i~~~~~~e~~~~~~  653 (725)
T KOG2166|consen  576 NNTEKLTYEEILEQTNLGHEDLARLLQSLSCLKYKILLK-PMSRT-SPNDEFAFNSKFTSKMRRVKIPLPPMDERKKVVE  653 (725)
T ss_pred             cchhhccHHHHHHHhCCCHHHHHHHHHHHHHHhHhhccC-ccccC-CCCcEEEeeccccCcceeeccCCCCchhHHHHHh
Confidence            999999999999999999999999999998888666666 66666 7899999999999999999999888888888899


Q ss_pred             hHHHhhHHhHhHHHHHhhccCCCCChhHHHHHHHHHhccCCCCChHHHHHHHHhhhhhccccccCCCCCceEe
Q 008709          483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRY  555 (557)
Q Consensus       483 ~~~~~r~~~i~A~IVRimK~~k~l~~~~L~~~v~~~l~~~F~~~~~~ik~~Ie~Liereyi~r~~~~~~~y~Y  555 (557)
                      .+++||+..|+||||||||+||.+.|.+|+.+|.+|++++|.|++.+||+|||.|||||||+|| +|+++|+|
T Consensus       654 ~ve~dRk~~i~AaIVRIMK~rK~l~h~~Lv~Ev~~ql~~RF~p~v~~IKk~Ie~LIEkeYleR~-~~~~~Y~Y  725 (725)
T KOG2166|consen  654 DVDKDRKYAIDAAIVRIMKSRKVLGHQQLVSEVVEQLSERFKPDIKMIKKRIEDLIEREYLERD-ENPNIYRY  725 (725)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhcc-CCCCcccC
Confidence            9999999999999999999999999999999999999999999999999999999999999999 89999998

>KOG2167 consensus Cullins [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>COG5647 Cullin, a subunit of E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG2284 consensus E3 ubiquitin ligase, Cullin 2 component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG2285 consensus E3 ubiquitin ligase, Cullin 1 component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF00888 Cullin: Cullin family; InterPro: IPR001373 Cullins are a family of hydrophobic proteins that act as scaffolds for ubiquitin ligases (E3) Back     alignment and domain information
>smart00182 CULLIN Cullin Back     alignment and domain information
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain Back     alignment and domain information
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain Back     alignment and domain information
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp Back     alignment and domain information
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A Back     alignment and domain information
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities Back     alignment and domain information
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B Back     alignment and domain information
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism Back     alignment and domain information
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance Back     alignment and domain information
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A Back     alignment and domain information
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family Back     alignment and domain information
>COG3682 Predicted transcriptional regulator [Transcription] Back     alignment and domain information
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR Back     alignment and domain information
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities Back     alignment and domain information
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B Back     alignment and domain information
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional Back     alignment and domain information
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases Back     alignment and domain information
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed Back     alignment and domain information
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif Back     alignment and domain information
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional Back     alignment and domain information
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea Back     alignment and domain information
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets Back     alignment and domain information
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family Back     alignment and domain information
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR Back     alignment and domain information
>COG1959 Predicted transcriptional regulator [Transcription] Back     alignment and domain information
>COG3355 Predicted transcriptional regulator [Transcription] Back     alignment and domain information
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis Back     alignment and domain information
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein Back     alignment and domain information
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor Back     alignment and domain information
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation 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 ?
Query557
4a0c_C741 Structure Of The Cand1-Cul4b-Rbx1 Complex Length = 1e-104
4a0l_E726 Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp 1e-104
2hye_C759 Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Compl 1e-102
4a0k_A742 Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp 1e-102
1ldj_A760 Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiqu 2e-82
1u6g_A776 Crystal Structure Of The Cand1-Cul1-Roc1 Complex Le 2e-82
1ldk_B366 Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiqu 8e-59
3rtr_A368 A Ring E3-Substrate Complex Poised For Ubiquitin-Li 1e-56
4f52_A282 Structure Of A Glomulin-Rbx1-Cul1 Complex Length = 2e-37
3dpl_C382 Structural Insights Into Nedd8 Activation Of Cullin 1e-32
3dqv_C382 Structural Insights Into Nedd8 Activation Of Cullin 1e-28
2do7_A101 Solution Structure Of The Winged Helix-Turn-Helix M 2e-18
1ldk_A396 Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiqu 2e-18
4a64_A354 Crystal Structure Of The N-Terminal Domain Of Human 5e-17
4ap2_B410 Crystal Structure Of The Human Klhl11-cul3 Complex 7e-17
4apf_B388 Crystal Structure Of The Human Klhl11-cul3 Complex 1e-16
4eoz_B364 Crystal Structure Of The Spop Btb Domain Complexed 2e-15
1iuy_A92 Solution Structure Of The Cullin-3 Homologue Length 4e-14
3tdu_C77 N-Terminal Acetylation Acts As An Avidity Enhancer 3e-13
2wzk_A391 Structure Of The Cul5 N-Terminal Domain At 2.05a Re 7e-11
3o2p_E88 A Dual E3 Mechanism For Rub1 Ligation To Cdc53: Dcn 2e-07
3o6b_B76 A Dual E3 Mechanism For Rub1 Ligation To Cdc53: Dcn 5e-07
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex Length = 741 Back     alignment and structure 
Iteration: 1

