Citrus Sinensis ID: 009802

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-----
MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
cEEEEEccEEEEEEEHHHHHccccccccEEEEEEEccccccccccccEEEEEEEEccccccccccccccHHHHHHHHHHHHcccccccccEEEEEcccEEcccccEEEEEEEcccEEEEcccccEEEEcccEEEEEEEEccccccEEEEEEEccccccccccccEEEEEEEcccEEEEEccccHHHHHHHHcccccccccccHHHHHHHHHHHHHccccccccccEEccccccEEEEccccccEEEEccccEEEEEcccEEEEcccEEEEEEEEEccccccEEEEEEEEEEccccEEEEEcccHHHHHHHHHHHcccccEEEcccccccccHHHHHccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccccccccc
cEEEEEccccEEEEEHHHccccccccccEEEEEEEcccccccccccEEEEEEEEEccccccccccccccHHHHHHHHHHHHcccccccccEEEEEccEEEEcccccEEEEEcccEEEEEcccEcEEEEccHEEEEEEcccccccEEEEEEEcccccccccccccEEEEEEccccEEEEEEcccHHHHHHHHHHHHcHHcccHHHHHHHHHHHHHHcccEEcccccEccccccEEEEEEEcccccEEccccEEEEEccccEEEEcccEEEEEEEEEccccccccEEEEEEEEEcccEEEEccccHHHHHHHHHHHHHcccEEEccccHHHHHHHHHHHcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccc
mltfmvgqKQAFEVSLADVSQtqlqgkndvILEFHvddttganekDSLMEISFhipnsntqfvgdenhppaqvfrDKIMsmadvgaggeeAVVTFEGIailtprgrySVELHLSFLRLQGQANDFKIQYSSVVRLfllpksnqphtfvvvtldppirkgqtlyphIVLQFETDYVVQSELLMSEELLNTkykdklepsykGLIHEVFTTILRGlsgakitkpgkfrsaqdgyavksslkaedgvlypleksffflpkpptlilheeidyveferhaaggsnmhYFDLLIRLKTEQEHLFRNIQrneyhnlfdfisgkglkimnlgdmkttDGVAAVLqeddddavdphlerikneaggdesdeedsdfvadkddggsptddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdpnapkramsgfIFFSQMErenikksnpgiaftdVGRVLGERWKKmsveerepyeskaRADKKRYkdeisgyknpkpmdidsgnesdsa
mltfmvgqKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLsgakitkpgkfrsaqdgyAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLErikneaggdesdeedsdfvadkddggsptddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdpnapkramSGFIFFSQMErenikksnpgiaftdvgrVLGERwkkmsveerepyeskaradkkrykdeisgyknpkpmdidsgnesdsa
MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNeaggdesdeedsdFVADKDDGGSPTddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
***********FEVSLADV**TQLQGKNDVILEFHVDDT**********EISFHI*****************VFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAV***************************************************************************************************************FIFFS************GIAFTDVGRVLGERW**********************************************
MLTFM**QKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPN***************VFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELL***************PSYKGLIHEVFTTILRGLSGAKITKP********GYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGL*****************************************************************EDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGD**********************GFIFFSQMERENIKKSNPGIAFTDVGRVLGERWK********PYESKARADKKRYKDEI********************
MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKN***************************************************************************************KRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS******************KDEISGYKNPKPMDI*********
MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNT*****ENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQ****DAVDPHLERIK***********************************************************************************DPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN***************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
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 ?
Query525 2.2.26 [Sep-21-2011]
O04235642 FACT complex subunit SSRP N/A no 0.998 0.816 0.847 0.0
Q39601639 FACT complex subunit SSRP N/A no 0.994 0.816 0.817 0.0
Q05153646 FACT complex subunit SSRP yes no 0.996 0.809 0.785 0.0
Q9LGR0641 FACT complex subunit SSRP yes no 0.986 0.808 0.724 0.0
Q9LEF5639 FACT complex subunit SSRP N/A no 0.986 0.810 0.721 0.0
Q65WY8640 FACT complex subunit SSRP no no 0.986 0.809 0.706 0.0
Q04678706 FACT complex subunit SSRP yes no 0.933 0.694 0.358 1e-84
Q08943708 FACT complex subunit SSRP yes no 0.923 0.685 0.359 6e-83
Q08945709 FACT complex subunit SSRP yes no 0.921 0.682 0.346 6e-81
Q9W602693 FACT complex subunit SSRP N/A no 0.931 0.705 0.353 8e-81
>sp|O04235|SSRP1_VICFA FACT complex subunit SSRP1 OS=Vicia faba GN=SSRP1 PE=2 SV=1 Back     alignment and function desciption
 Score =  875 bits (2261), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 446/526 (84%), Positives = 484/526 (92%), Gaps = 2/526 (0%)

Query: 1   MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNT 60
           ML FMVG KQAFEVSLADVSQT LQGKNDVILEFHVDDTTGANEKDSLME+SFHIP+SNT
Sbjct: 118 MLAFMVGSKQAFEVSLADVSQTNLQGKNDVILEFHVDDTTGANEKDSLMEMSFHIPSSNT 177

Query: 61  QFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQG 120
           QFVGDEN P AQVFRDKIMSMADVG GGE+AVVTF+GIAILTPRGRYSVELHLSFLRLQG
Sbjct: 178 QFVGDENRPSAQVFRDKIMSMADVGVGGEDAVVTFDGIAILTPRGRYSVELHLSFLRLQG 237