 Score =  376 bits (965), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 209/555 (37%), Positives = 328/555 (59%), Gaps = 26/555 (4%)
Query: 7   YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
           Y+  FE+  L++T   Y+ +    + E   PEY+    + L++E DR+  YL  +++  L
Sbjct: 209 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 268
Query: 67  VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
           +  V+ +LL  + T +L+K   G   LL E++++DLS +Y+L+ ++  G++ +   + ++
Sbjct: 269 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 325
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
           I A G+ +V   E             +++ +++++++  DK    +  CF+ +  F  A+
Sbjct: 326 IKAFGSTIVINPE-------------KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAM 372
Query: 187 KEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKD 246
           KEAFE F NK    +  +EL+A + D+ L+  GN++ +DE +E+ L+K++ +  +I  KD
Sbjct: 373 KEAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKD 429
Query: 247 LFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTS 306
           +F  FY+K LA+RLL  +SA+ D E+S+L+KLK +CG  FTSK+EGM  D+ L+++    
Sbjct: 430 VFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQ 489
Query: 307 FEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRK 366
           F++Y+ N QN    I+L+V +LT G+WP+Y   +++LP EMVK  E+FK FY  K   RK
Sbjct: 490 FKQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRK 548
Query: 367 LTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVR 426
           L W  +LG C +  +F++   EL VS +Q   LL+FN  +  S  EI     +   +L R
Sbjct: 549 LQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRR 608
Query: 427 LLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDERKKIVE 482
            L SL+C K ++L K P  K I   D F  N  F  ++ RIKI        V+E+    E
Sbjct: 609 TLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTE 668
Query: 483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 542
            V +DR+Y IDAA+VRIMK RK L H  LVSE   QL    KP    +KKR+E LI RDY
Sbjct: 669 RVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDY 726
Query: 543 LERDKENPNMFRYLA 557
           +ERDKENPN + Y+A
Sbjct: 727 MERDKENPNQYNYIA 741
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic Site Containing Dna-Duplex Length = 726 Back     alignment and structure
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex Length = 759 Back     alignment and structure
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic Site Containing Dna-Duplex Length = 742 Back     alignment and structure
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin Ligase Complex Length = 760 Back     alignment and structure
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex Length = 776 Back     alignment and structure
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin Ligase Complex Length = 366 Back     alignment and structure
>pdb|3RTR|A Chain A, A Ring E3-Substrate Complex Poised For Ubiquitin-Like Protein Transfer: Structural Insights Into Cullin-Ring Ligases Length = 368 Back     alignment and structure
>pdb|4F52|A Chain A, Structure Of A Glomulin-Rbx1-Cul1 Complex Length = 282 Back     alignment and structure
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring Ligases: Conformational Control Of Conjugation Length = 382 Back     alignment and structure
>pdb|3DQV|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring Ligases: Conformational Control Of Conjugation Length = 382 Back     alignment and structure
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of Human Cul-4b Length = 101 Back     alignment and structure
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin Ligase Complex Length = 396 Back     alignment and structure
>pdb|4A64|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Cul4b At 2.57a Resolution Length = 354 Back     alignment and structure
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a Resolution Length = 410 Back     alignment and structure
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a Resolution Length = 388 Back     alignment and structure
>pdb|4EOZ|B Chain B, Crystal Structure Of The Spop Btb Domain Complexed With The Cul3 N- Terminal Domain Length = 364 Back     alignment and structure
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue Length = 92 Back     alignment and structure
>pdb|3TDU|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within An Interconnected Multiprotein Complex: Structure Of A Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex Length = 77 Back     alignment and structure
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a Resolution Length = 391 Back     alignment and structure
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53: Dcn1(P)-Cdc53(Whb) Length = 88 Back     alignment and structure
>pdb|3O6B|B Chain B, A Dual E3 Mechanism For Rub1 Ligation To Cdc53: Dcn1(P)-Cdc53(Whb) Low Resolution Length = 76 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 ?
Query557
1ldj_A760 Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc 1e-174
2hye_C759 Cullin-4A, CUL-4A; beta propeller, ring finger, zi 1e-166
3dpl_C382 Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus int 1e-113
4ap2_B410 Cullin-3, CUL-3; ubiquitination, E3 ligase, cell c 1e-48
2wzk_A391 Cullin-5, CUL-5; UBL conjugation pathway, HIV, pho 4e-47
4eoz_B364 Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, pro 1e-44
4a64_A354 Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo 7e-41
1iuy_A92 Cullin-3 homologue; winged helix, structural genom 5e-30
3tdu_C77 Cullin-1, CUL-1; E2:E3, ligase-protein binding com 2e-29
2do7_A101 Cullin-4B, CUL-4B; helix-turn-helix motif, structu 2e-27
3o2p_E88 Cell division control protein 53; ligase, cell cyc 4e-27
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-13
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-04
>1ldj_A Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc ring finger, ligase, ubiquitin, ubiquitination, SCF; 3.00A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 1u6g_A 1ldk_A 1ldk_B 3rtr_A Length = 760 Back     alignment and structure
 Score =  510 bits (1315), Expect = e-174
 Identities = 187/567 (32%), Positives = 311/567 (54%), Gaps = 28/567 (4%)

Query: 4   MDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSE 63
           +  Y++ FE   L DT  +Y+R+++ ++ ++   EYM KAE  L +E+ RV  YLH S++
Sbjct: 209 LTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQ 268

Query: 64  PKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVF 123
            +L  K +  L+     + LE   +  + LL  DK EDL RMY L  +I  GL  +  + 
Sbjct: 269 DELARKCEQVLI----EKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLL 324

Query: 124 KQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFH 183
           + HI  +G   +++  +AA N          ++ ++ ++++H KY   V + F N   F 
Sbjct: 325 ETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDVHKKYNALVMSAFNNDAGFV 376

Query: 184 KALKEAFEIF------CNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVK 237
            AL +A   F         A   S S ELLA +CD++LKK  ++   +  +E+TL +V+ 
Sbjct: 377 AALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS-SKNPEEAELEDTLNQVMV 435

Query: 238 LLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDL 297
           +  YI DKD+F +FY K LA+RL+   SA+DD E S+++KLKQ CG ++TSK++ M  D+
Sbjct: 436 VFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDI 495

Query: 298 TLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGF 357
            ++++    F+++L+N++     +D S+ VL++G WP  +S    LPSE+ +  + F  F
Sbjct: 496 GVSKDLNEQFKKHLTNSEP--LDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAF 553

Query: 358 YETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQL 417
           Y ++   RKLTW+Y L +  +     +    L  ST+Q A LL +NT D  +  ++    
Sbjct: 554 YASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDST 613

Query: 418 NLTHDDLVRLLHSLSCAKYKILLKEPNTKT---ISQSDHFEFNSKFTDRMRRIKIPLP-- 472
            +  D L ++L  L  +K  +L  E        +      +    + ++  R+ I +P  
Sbjct: 614 QIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMK 673

Query: 473 --PVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAI 530
                E++   +++++DR+  I AA+VRIMK RKVL HQQL+ E + QLS  FKP +  I
Sbjct: 674 TEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVI 733

Query: 531 KKRMEDLITRDYLERDKENPNMFRYLA 557
           KK ++ LI ++YLER     + + YLA
Sbjct: 734 KKCIDILIEKEYLERVDGEKDTYSYLA 760
>2hye_C Cullin-4A, CUL-4A; beta propeller, ring finger, zinc finger, propeller cluster, helical repeats, cullin repeats, protein binding; HET: DNA; 3.10A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 4a0k_A* 4a0c_C 4a0l_E* Length = 759 Back     alignment and structure
>3dpl_C Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} PDB: 3dqv_C Length = 382 Back     alignment and structure
>4ap2_B Cullin-3, CUL-3; ubiquitination, E3 ligase, cell cycle; HET: EDO; 2.80A {Homo sapiens} PDB: 4apf_B Length = 410 Back     alignment and structure
>2wzk_A Cullin-5, CUL-5; UBL conjugation pathway, HIV, phosphoprotein, isopeptide bond, protein binding; 2.05A {Mus musculus} Length = 391 Back     alignment and structure
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding; 2.40A {Homo sapiens} PDB: 4apf_B Length = 364 Back     alignment and structure
>4a64_A Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo sapiens} Length = 354 Back     alignment and structure
>1iuy_A Cullin-3 homologue; winged helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.34 Length = 92 Back     alignment and structure
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo sapiens} PDB: 3tdz_C Length = 77 Back     alignment and structure
>2do7_A Cullin-4B, CUL-4B; helix-turn-helix motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101 Back     alignment and structure
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A {Saccharomyces cerevisiae} PDB: 3o6b_B Length = 88 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query557
1ldj_A760 Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc 100.0
2hye_C759 Cullin-4A, CUL-4A; beta propeller, ring finger, zi 100.0
3dpl_C382 Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus int 100.0
4ap2_B410 Cullin-3, CUL-3; ubiquitination, E3 ligase, cell c 100.0
4eoz_B364 Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, pro 99.97
4a64_A354 Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo 99.97
2wzk_A391 Cullin-5, CUL-5; UBL conjugation pathway, HIV, pho 99.97
3o2p_E88 Cell division control protein 53; ligase, cell cyc 99.93
3tdu_C77 Cullin-1, CUL-1; E2:E3, ligase-protein binding com 99.93
1iuy_A92 Cullin-3 homologue; winged helix, structural genom 99.92
2do7_A101 Cullin-4B, CUL-4B; helix-turn-helix motif, structu 99.92
1wi9_A72 Protein C20ORF116 homolog; helix-turn-helix motif, 91.13
3cuo_A99 Uncharacterized HTH-type transcriptional regulato; 89.41
2jt1_A77 PEFI protein; solution structure, winged helix-tur 89.29
3lmm_A583 Uncharacterized protein; multi-domained alpha-beta 88.44
1qgp_A77 Protein (double stranded RNA adenosine deaminase); 87.75
3jth_A98 Transcription activator HLYU; transcription factor 87.44
3tgn_A146 ADC operon repressor ADCR; helix-turn-helix, trans 86.77
3hsr_A140 HTH-type transcriptional regulator SARZ; helix-tur 86.49
2fu4_A83 Ferric uptake regulation protein; DNA binding doma 86.09
3g3z_A145 NMB1585, transcriptional regulator, MARR family; t 85.94
1sfx_A109 Conserved hypothetical protein AF2008; structural 85.63
1y0u_A96 Arsenical resistance operon repressor, putative; s 85.56
2dk5_A91 DNA-directed RNA polymerase III 39 kDa polypeptide 85.45
2k4b_A99 Transcriptional regulator; DNA binding protein, wi 84.98
3ech_A142 MEXR, multidrug resistance operon repressor; winge 84.64
3cdh_A155 Transcriptional regulator, MARR family; helix-turn 84.53
2htj_A81 P fimbrial regulatory protein KS71A; winged helix- 84.52
1qbj_A81 Protein (double-stranded RNA specific adenosine D 84.43
1xn7_A78 Hypothetical protein YHGG; alpha+beta, GFT structu 84.42
3nrv_A148 Putative transcriptional regulator (MARR/EMRR FAM; 84.4
1oyi_A82 Double-stranded RNA-binding protein; (alpha+beta) 84.08
4hbl_A149 Transcriptional regulator, MARR family; HTH, trans 83.85
2gxg_A146 146AA long hypothetical transcriptional regulator; 83.73
2k02_A87 Ferrous iron transport protein C; FEOC, iron-sulfu 83.6
3lwf_A159 LIN1550 protein, putative transcriptional regulato 83.55
3oop_A143 LIN2960 protein; protein structure initiative, PSI 83.42
3r0a_A123 Putative transcriptional regulator; structural gen 83.31
2fbh_A146 Transcriptional regulator PA3341; MARR, transcript 83.28
2frh_A127 SARA, staphylococcal accessory regulator A; winged 83.02
3bpv_A138 Transcriptional regulator; MARR, DNA binding, tran 82.7
1p6r_A82 Penicillinase repressor; transcription regulation, 82.69
2qww_A154 Transcriptional regulator, MARR family; YP_013417. 82.68
1xn7_A78 Hypothetical protein YHGG; alpha+beta, GFT structu 82.63
3eco_A139 MEPR; mutlidrug efflux pump regulator winged helix 82.6
3t8r_A143 Staphylococcus aureus CYMR; transcriptional regula 82.55
1u2w_A122 CADC repressor, cadmium efflux system accessory pr 82.18
3bj6_A152 Transcriptional regulator, MARR family; helix-turn 82.17
3bro_A141 Transcriptional regulator; helix_TURN_helix, multi 82.06
2d1h_A109 ST1889, 109AA long hypothetical transcriptional re 82.02
1sfu_A75 34L protein; protein/Z-DNA complex, DNA binding pr 81.94
3k0l_A162 Repressor protein; helix-turn-helix, structural ge 81.91
3k69_A162 Putative transcription regulator; putative transcr 81.79
1jgs_A138 Multiple antibiotic resistance protein MARR; trans 81.39
2fa5_A162 Transcriptional regulator MARR/EMRR family; multip 81.39
3pqk_A102 Biofilm growth-associated repressor; helix-turn-he 80.91
3e6m_A161 MARR family transcriptional regulator; APC88769, s 80.51
3bdd_A142 Regulatory protein MARR; putative multiple antibio 80.42
2heo_A67 Z-DNA binding protein 1; protein DLM1-Z-DNA comple 80.09
3deu_A166 Transcriptional regulator SLYA; MARR, WING-helix, 80.06
1xmk_A79 Double-stranded RNA-specific adenosine deaminase; 80.02
2pex_A153 Transcriptional regulator OHRR; transcription regu 80.01
>1ldj_A Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc ring finger, ligase, ubiquitin, ubiquitination, SCF; 3.00A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 1u6g_A 1ldk_A 1ldk_B 3rtr_A Back     alignment and structure
Probab=100.00  E-value=8.3e-107  Score=907.84  Aligned_cols=538  Identities=34%  Similarity=0.595  Sum_probs=503.9