Query: 121 QANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSEL 180
           QANDFKIQYSSVVRLFLLPKSNQPHTFV+++LDPPIRKGQTLYPHIV+QFETD VV SEL
Sbjct: 238 QANDFKIQYSSVVRLFLLPKSNQPHTFVIISLDPPIRKGQTLYPHIVMQFETDTVVDSEL 297

Query: 181 LMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKA 240
            +SE+L N+KYKDKLE SYKGLIHEVFTT+LRGLSG K+TKPG FRS QDGYAVKSSLKA
Sbjct: 298 AISEDLYNSKYKDKLELSYKGLIHEVFTTVLRGLSGGKVTKPGNFRSCQDGYAVKSSLKA 357

Query: 241 EDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFR 300
           EDG+LYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLK+EQEHLFR
Sbjct: 358 EDGILYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKSEQEHLFR 417

Query: 301 NIQRNEYHNLFDFISGKGLKIMNLGD-MKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGD 359
           NIQRNEYHNL+ FIS KGLKIMN+ D  +   GVA VL+ DDDDAVDPHLERI+NEAGGD
Sbjct: 418 NIQRNEYHNLYGFISSKGLKIMNIADAQQAVGGVAKVLENDDDDAVDPHLERIRNEAGGD 477

Query: 360 ESDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKK 419
           ESDEEDSDFV DKDDGGSPTDDSG + SDAS+SGGE EKPAKKE KK+ SS  +S+ KK 
Sbjct: 478 ESDEEDSDFVIDKDDGGSPTDDSGADVSDASQSGGETEKPAKKEPKKDLSSKASSSKKKS 537

Query: 420 SRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERW 479
               D DG KKKQKKKKDPNAPKRA+SGF+FFSQMEREN+KK+NPGI+FTDVGRVLGE+W
Sbjct: 538 KDA-DVDGVKKKQKKKKDPNAPKRALSGFMFFSQMERENLKKTNPGISFTDVGRVLGEKW 596

Query: 480 KKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA 525
           K +S EE+EPYE+KA+ADKKRYKDEISGYKNP+PM++DSGNESDSA
Sbjct: 597 KNLSAEEKEPYEAKAQADKKRYKDEISGYKNPQPMNVDSGNESDSA 642
Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II. Binds specifically to double-stranded DNA.
Vicia faba (taxid: 3906)
>sp|Q39601|SSRP1_CATRO FACT complex subunit SSRP1 OS=Catharanthus roseus GN=SSRP1 PE=2 SV=1 Back     alignment and function description
>sp|Q05153|SSRP1_ARATH FACT complex subunit SSRP1 OS=Arabidopsis thaliana GN=SSRP1 PE=1 SV=2 Back     alignment and function description
>sp|Q9LGR0|SSP1A_ORYSJ FACT complex subunit SSRP1-A OS=Oryza sativa subsp. japonica GN=SSRP1-A PE=2 SV=1 Back     alignment and function description
>sp|Q9LEF5|SSRP1_MAIZE FACT complex subunit SSRP1 OS=Zea mays GN=SSRP1 PE=1 SV=1 Back     alignment and function description
>sp|Q65WY8|SSP1B_ORYSJ FACT complex subunit SSRP1-B OS=Oryza sativa subsp. japonica GN=SSRP1-B PE=2 SV=1 Back     alignment and function description
>sp|Q04678|SSRP1_CHICK FACT complex subunit SSRP1 OS=Gallus gallus GN=SSRP1 PE=2 SV=2 Back     alignment and function description
>sp|Q08943|SSRP1_MOUSE FACT complex subunit SSRP1 OS=Mus musculus GN=Ssrp1 PE=1 SV=2 Back     alignment and function description
>sp|Q08945|SSRP1_HUMAN FACT complex subunit SSRP1 OS=Homo sapiens GN=SSRP1 PE=1 SV=1 Back     alignment and function description
>sp|Q9W602|SSRP1_XENLA FACT complex subunit SSRP1 OS=Xenopus laevis GN=ssrp1 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 ?
Query525
255552860 640 structure-specific recognition protein, 0.994 0.815 0.889 0.0
449459450 642 PREDICTED: FACT complex subunit SSRP1-li 0.998 0.816 0.895 0.0
356496334 640 PREDICTED: FACT complex subunit SSRP1-li 0.996 0.817 0.862 0.0
225452706 644 PREDICTED: FACT complex subunit SSRP1 [V 0.998 0.813 0.916 0.0
147866286 644 hypothetical protein VITISV_042446 [Viti 0.998 0.813 0.916 0.0
75218951 642 RecName: Full=FACT complex subunit SSRP1 0.998 0.816 0.847 0.0
356506416614 PREDICTED: FACT complex subunit SSRP1-li 0.946 0.809 0.838 0.0
357492685 648 FACT complex subunit SSRP1 [Medicago tru 1.0 0.810 0.845 0.0
2495256 639 RecName: Full=FACT complex subunit SSRP1 0.994 0.816 0.817 0.0
224077702 644 high mobility group family [Populus tric 0.990 0.807 0.812 0.0
>gi|255552860|ref|XP_002517473.1| structure-specific recognition protein, putative [Ricinus communis] gi|223543484|gb|EEF45015.1| structure-specific recognition protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  945 bits (2443), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 466/524 (88%), Positives = 500/524 (95%), Gaps = 2/524 (0%)