Q ss_pred             CccccHHhhhHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHccccCCCcHhHHHHHHHHHHHHHHHHHH
Q 008709            3 QMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATEL   82 (557)
Q Consensus         3 ~l~~Y~~~fE~~~L~~t~~yY~~~~~~~i~~~~~~~Yl~~~~~~l~~E~~r~~~~l~~~t~~~l~~~l~~~LI~~~~~~l   82 (557)
                      ++++|.+.||++||+.|..||+.+|+.|+.+.++++||++|+.++++|.+||..||+++|.++|.++|.++||.+|.+.|
T Consensus       208 ~l~vY~~~FE~~fL~~t~~fY~~es~~~l~~~~~~~Yl~~~e~~l~eE~~R~~~yL~~~t~~~l~~~~~~~Li~~~~~~l  287 (760)
T 1ldj_A          208 TLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLEIF  287 (760)
T ss_dssp             CCHHHHHHTHHHHHHHHHHHHHHHHHHHHHHSCTTSSHHHHHHHHHHHHHTTTTTTCSSSSHHHHHHHHHHHSSSSSHHH
T ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHhcCHhhHHHHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             HHHhhhHHHHhhccCCHHHHHHHHHhhccCCCChhhHHHHHHHHHHHHHHHHHHhhHHHhhhcCCCCCccchHHHHHHHH
Q 008709           83 LEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKII  162 (557)
Q Consensus        83 l~~~~~gl~~ll~~~~~~~L~~ly~l~~~~~~~l~~l~~~~~~~i~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~I~~l~  162 (557)
                      +    +||..||++++.++|++||+||++++++++.|+..|++||.+.|.+++......        ...++..||+.|+
T Consensus       288 ~----~~~~~ll~~~~~~dL~~my~L~~rv~~gl~~l~~~~~~~i~~~G~~~v~~~~~~--------~~~~~~~~V~~ll  355 (760)
T 1ldj_A          288 H----TEFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEA--------ALNDPKMYVQTVL  355 (760)
T ss_dssp             H----HHHHHHHHSCCTTHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHTTS--------GGGCHHHHHHHHH
T ss_pred             H----HHHHHHHHcCCHHHHHHHHHHhCcCcchHHHHHHHHHHHHHHHHHHHHHHhhcc--------cccCHHHHHHHHH
Confidence            5    489999999999999999999999999999999999999999999999764211        1246889999999


Q ss_pred             HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhcC------CCCCCcHHHHHHHHHHHhhcCCCCCCChHHHHHhhhhHh
Q 008709          163 ELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKA------VGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVV  236 (557)
Q Consensus       163 ~l~~~~~~li~~~F~~~~~f~~~l~~af~~~~n~~------~~~~~~~e~La~y~d~~l~~~~~~~~~~~~~~~~l~~i~  236 (557)
                      ++|++|+.++.+||++|+.|..++++||+.|+|.+      .+..++||+||+|||.+||+|. .+.++++++..+++++
T Consensus       356 ~l~~k~~~lv~~~F~~d~~f~~al~~af~~~iN~~~~~~~~~~~~~~~E~la~y~D~~Lkk~~-k~~~e~e~e~~L~~i~  434 (760)
T 1ldj_A          356 DVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSS-KNPEEAELEDTLNQVM  434 (760)
T ss_dssp             HHHHHHHHHHHTTTTTCHHHHHHHHHHHHHHHHSSHHHHHHTSTTHHHHHHHHHHHHHHBCCS-SCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcCCccccccccccccHHHHHHHhHHHHhCCC-CCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999976      2346899999999999999875 3467899999999999