Query: 1   MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNT 60
           MLTF+VG KQAFEVSLADVSQTQ+QGKNDVILEFHVDDTTGANEKDSLMEISFHIP++NT
Sbjct: 118 MLTFLVGSKQAFEVSLADVSQTQMQGKNDVILEFHVDDTTGANEKDSLMEISFHIPSNNT 177

Query: 61  QFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQG 120
           QFVGDENHPPAQVFRDKIMSMADV  GGEEAVVTF+G+AILTPRGRYSVELHLSFLRLQG
Sbjct: 178 QFVGDENHPPAQVFRDKIMSMADVNPGGEEAVVTFDGVAILTPRGRYSVELHLSFLRLQG 237

Query: 121 QANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSEL 180
           QANDFKIQYSSVVRLFLLPKSNQPHTFV+VTLDPPIRKGQTLYPHIVLQF+TD+VVQS L
Sbjct: 238 QANDFKIQYSSVVRLFLLPKSNQPHTFVIVTLDPPIRKGQTLYPHIVLQFDTDFVVQSTL 297

Query: 181 LMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKA 240
            M+E+LL+TKYKDKLEPSYKGLIHEVFTTILRGLSGAK+TKPGKFRS QDGYAVKSSLKA
Sbjct: 298 TMNEDLLSTKYKDKLEPSYKGLIHEVFTTILRGLSGAKVTKPGKFRSCQDGYAVKSSLKA 357

Query: 241 EDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFR 300
           EDG+LYPLEKSFFFLPKPPTLILHEEIDYVEFERHA G SNMHYFDLLIRLKTEQEHLFR
Sbjct: 358 EDGLLYPLEKSFFFLPKPPTLILHEEIDYVEFERHATGSSNMHYFDLLIRLKTEQEHLFR 417

Query: 301 NIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDE 360
           NIQRNEYHNLFDFISGKGLKIMNLGDMKTT+GVAAVLQ DDDDAVDPHLERIKNEA GDE
Sbjct: 418 NIQRNEYHNLFDFISGKGLKIMNLGDMKTTNGVAAVLQNDDDDAVDPHLERIKNEA-GDE 476

Query: 361 SDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKS 420
           SDEEDSDFVADKDDGGSPTDDSGEEDSD S SG   EK  +KES KE SS KA+  KK+S
Sbjct: 477 SDEEDSDFVADKDDGGSPTDDSGEEDSDGSLSGDGTEKHVRKESTKEPSSSKAA-PKKRS 535

Query: 421 RDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWK 480
           +DG++DGKKKKQKKKKDPNAPK+AMSGF+FFSQMEREN+KKSNPGIAF DVG++LG++WK
Sbjct: 536 KDGNDDGKKKKQKKKKDPNAPKKAMSGFMFFSQMERENVKKSNPGIAFGDVGKILGDKWK 595

Query: 481 KMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDS 524
           K+S EE+EPYE+KARADKKRYK+E+SGYKNP+PMDIDSGNESDS
Sbjct: 596 KLSAEEKEPYEAKARADKKRYKEEVSGYKNPQPMDIDSGNESDS 639

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449459450|ref|XP_004147459.1| PREDICTED: FACT complex subunit SSRP1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356496334|ref|XP_003517023.1| PREDICTED: FACT complex subunit SSRP1-like [Glycine max] Back     alignment and taxonomy information
>gi|225452706|ref|XP_002282538.1| PREDICTED: FACT complex subunit SSRP1 [Vitis vinifera] gi|296082859|emb|CBI22160.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147866286|emb|CAN79926.1| hypothetical protein VITISV_042446 [Vitis vinifera] Back     alignment and taxonomy information
>gi|75218951|sp|O04235.1|SSRP1_VICFA RecName: Full=FACT complex subunit SSRP1; AltName: Full=Facilitates chromatin transcription complex subunit SSRP1; AltName: Full=Recombination signal sequence recognition protein 1 gi|2104679|emb|CAA66480.1| transcription factor [Vicia faba var. minor] Back     alignment and taxonomy information
>gi|356506416|ref|XP_003521979.1| PREDICTED: FACT complex subunit SSRP1-like [Glycine max] Back     alignment and taxonomy information
>gi|357492685|ref|XP_003616631.1| FACT complex subunit SSRP1 [Medicago truncatula] gi|355517966|gb|AES99589.1| FACT complex subunit SSRP1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|2495256|sp|Q39601.1|SSRP1_CATRO RecName: Full=FACT complex subunit SSRP1; AltName: Full=Facilitates chromatin transcription complex subunit SSRP1; AltName: Full=Recombination signal sequence recognition protein 1 gi|433872|emb|CAA82251.1| HMG protein [Catharanthus roseus] Back     alignment and taxonomy information
>gi|224077702|ref|XP_002305370.1| high mobility group family [Populus trichocarpa] gi|222848334|gb|EEE85881.1| high mobility group family [Populus trichocarpa] 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 ?
Query525
TAIR|locus:2098413646 HMG "high mobility group" [Ara 0.72 0.585 0.823 8.1e-203
ZFIN|ZDB-GENE-031118-9705 ssrp1a "structure specific rec 0.695 0.517 0.370 9.6e-76
UNIPROTKB|Q9W602693 ssrp1 "FACT complex subunit SS 0.647 0.490 0.385 3.7e-74
UNIPROTKB|B6ZLK1706 SSRP1 "Structure-specific reco 0.641 0.477 0.373 3.7e-74
UNIPROTKB|Q04678706 SSRP1 "FACT complex subunit SS 0.641 0.477 0.373 3.7e-74
ZFIN|ZDB-GENE-041008-209703 ssrp1b "structure specific rec 0.649 0.485 0.373 4.7e-74
UNIPROTKB|F6QYV9709 SSRP1 "Uncharacterized protein 0.647 0.479 0.368 7.6e-74
UNIPROTKB|I3LLA8709 SSRP1 "Uncharacterized protein 0.647 0.479 0.368 7.6e-74
UNIPROTKB|F1Q2J2710 SSRP1 "Uncharacterized protein 0.647 0.478 0.368 9.7e-74
UNIPROTKB|Q08945709 SSRP1 "FACT complex subunit SS 0.647 0.479 0.368 1.2e-73
TAIR|locus:2098413 HMG "high mobility group" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1618 (574.6 bits), Expect = 8.1e-203, Sum P(2) = 8.1e-203
 Identities = 312/379 (82%), Positives = 338/379 (89%)