Q ss_pred             hhhccccChhHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHhCChhhHhHHHHHHHHHHhHHHHHHHHHHHhcCCC
Q 008709          237 KLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQN  316 (557)
Q Consensus       237 ~lf~~l~~Kd~F~~~Y~~~L~~RLL~~~~~~~~~E~~~i~~Lk~~~G~~~~~kl~~Ml~D~~~S~~l~~~f~~~~~~~~~  316 (557)
                      .||+|+++||+|+.+|+++||+|||.+++.+.+.|+.||++|+.+||.+||++|++|++|+..|++++..|++++.++  
T Consensus       435 ~lf~~i~~KDvF~~~Y~~~LakRLL~~~s~s~d~E~~~i~~Lk~~~G~~~t~kle~M~~Di~~S~~l~~~f~~~~~~~--  512 (760)
T 1ldj_A          435 VVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNS--  512 (760)
T ss_dssp             HHHTTCSCHHHHHHHHHHHHHHHHHTTCBSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT--
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999987651  


Q ss_pred             CCCCcceEEEEeecCCCCCCCCCCCcCCHhHHHHHHHHHHHHhhcCCCceEEeccCCceEEEEeEecCeeEEEEEcHHHH
Q 008709          317 AHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQA  396 (557)
Q Consensus       317 ~~~~~~f~~~VLs~~~WP~~~~~~~~lP~~l~~~~~~F~~~Y~~~~~~R~L~w~~~lg~~~l~~~~~~~~~~l~~s~~Qa  396 (557)
                      ...+++|+|.|||+++||..+..++.||++|..+++.|++||..+|+||+|+|.+++|+|+|++.|++++++++||++||
T Consensus       513 ~~~~~~~~v~VLs~~~WP~~~~~~~~lP~~l~~~~~~F~~fY~~~~~~RkL~W~~~lg~~~l~~~~~~~~~~l~vs~~Qa  592 (760)
T 1ldj_A          513 EPLDLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQM  592 (760)
T ss_dssp             CCCSSEEEEEEEETTTSCCCCCSCCCCCGGGHHHHHHHHHHTTTTCTTCCEEECGGGCCCEEEESSSSSCCEEECCHHHH
T ss_pred             cCCCCCeeEEecCCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHHhCCCCeEEEecccccEEEEEEECCceEEEEEcHHHH
Confidence            12468999999999999998888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCcCHHHHHHHhCCCHHHHHHHHHhhhcccceeeecCC-----CCCCCCCCCeEEEccCCCCCcceeeecC
Q 008709          397 ATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEP-----NTKTISQSDHFEFNSKFTDRMRRIKIPL  471 (557)
Q Consensus       397 ~iLl~Fn~~~~~t~~el~~~~~i~~~~l~~~L~~L~~~k~~iL~~~~-----~~~~~~~~~~~~~N~~f~~~~~~i~i~~  471 (557)
                      +||++||+.+.+|+++|++.||++.++++++|++|+  +.+||.+.|     +++.+.+++.|.+|.+|++++.+|+|+.
T Consensus       593 ~iLllFn~~~~~t~~ei~~~t~i~~~~l~r~L~~l~--k~~iL~~~~~~~~~~~~~~~~~~~f~lN~~F~~k~~ri~i~~  670 (760)
T 1ldj_A          593 AILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILL--KSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINV  670 (760)
T ss_dssp             HHHHGGGSSSEEEHHHHHHHTCCCHHHHHHHHHHHH--HTTTEECSCTTCCTTTCCCCTTCEEEECSSCCCSSSSBCCCC
T ss_pred             HHHHHhcCCCCcCHHHHHHHHCcCHHHHHHHHHHHH--HCCcceeCCCccccccCCCCCCCEEEeeccccCCceEEEecC
Confidence            999999999999999999999999999999999997  568998554     7788999999999999999999999986