Query:     2 LTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQ 61
             LTF+VG KQAFEVSLADVSQTQLQGKNDV LEFHVDDT GANEKDSLMEISFHIPNSNTQ
Sbjct:   119 LTFLVGSKQAFEVSLADVSQTQLQGKNDVTLEFHVDDTAGANEKDSLMEISFHIPNSNTQ 178

Query:    62 FVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQ 121
             FVGDEN PP+QVF D I++MADV  G E+AVVTFE IAILTPRGRY+VELHLSFLRLQGQ
Sbjct:   179 FVGDENRPPSQVFNDTIVAMADVSPGVEDAVVTFESIAILTPRGRYNVELHLSFLRLQGQ 238

Query:   122 ANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELL 181
             ANDFKIQYSSVVRLFLLPKSNQPHTFVV++LDPPIRKGQT+YPHIV+QFETD VV+SEL 
Sbjct:   239 ANDFKIQYSSVVRLFLLPKSNQPHTFVVISLDPPIRKGQTMYPHIVMQFETDTVVESELS 298

Query:   182 MSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAE 241
             +S+EL+NTK+KDKLE SYKGLIHEVFTT+LR LSGAKITKPGKFRS+QDG+AVKSSLKAE
Sbjct:   299 ISDELMNTKFKDKLERSYKGLIHEVFTTVLRWLSGAKITKPGKFRSSQDGFAVKSSLKAE 358

Query:   242 DGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRN 301
             DGVLYPLEK FFFLPKPPTLILH+EIDYVEFERHAAGG+NMHYFDLLIRLKT+ EHLFRN
Sbjct:   359 DGVLYPLEKGFFFLPKPPTLILHDEIDYVEFERHAAGGANMHYFDLLIRLKTDHEHLFRN 418

Query:   302 IQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQE-DDDDAVDPHLERIKNXXXXXX 360
             IQRNEYHNL+ FIS KGLKIMNLG   T DGVAAVL + DDDDAVDPHL RI+N      
Sbjct:   419 IQRNEYHNLYTFISSKGLKIMNLGGAGTADGVAAVLGDNDDDDAVDPHLTRIRNQAADES 478

Query:   361 XXXXXXXFVADKDDGGSPT 379
                     + + DDGGSPT
Sbjct:   479 DEEDEDFVMGEDDDGGSPT 497
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
GO:0005719 "nuclear euchromatin" evidence=IDA
GO:0035101 "FACT complex" evidence=IDA
GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006306 "DNA methylation" evidence=RCA
GO:0006342 "chromatin silencing" evidence=RCA
GO:0006346 "methylation-dependent chromatin silencing" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
GO:0007267 "cell-cell signaling" evidence=RCA
GO:0009616 "virus induced gene silencing" evidence=RCA
GO:0009855 "determination of bilateral symmetry" evidence=RCA
GO:0009887 "organ morphogenesis" evidence=RCA
GO:0010014 "meristem initiation" evidence=RCA
GO:0010050 "vegetative phase change" evidence=RCA
GO:0010051 "xylem and phloem pattern formation" evidence=RCA
GO:0010073 "meristem maintenance" evidence=RCA
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA
GO:0016246 "RNA interference" evidence=RCA
GO:0016569 "covalent chromatin modification" evidence=RCA
GO:0031047 "gene silencing by RNA" evidence=RCA
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA
GO:0048439 "flower morphogenesis" evidence=RCA
GO:0048519 "negative regulation of biological process" evidence=RCA
ZFIN|ZDB-GENE-031118-9 ssrp1a "structure specific recognition protein 1a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q9W602 ssrp1 "FACT complex subunit SSRP1" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
UNIPROTKB|B6ZLK1 SSRP1 "Structure-specific recognition protein 1" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q04678 SSRP1 "FACT complex subunit SSRP1" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-041008-209 ssrp1b "structure specific recognition protein 1b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F6QYV9 SSRP1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|I3LLA8 SSRP1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|F1Q2J2 SSRP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q08945 SSRP1 "FACT complex subunit SSRP1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q05153SSRP1_ARATHNo assigned EC number0.78550.99610.8095yesno
Q65WY8SSP1B_ORYSJNo assigned EC number0.70640.98660.8093nono
Q9LEF5SSRP1_MAIZENo assigned EC number0.72100.98660.8106N/Ano
Q39601SSRP1_CATRONo assigned EC number0.81710.99420.8169N/Ano
O04235SSRP1_VICFANo assigned EC number0.84790.99800.8161N/Ano
Q9LGR0SSP1A_ORYSJNo assigned EC number0.72400.98660.8081yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00020888001
SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (644 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00022540001
SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (1045 aa)
   •••• 0.814
GSVIVG00022541001
SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (979 aa)
   •••• 0.769
GSVIVG00002607001
SubName- Full=Chromosome undetermined scaffold_133, whole genome shotgun sequence; (114 aa)
   •••• 0.664
GSVIVG00035935001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (721 aa)
   •• • 0.645
GSVIVG00006228001
SubName- Full=Chromosome chr1 scaffold_166, whole genome shotgun sequence; (739 aa)
   ••   0.639
GSVIVG00006013001
RecName- Full=DNA polymerase; EC=2.7.7.7; (1126 aa)
   •  • 0.621
GSVIVG00005616001
SubName- Full=Chromosome undetermined scaffold_155, whole genome shotgun sequence; (732 aa)
   ••   0.616
GSVIVG00002569001
SubName- Full=Chromosome chr2 scaffold_132, whole genome shotgun sequence; (779 aa)
   • •• 0.609
GSVIVG00022150001
RecName- Full=DNA ligase; EC=6.5.1.1; (783 aa)
   •    0.596
GSVIVG00003433001
SubName- Full=Chromosome undetermined scaffold_143, whole genome shotgun sequence; (783 aa)
   ••   0.591

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 ?
Query525
pfam03531213 pfam03531, SSrecog, Structure-specific recognition 2e-89
COG5165508 COG5165, POB3, Nucleosome-binding factor SPN, POB3 3e-81
cd13230137 cd13230, PH1_SSRP1-like, Structure Specific Recogn 1e-67
cd13231100 cd13231, PH2_SSRP1-like, Structure Specific Recogn 1e-45
pfam0851293 pfam08512, Rtt106, Histone chaperone Rttp106-like 2e-24
cd0139066 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class 2e-22
smart0039870 smart00398, HMG, high mobility group 2e-21
cd0008466 cd00084, HMG-box, High Mobility Group (HMG)-box is 4e-21
COG5648211 COG5648, NHP6B, Chromatin-associated proteins cont 7e-21
PTZ0019994 PTZ00199, PTZ00199, high mobility group protein; P 2e-20
pfam0050569 pfam00505, HMG_box, HMG (high mobility group) box 5e-20
pfam0901169 pfam09011, DUF1898, Domain of unknown function (DU 1e-14
cd0138872 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I 2e-09
cd0138977 cd01389, MATA_HMG-box, MATA_HMG-box, class I membe 1e-07
COG5163591 COG5163, NOP7, Protein required for biogenesis of 2e-04
pfam09073424 pfam09073, BUD22, BUD22 0.001
pfam04147 809 pfam04147, Nop14, Nop14-like family 0.001
PTZ00121 2084 PTZ00121, PTZ00121, MAEBL; Provisional 0.003
pfam08208193 pfam08208, RNA_polI_A34, DNA-directed RNA polymera 0.004
PTZ00482 844 PTZ00482, PTZ00482, membrane-attack complex/perfor 0.004
>gnl|CDD|202677 pfam03531, SSrecog, Structure-specific recognition protein (SSRP1) Back     alignment and domain information 
 Score =  273 bits (699), Expect = 2e-89
 Identities = 96/178 (53%), Positives = 128/178 (71%), Gaps = 9/178 (5%)

Query: 1   MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNT 60
            LTF VG K AFEV L++VSQT LQGKN+V LEFH +D +G     SLME+ FH+P +NT
Sbjct: 45  NLTFDVGSKPAFEVPLSNVSQT-LQGKNEVTLEFHQNDDSGV----SLMEMRFHVPVTNT 99

Query: 61  QFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQG 120
           +  GD      +VF++ +++ ADV    E+A+VTFE I ILTPRGRY ++L+ +FLRL G
Sbjct: 100 EDDGD----AVEVFKETVLAKADVIQATEDAIVTFEEILILTPRGRYDIKLYPTFLRLHG 155

Query: 121 QANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQS 178
           +  D+KI YSS+ RLFLLP  +Q   F V++LDPPIR+GQT YP++VLQFE D  ++ 
Sbjct: 156 KTYDYKIPYSSINRLFLLPHKDQRQVFFVISLDPPIRQGQTRYPYLVLQFEKDEEMEL 213