Q ss_pred             CCch----hhhhhHHhHHHhhHHhHhHHHHHhhccCCCCChhHHHHHHHHHhccCCCCChHHHHHHHHhhhhhccccccC
Q 008709          472 PPVD----ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDK  547 (557)
Q Consensus       472 ~~~~----e~~~~~~~~~~~r~~~i~A~IVRimK~~k~l~~~~L~~~v~~~l~~~F~~~~~~ik~~Ie~Liereyi~r~~  547 (557)
                      +...    |...+.+.+++||+..|+||||||||++|+|+|++|+.+|+++++++|.|++.+||+|||+||+||||+|++
T Consensus       671 ~~~~e~~~e~~~~~~~v~~dR~~~i~AaIVRIMK~rK~l~h~~Lv~ev~~ql~~rF~p~~~~IKk~Ie~LIereYl~R~~  750 (760)
T 1ldj_A          671 PMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD  750 (760)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSEEEHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTSEEECS
T ss_pred             ccccccchhhhhHHHHHHHHHHhHheeeehhhhhccCCCcHHHHHHHHHHHHhccCCCCHHHHHHHHHHHhhccceeeCC
Confidence            5432    344567889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCceEecC
Q 008709          548 ENPNMFRYLA  557 (557)
Q Consensus       548 ~~~~~y~Yia  557 (557)
                      +|+++|+|+|
T Consensus       751 ~~~~~y~YlA  760 (760)
T 1ldj_A          751 GEKDTYSYLA  760 (760)
T ss_dssp             SSTTEEEECC
T ss_pred             CCCcceeeCC
Confidence            9999999998
>2hye_C Cullin-4A, CUL-4A; beta propeller, ring finger, zinc finger, propeller cluster, helical repeats, cullin repeats, protein binding; HET: DNA; 3.10A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 4a0k_A* 4a0c_C 4a0l_E* Back     alignment and structure
>3dpl_C Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} PDB: 3dqv_C Back     alignment and structure
>4ap2_B Cullin-3, CUL-3; ubiquitination, E3 ligase, cell cycle; HET: EDO; 2.80A {Homo sapiens} Back     alignment and structure
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding; 2.40A {Homo sapiens} PDB: 4apf_B Back     alignment and structure
>4a64_A Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo sapiens} Back     alignment and structure
>2wzk_A Cullin-5, CUL-5; UBL conjugation pathway, HIV, phosphoprotein, isopeptide bond, protein binding; 2.05A {Mus musculus} Back     alignment and structure
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A {Saccharomyces cerevisiae} PDB: 3o6b_B Back     alignment and structure
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo sapiens} PDB: 3tdz_C Back     alignment and structure
>1iuy_A Cullin-3 homologue; winged helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.34 Back     alignment and structure
>2do7_A Cullin-4B, CUL-4B; helix-turn-helix motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.47 Back     alignment and structure
>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12} Back     alignment and structure
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2} Back     alignment and structure
>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein, structural genomics, PSI- 2, protein structure initiative; 3.00A {Corynebacterium diphtheriae} Back     alignment and structure
>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19 Back     alignment and structure
>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus} Back     alignment and structure
>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae} Back     alignment and structure
>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcript regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A 4gxo_A Back     alignment and structure
>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli} Back     alignment and structure
>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B} Back     alignment and structure
>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50 Back     alignment and structure
>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus} SCOP: a.4.5.5 Back     alignment and structure
>2dk5_A DNA-directed RNA polymerase III 39 kDa polypeptide; structural genomics, winged helix domain, NPPSFA; NMR {Homo sapiens} SCOP: a.4.5.85 Back     alignment and structure
>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp} Back     alignment and structure
>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A Back     alignment and structure
>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73 Back     alignment and structure
>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A Back     alignment and structure
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62 Back     alignment and structure
>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP} Back     alignment and structure
>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19 Back     alignment and structure
>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis} Back     alignment and structure
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A Back     alignment and structure
>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp} Back     alignment and structure
>3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua} Back     alignment and structure
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua} Back     alignment and structure
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei} Back     alignment and structure
>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Back     alignment and structure
>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D Back     alignment and structure
>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A* Back     alignment and structure
>1p6r_A Penicillinase repressor; transcription regulation, DNA-binding, winged helix protein, bacterial resistance to antibiotics; NMR {Bacillus licheniformis} SCOP: a.4.5.39 PDB: 2p7c_B Back     alignment and structure
>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str} Back     alignment and structure
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62 Back     alignment and structure
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0 Back     alignment and structure
>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A Back     alignment and structure
>1u2w_A CADC repressor, cadmium efflux system accessory protein; LEAD, SOFT metal ION resistance, ARSR/SM family, DNA binding protein; 1.90A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 3f72_A Back     alignment and structure
>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28 Back     alignment and structure
>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50 Back     alignment and structure
>1sfu_A 34L protein; protein/Z-DNA complex, DNA binding protein/DNA complex; 2.00A {Yaba-like disease virus} SCOP: a.4.5.19 Back     alignment and structure
>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP} Back     alignment and structure
>3k69_A Putative transcription regulator; putative transcriptional regulator, structural genomics, JOI for structural genomics, JCSG; HET: MSE; 1.95A {Lactobacillus plantarum} SCOP: a.4.5.0 Back     alignment and structure
>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor, transcription; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28 Back     alignment and structure
>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris} Back     alignment and structure
>3pqk_A Biofilm growth-associated repressor; helix-turn-helix motif, winged-helix fold, transcriptional R DNA binding, transcription; 2.09A {Xylella fastidiosa} PDB: 3pqj_A Back     alignment and structure
>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi} Back     alignment and structure
>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis} Back     alignment and structure
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A Back     alignment and structure
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28 Back     alignment and structure
>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19 Back     alignment and structure
>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A 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 557
d2hyec3273 e.40.1.1 (C:403-675) Cullin-4A {Human (Homo sapien 4e-92
d1ldja3276 e.40.1.1 (A:411-686) Cullin homolog 1, cul-1 {Huma 5e-87
d1ldja2394 a.118.17.1 (A:17-410) Cullin homolog 1, Cul-1 {Hum 3e-46
d2hyec2347 a.118.17.1 (C:55-401) Cullin-4A {Human (Homo sapie 7e-46
d1iuya_92 a.4.5.34 (A:) Cullin-3 homologue {Mouse (Mus muscu 2e-30
d1ldja190 a.4.5.34 (A:687-776) Anaphase promoting complex (A 3e-30
d2hyec184 a.4.5.34 (C:676-759) Cullin-4A {Human (Homo sapien 3e-28
>d2hyec3 e.40.1.1 (C:403-675) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Length = 273 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: Cullin homology domain
superfamily: Cullin homology domain
family: Cullin homology domain
domain: Cullin-4A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  281 bits (720), Expect = 4e-92
 Identities = 109/274 (39%), Positives = 169/274 (61%), Gaps = 2/274 (0%)

Query: 201 SSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRL 260
           +  +EL+A   D+ L+ G N++ +DE +E TL+K++ L  +I  KD+F  FY+K LA+RL
Sbjct: 1   NKPAELIAKHVDSKLRAG-NKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRL 59

Query: 261 LFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPG 320
           L  +SA+ D E+S+L+KLK +CG  FTSK+EGM  D+ L+++    F++++ N  ++ P 
Sbjct: 60  LVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP- 118

Query: 321 IDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNING 380
           IDL+V +LT G+WP+Y   +++L  EM+K  EVFK FY  K   RKL W  +LG   +  
Sbjct: 119 IDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKA 178