SSRP1 has been implicated in transcriptional initiation and elongation and in DNA replication and repair. This domain belongs to the Pleckstrin homology fold superfamily. Length = 213
>gnl|CDD|227494 COG5165, POB3, Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|241384 cd13230, PH1_SSRP1-like, Structure Specific Recognition protein 1 (SSRP1) Pleckstrin homology (PH) domain, repeat 1 Back     alignment and domain information
>gnl|CDD|241385 cd13231, PH2_SSRP1-like, Structure Specific Recognition protein 1 (SSRP1) Pleckstrin homology (PH) domain, repeat 2 Back     alignment and domain information
>gnl|CDD|219876 pfam08512, Rtt106, Histone chaperone Rttp106-like Back     alignment and domain information
>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>gnl|CDD|197700 smart00398, HMG, high mobility group Back     alignment and domain information
>gnl|CDD|238037 cd00084, HMG-box, High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors Back     alignment and domain information
>gnl|CDD|227935 COG5648, NHP6B, Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics] Back     alignment and domain information
>gnl|CDD|185511 PTZ00199, PTZ00199, high mobility group protein; Provisional Back     alignment and domain information
>gnl|CDD|189580 pfam00505, HMG_box, HMG (high mobility group) box Back     alignment and domain information
>gnl|CDD|204115 pfam09011, DUF1898, Domain of unknown function (DUF1898) Back     alignment and domain information
>gnl|CDD|238684 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>gnl|CDD|238685 cd01389, MATA_HMG-box, MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|220102 pfam09073, BUD22, BUD22 Back     alignment and domain information
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family Back     alignment and domain information
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional Back     alignment and domain information
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34 Back     alignment and domain information
>gnl|CDD|240433 PTZ00482, PTZ00482, membrane-attack complex/perforin (MACPF) Superfamily; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 525
KOG0526615 consensus Nucleosome-binding factor SPN, POB3 subu 100.0
COG5165508 POB3 Nucleosome-binding factor SPN, POB3 subunit [ 100.0
PF03531222 SSrecog: Structure-specific recognition protein (S 100.0
KOG1189960 consensus Global transcriptional regulator, cell d 100.0
COG54061001 Nucleosome binding factor SPN, SPT16 subunit [Tran 100.0
PF0851295 Rtt106: Histone chaperone Rttp106-like; InterPro: 99.95
PTZ0019994 high mobility group protein; Provisional 99.82
cd0138977 MATA_HMG-box MATA_HMG-box, class I member of the H 99.69
cd0138872 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of 99.66
COG5648211 NHP6B Chromatin-associated proteins containing the 99.63
cd0139066 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II 99.62
PF0050569 HMG_box: HMG (high mobility group) box; InterPro: 99.62
PF0901173 HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi 99.6
smart0039870 HMG high mobility group. 99.6
KOG038196 consensus HMG box-containing protein [General func 99.54
cd0008466 HMG-box High Mobility Group (HMG)-box is found in 99.49
KOG0527 331 consensus HMG-box transcription factor [Transcript 99.43
KOG3248 421 consensus Transcription factor TCF-4 [Transcriptio 98.87
KOG0528 511 consensus HMG-box transcription factor SOX5 [Trans 98.71
KOG4715 410 consensus SWI/SNF-related matrix-associated actin- 98.66
KOG2746 683 consensus HMG-box transcription factor Capicua and 98.21
PF1488785 HMG_box_5: HMG (high mobility group) box 5; PDB: 1 97.91
KOG1189960 consensus Global transcriptional regulator, cell d 96.95
PF04690170 YABBY: YABBY protein; InterPro: IPR006780 YABBY pr 96.58
COG54061001 Nucleosome binding factor SPN, SPT16 subunit [Tran 96.37
PF1447096 bPH_3: Bacterial PH domain 96.03
PF06382183 DUF1074: Protein of unknown function (DUF1074); In 95.7
COG5648211 NHP6B Chromatin-associated proteins containing the 95.45
KOG0526615 consensus Nucleosome-binding factor SPN, POB3 subu 92.87
PF05764240 YL1: YL1 nuclear protein; InterPro: IPR008895 The 91.83
PF0807355 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 90.67
KOG18321516 consensus HIV-1 Vpr-binding protein [Cell cycle co 84.52
KOG3064303 consensus RNA-binding nuclear protein (MAK16) cont 84.22
PF04769201 MAT_Alpha1: Mating-type protein MAT alpha 1; Inter 84.02
PF04147 840 Nop14: Nop14-like family ; InterPro: IPR007276 Emg 83.13
PF04931784 DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070 82.65
COG5165 508 POB3 Nucleosome-binding factor SPN, POB3 subunit [ 82.53
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics] Back     alignment and domain information 
Probab=100.00  E-value=2.2e-133  Score=1035.75  Aligned_cols=489  Identities=47%  Similarity=0.770  Sum_probs=418.7

Q ss_pred             CceEEeCCeeEEEEechhhhccccCccceEEEEEecCCCCCCCCCCceEEEEEEecCCCCccCCCCCCChHHHHHHHHHh
Q 009802            1 MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMS   80 (525)
Q Consensus         1 ~l~f~~~~k~~feip~~~i~~~~~~~knev~~ef~~~~~~~~~~~~~l~e~rf~~p~~~~~~~~~~~~~~~~~~~~~i~~   80 (525)
                      +|+|.|++||||||||++|+|| ++|||||+||||++|++    +.+|||||||||.+..  .| ++.+++++|+++|++
T Consensus       118 ~l~F~~~skpiFEIP~s~Vsn~-l~gKNEv~LEFh~nDda----~~~LmEmRF~iP~d~~--~g-ed~~~~e~F~~~v~~  189 (615)
T KOG0526|consen  118 ELVFDVNSKPIFEIPLSDVSNT-LTGKNEVTLEFHQNDDA----PVGLMEMRFHIPEDQE--DG-EDRDKVEAFYENVLA  189 (615)
T ss_pred             EEEEeeCCceeEEeehhhhhhh-hcCCceEEEEEeccCCC----CcceEEEEEecCcccc--cc-ccccHHHHHHHHHHH
Confidence            4899999999999999999999 78999999999999983    5669999999996542  33 457999999999999


Q ss_pred             hcccCcCCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCcccCCC
Q 009802           81 MADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQ  160 (525)
Q Consensus        81 ~a~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gq  160 (525)
                      +|||++++||+||+|.+|+|+||||||+|+||.++||||||||||||+|++|.|+|+||+++++|++|||+|+|||||||
T Consensus       190 kAdv~~~~gdaI~~f~~i~~lTPRGRYdI~iy~t~lrL~GkTyDyKI~y~SI~rLflLPk~d~rh~~fVisldPPIRQGQ  269 (615)
T KOG0526|consen  190 KADVSSAVGDAIVSFEEILCLTPRGRYDIKIYPTFLRLHGKTYDYKIPYKSINRLFLLPKKDQRHVYFVISLDPPIRQGQ  269 (615)
T ss_pred             hcCcccccCCceEEeeeeeeecCCccceeEEehhhhhhcccccceecchhheeeeEeccCCCCceEEEEEecCCccccCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccceEEEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecC
Q 009802          161 TLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKA  240 (525)
Q Consensus       161 t~y~~lv~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka  240 (525)
                      |||||||+||.++++++++|++++|+++.+|+++|++.|+|++|+||++||++|||+||++||+|.|+.|++||+|++||
T Consensus       270 TrY~~LV~qF~kDee~e~eLslsdE~l~~k~~~kL~k~ysg~i~Ev~s~V~k~L~~rKit~Pg~F~s~~g~~av~CS~KA  349 (615)
T KOG0526|consen  270 TRYPFLVLQFGKDEEVELELSLSDEELEEKYKGKLKKEYSGPIYEVFSIVMKALCGRKITVPGEFLSHSGTAAVKCSFKA  349 (615)
T ss_pred             cccceEEEEeccccceeEeecccHHHHhhhhcchhhhhcCccHHHHHHHHHHHHhCceeeccccccccCCCceeeeeecc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cceEEEecCcceeeccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHHHHHhcCCce
Q 009802          241 EDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLK  320 (525)
Q Consensus       241 ~~G~Lypl~~~llfl~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~~k~i~  320 (525)
                      ++|+||||++|||||||||+||+|+||.+|+|+|++.+++++|||||+|++|+|++|+|++|.++||..|.+||++|+|+
T Consensus       350 neG~LYPLekgFlFl~KP~l~I~f~EIS~V~fsR~~~s~t~trtFD~ei~lk~g~~~tFs~i~keE~~~L~~fl~sK~lk  429 (615)
T KOG0526|consen  350 NEGLLYPLEKGFLFLPKPPLYIRFEEISSVNFSRSGLSGTSTRTFDFEITLKSGTSYTFSNISKEEYGKLFDFLNSKGLK  429 (615)
T ss_pred             cCceEeecccceEeecCCceEeeccceeeEEEEeccCCccceeeEEEEEEEcCCCeeeecccCHHHHHHHHHHHhhcCce
Confidence            99999999999999999999999999999999999877777899999999999999999999999999999999999999


Q ss_pred             EeecCCCccccchhhcc-cCCCCCCCChhhHhhhccCCCCCCCcccccccc--CCCCCCCCCCCCCCCCCCccCCCCCCC
Q 009802          321 IMNLGDMKTTDGVAAVL-QEDDDDAVDPHLERIKNEAGGDESDEEDSDFVA--DKDDGGSPTDDSGEEDSDASESGGEKE  397 (525)
Q Consensus       321 ~~~~~~~~~~~~~~~~~-~~~~dd~~d~~~~~~~~~~~dddd~eeDedf~~--~~~d~~ee~dsd~~~~~~~~e~~~e~e  397 (525)
                      |+|.+.....-...+.+ ..+.+++++      .+++..|+++++|+||++  +++|+++++||++.++++++.+++   
T Consensus       430 i~N~~~~~~~D~~~~~~~~e~~~~edd------~~d~~~de~~e~Dedf~~~~~~d~vaee~dS~~~ds~~~eg~S~---  500 (615)
T KOG0526|consen  430 IRNEGREDEIDEYLATLKAEDRDEEDD------SDDSSTDEDEEEDEDFKPGEEDDDVAEEFDSDEADSSDEEGDSD---  500 (615)
T ss_pred             eecCCcccccchHHhhhccccchhhhc------ccccccccchhhhhhcccCccccccccccCCcccccccccCCcc---
Confidence            99997643211222222 222222211      223345567788999997  455688899994333333221111   


Q ss_pred             CchhhhccccccccccccccCCCCCCCcccccccccccCCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHh
Q 009802          398 KPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGE  477 (525)
Q Consensus       398 ~~~~k~~k~~~~~~k~~k~kkk~k~~~~~~kkkkkkkkkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge  477 (525)
                      +++++..+    .++|+.++ +.   ++++++++.+|++||++||||+||||+|++..|..+|.+  |+++++|+|.+|+
T Consensus       501 ~~~k~~~~----~kk~K~ek-~~---k~~~~~k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~  570 (615)
T KOG0526|consen  501 EPKKERSS----EKKPKREK-KE---KEKEKKKKGKKKKDPNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGE  570 (615)
T ss_pred             cccccccc----cccchhhh-Hh---hhhccccCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhH
Confidence            11111111    11121111 11   123344677889999999999999999999999999988  9999999999999


Q ss_pred             hhccCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCCCCCC
Q 009802          478 RWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSG  519 (525)
Q Consensus       478 ~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~~~~~  519 (525)
                      +||.||.  |.+|+++|+.+|.||+.+|.+|+... ....++
T Consensus       571 ~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~g~-~~~~~~  609 (615)
T KOG0526|consen  571 KWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKNGQ-MNSKSG  609 (615)
T ss_pred             HHhhhcc--cchhhHHHHHHHHHHHHHHHhhcCCC-cccccC
Confidence            9999998  99999999999999999999999554 444443