Query: 381 KFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILL 440
           +F++   E  VS +Q   LL+FN  D  S+ EI     +   +L R L SL+C K ++L+
Sbjct: 179 EFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLI 238

Query: 441 KEPNTKTISQSDHFEFNSKFTDRMRRIKIPLPPV 474
           K P  K +   D F FN +F  ++ RIKI    +
Sbjct: 239 KSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQM 272
>d1ldja3 e.40.1.1 (A:411-686) Cullin homolog 1, cul-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 276 Back     information, alignment and structure
>d1ldja2 a.118.17.1 (A:17-410) Cullin homolog 1, Cul-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 394 Back     information, alignment and structure
>d2hyec2 a.118.17.1 (C:55-401) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Length = 347 Back     information, alignment and structure
>d1iuya_ a.4.5.34 (A:) Cullin-3 homologue {Mouse (Mus musculus) [TaxId: 10090]} Length = 92 Back     information, alignment and structure
>d1ldja1 a.4.5.34 (A:687-776) Anaphase promoting complex (APC) {Human (Homo sapiens) [TaxId: 9606]} Length = 90 Back     information, alignment and structure
>d2hyec1 a.4.5.34 (C:676-759) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Length = 84 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 ?
Query557
d2hyec3273 Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1ldja3276 Cullin homolog 1, cul-1 {Human (Homo sapiens) [Tax 100.0
d1ldja2394 Cullin homolog 1, Cul-1 {Human (Homo sapiens) [Tax 99.95
d2hyec2347 Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} 99.95
d1ldja190 Anaphase promoting complex (APC) {Human (Homo sapi 99.92
d2hyec184 Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} 99.91
d1iuya_92 Cullin-3 homologue {Mouse (Mus musculus) [TaxId: 1 99.9
d1ylfa1138 Hypothetical protein BC1842 {Bacillus cereus [TaxI 91.13
d1mkma175 Transcriptional regulator IclR, N-terminal domain 90.25
d1wi9a_72 Hypothetical protein C20orf116 homolog {Mouse (Mus 90.22
d1lnwa_141 MexR repressor {Pseudomonas aeruginosa [TaxId: 287 89.88
d1p6ra_82 Penicillinase repressor BlaI {Bacillus licheniform 89.18
d1lj9a_144 Transcriptional regulator SlyA {Enterococcus faeca 88.94
d2a61a1139 Transcriptional regulator TM0710 {Thermotoga marit 88.87
d2frha1115 Pleiotropic regulator of virulence genes, SarA {St 87.27
d1sfxa_109 Hypothetical protein AF2008 {Archaeoglobus fulgidu 87.16
d2etha1140 Putative transcriptional regulator TM0816 {Thermot 86.99
d1z91a1137 Organic hydroperoxide resistance transcriptional r 85.9
d2d1ha1109 Hypothetical transcriptional regulator ST1889 {Sul 85.72
d1dpua_69 C-terminal domain of RPA32 {Human (Homo sapiens) [ 85.6
d1s3ja_143 Putative transcriptional regulator YusO {Bacillus 85.0
d1p4xa2125 Staphylococcal accessory regulator A homolog, SarS 84.78
d1okra_120 Methicillin resistance regulatory protein MecI {St 84.28
d1biaa163 Biotin repressor, N-terminal domain {Escherichia c 84.27
d1p4xa1125 Staphylococcal accessory regulator A homolog, SarS 84.03
d1i1ga160 LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} 83.9
d1jgsa_138 Multiple antibiotic resistance repressor, MarR {Es 83.87
d1ub9a_100 Hypothetical protein PH1061 {Archaeon Pyrococcus h 83.4
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 83.39
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 83.28
d1xd7a_127 Hypothetical protein ywnA {Bacillus subtilis [TaxI 82.74
d2fxaa1162 Protease production regulatory protein Hpr {Bacill 82.7
d1hsja1115 Staphylococcal accessory regulator A homolog, SarR 82.65
d2fbia1136 Probable transcriptional regulator PA4135 {Pseudom 82.05
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 81.9
d1ku9a_151 DNA-binding protein Mj223 {Archaeon Methanococcus 81.85
d2bv6a1136 Transcriptional regulator MgrA {Staphylococcus aur 81.34
d2hr3a1145 Probable transcriptional regulator PA3067 {Pseudom 81.16
d2g9wa1122 Hypothetical protein Rv1846c {Mycobacterium tuberc 80.89
d3broa1135 Transcriptional regulator OEOE1854 {Oenococcus oen 80.81
d3deua1140 Transcriptional regulator SlyA {Salmonella typhimu 80.23
>d2hyec3 e.40.1.1 (C:403-675) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: Cullin homology domain
superfamily: Cullin homology domain
family: Cullin homology domain
domain: Cullin-4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-55  Score=435.01  Aligned_cols=270  Identities=40%  Similarity=0.727  Sum_probs=255.3

Q ss_pred             CcHHHHHHHHHHHhhcCCCCCCChHHHHHhhhhHhhhhccccChhHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHH
Q 008709          202 SSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQ  281 (557)
Q Consensus       202 ~~~e~La~y~d~~l~~~~~~~~~~~~~~~~l~~i~~lf~~l~~Kd~F~~~Y~~~L~~RLL~~~~~~~~~E~~~i~~Lk~~  281 (557)
                      ++||+||+|||.++|++. ...++++++..+++++.+|+|++|||+|+.+|+++||+|||.+.+.+.+.|..+|+.|+.+
T Consensus         2 ~~~e~la~y~D~~lr~~~-k~~~~~~~~~~l~~i~~lf~~l~~Kd~F~~~Y~~~La~RLL~~~~~~~~~E~~~i~~L~~~   80 (273)
T d2hyec3           2 KPAELIAKHVDSKLRAGN-KEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE   80 (273)
T ss_dssp             HHHHHHHHHHHHHHSSCG-GGCCSTTHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHTT
T ss_pred             CcHHHHHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999864 3467788999999999999999999999999999999999999999999999999999999


Q ss_pred             hCChhhHhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCCCcceEEEEeecCCCCCCCCCCCcCCHhHHHHHHHHHHHHhhc
Q 008709          282 CGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETK  361 (557)
Q Consensus       282 ~G~~~~~kl~~Ml~D~~~S~~l~~~f~~~~~~~~~~~~~~~f~~~VLs~~~WP~~~~~~~~lP~~l~~~~~~F~~~Y~~~  361 (557)
                      ||.+++.+|++|++|++.|++++.+|++++..... ..+++|+|.||+++.||..+..++.+|+++..+++.|++||..+
T Consensus        81 ~g~~~~~kl~~Ml~D~~~S~~l~~~f~~~~~~~~~-~~~~~~~v~vLs~~~WP~~~~~~~~lP~~l~~~~~~F~~~Y~~~  159 (273)
T d2hyec3          81 CGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSD-SGPIDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGK  159 (273)
T ss_dssp             TCTTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCC-CCCCEEEEEEEETTTSCCCCCCCCCCCHHHHHHHHHHHHHHHTT
T ss_pred             hChHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-CCCCceEEEEeeCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999998876543 35789999999999999998889999999999999999999999


Q ss_pred             CCCceEEeccCCceEEEEeEecCeeEEEEEcHHHHHHHHhhcCCCCcCHHHHHHHhCCCHHHHHHHHHhhhcccceeeec
Q 008709          362 TKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLK  441 (557)
Q Consensus       362 ~~~R~L~w~~~lg~~~l~~~~~~~~~~l~~s~~Qa~iLl~Fn~~~~~t~~el~~~~~i~~~~l~~~L~~L~~~k~~iL~~  441 (557)
                      |++|+|.|.+++|+|+|+++++++++++.||++||+||++||+.+++|+++|++.||++.+.++++|.+|+..|.+||.+
T Consensus       160 ~~~RkL~w~~~ls~~~l~~~~~~~~~~l~~s~~Qa~ILl~fn~~~~~t~~~i~~~~~i~~~~l~~~L~~L~~~k~~iL~~  239 (273)
T d2hyec3         160 HSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIK  239 (273)
T ss_dssp             SCSEECCBCGGGCEEEEECCCSSCCCEEEEEHHHHHHHHHTTSCCCEEHHHHHHHTCCCHHHHHHHHHTTTTTTTCSEEE
T ss_pred             CCCCEEEEecCCccEEEEEEECCCcEEEEEcHHHHHHHHHhcCCCCCcHHHHHHHHCcCHHHHHHHHHHHHhcccceeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999888899999


Q ss_pred             CCCCCCCCCCCeEEEccCCCCCcceeeecCCC
Q 008709          442 EPNTKTISQSDHFEFNSKFTDRMRRIKIPLPP  473 (557)
Q Consensus       442 ~~~~~~~~~~~~~~~N~~f~~~~~~i~i~~~~  473 (557)
                      .+++..+.+++.|.+|.+|+++.+||+|+.++
T Consensus       240 ~~~~~~~~~~~~~~~N~~F~~k~~kiki~~~~  271 (273)
T d2hyec3         240 SPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQ  271 (273)
T ss_dssp             TTCSSSCCSSCEEEECCCCCCSCSSEECGGGG
T ss_pred             cCCCCcCCCCCEEEEeccCCCCCeEEeecccc
Confidence            98888899999999999999999999998654
>d1ldja3 e.40.1.1 (A:411-686) Cullin homolog 1, cul-1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ldja2 a.118.17.1 (A:17-410) Cullin homolog 1, Cul-1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hyec2 a.118.17.1 (C:55-401) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ldja1 a.4.5.34 (A:687-776) Anaphase promoting complex (APC) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hyec1 a.4.5.34 (C:676-759) Cullin-4A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1iuya_ a.4.5.34 (A:) Cullin-3 homologue {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1ylfa1 a.4.5.55 (A:5-142) Hypothetical protein BC1842 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1p6ra_ a.4.5.39 (A:) Penicillinase repressor BlaI {Bacillus licheniformis [TaxId: 1402]} Back     information, alignment and structure
>d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]} Back     information, alignment and structure
>d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2etha1 a.4.5.28 (A:1-140) Putative transcriptional regulator TM0816 {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1z91a1 a.4.5.28 (A:8-144) Organic hydroperoxide resistance transcriptional regulator OhrR {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]} Back     information, alignment and structure
>d1dpua_ a.4.5.16 (A:) C-terminal domain of RPA32 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1s3ja_ a.4.5.28 (A:) Putative transcriptional regulator YusO {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1p4xa2 a.4.5.28 (A:126-250) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1okra_ a.4.5.39 (A:) Methicillin resistance regulatory protein MecI {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xd7a_ a.4.5.55 (A:) Hypothetical protein ywnA {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1hsja1 a.4.5.28 (A:373-487) Staphylococcal accessory regulator A homolog, SarR {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator PA4135 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1ku9a_ a.4.5.36 (A:) DNA-binding protein Mj223 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d2bv6a1 a.4.5.28 (A:5-140) Transcriptional regulator MgrA {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d2hr3a1 a.4.5.28 (A:2-146) Probable transcriptional regulator PA3067 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2g9wa1 a.4.5.39 (A:3-124) Hypothetical protein Rv1846c {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]} Back     information, alignment and structure
>d3deua1 a.4.5.28 (A:2-141) Transcriptional regulator SlyA {Salmonella typhimurium [TaxId: 90371]} Back     information, alignment and structure