>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics] Back     alignment and domain information
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin Back     alignment and domain information
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism] Back     alignment and domain information
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics] Back     alignment and domain information
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families Back     alignment and domain information
>PTZ00199 high mobility group protein; Provisional Back     alignment and domain information
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics] Back     alignment and domain information
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins Back     alignment and domain information
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin Back     alignment and domain information
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins Back     alignment and domain information
>smart00398 HMG high mobility group Back     alignment and domain information
>KOG0381 consensus HMG box-containing protein [General function prediction only] Back     alignment and domain information
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors Back     alignment and domain information
>KOG0527 consensus HMG-box transcription factor [Transcription] Back     alignment and domain information
>KOG3248 consensus Transcription factor TCF-4 [Transcription] Back     alignment and domain information
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription] Back     alignment and domain information
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics] Back     alignment and domain information
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription] Back     alignment and domain information
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A Back     alignment and domain information
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism] Back     alignment and domain information
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ] Back     alignment and domain information
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics] Back     alignment and domain information
>PF14470 bPH_3: Bacterial PH domain Back     alignment and domain information
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta Back     alignment and domain information
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics] Back     alignment and domain information
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 [] Back     alignment and domain information
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [] Back     alignment and domain information
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification] Back     alignment and domain information
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT) Back     alignment and domain information
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [] Back     alignment and domain information
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar Back     alignment and domain information
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics] 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 ?
Query525
2gcj_A261 Crystal Structure Of The Pob3 Middle Domain Length 1e-45
2gcl_A261 Structure Of The Pob3 Middle Domain Length = 261 1e-44
1cg7_A93 Hmg Protein Nhp6a From Saccharomyces Cerevisiae Len 4e-17
1j5n_A93 Solution Structure Of The Non-Sequence-Specific Hmg 4e-17
2yqi_A81 Solution Structure Of The Second Hmg-Box Domain Fro 2e-11
1j3d_A78 Solution Structure Of The C-Terminal Domain Of The 3e-11
1j3c_A79 Solution Structure Of The C-Terminal Domain Of The 7e-11
2ly4_A83 Hmgb1-Facilitated P53 Dna Binding Occurs Via Hmg-Bo 2e-09
2lhj_A97 Nmr Structure Of The High Mobility Group Protein-Li 3e-09
1aab_A83 Nmr Structure Of Rat Hmg1 Hmga Fragment Length = 83 4e-09
1wxl_A73 Solution Structure Of The Hmg-Box Domain In The Ssr 5e-09
1hme_A77 Structure Of The Hmg Box Motif In The B-Domain Of H 6e-09
2yrq_A173 Solution Structure Of The Tandem Hmg Box Domain Fro 6e-09
1j3x_A77 Solution Structure Of The N-Terminal Domain Of The 1e-08
1nhm_A81 The Structure Of The Hmg Box And Its Interaction Wi 3e-08
2gzk_A159 Structure Of A Complex Of Tandem Hmg Boxes And Dna 5e-08
1ckt_A71 Crystal Structure Of Hmg1 Domain A Bound To A Cispl 6e-08
1hsm_A79 The Structure Of The Hmg Box And Its Interaction Wi 1e-07
2eqz_A86 Solution Structure Of The First Hmg-Box Domain From 6e-07
2crj_A92 Solution Structure Of The Hmg Domain Of Mouse Hmg D 4e-06
2e6o_A87 Solution Structure Of The Hmg Box Domain From Human 7e-06
1e7j_A74 Hmg-D Complexed To A Bulge Dna Length = 74 8e-06
1hma_A73 The Solution Structure And Dynamics Of The Dna Bind 8e-06
1qrv_A73 Crystal Structure Of The Complex Of Hmg-D And Dna L 8e-06
3nm9_A73 Hmgd(M13a)-Dna Complex Length = 73 1e-05
1i11_A81 Solution Structure Of The Dna Binding Domain, Sox-5 6e-05
3tq6_A 214 Crystal Structure Of Human Mitochondrial Transcript 3e-04
3tmm_A 238 Tfam Imposes A U-Turn On Mitochondrial Dna Length = 3e-04
>pdb|2GCJ|A Chain A, Crystal Structure Of The Pob3 Middle Domain Length = 261 Back     alignment and structure 
Iteration: 1

 Score =  181 bits (458), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 88/254 (34%), Positives = 150/254 (59%), Gaps = 1/254 (0%)
Query: 71  AQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYS 130
           A+ F +++   AD+G    +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+ 
Sbjct: 4   AEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHR 63
Query: 131 SVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTK 190
            + R+  LPK++  H  +V+ ++PP+RKGQT YP +VLQF+ D   + +L + +E     
Sbjct: 64  QIQRIVSLPKADDIHHLLVLAIEPPLRKGQTTYPFLVLQFQKDEETEVQLNLEDEDYEEN 123
Query: 191 YKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEK 250
           YKDKL+  Y    H V + +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+ 
Sbjct: 124 YKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDN 183
Query: 251 SFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQ-EHLFRNIQRNEYHN 309
           +FFFL KP   I   ++  V   R     ++   FDL + L++ +    F NI + E   
Sbjct: 184 AFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQL 243
Query: 310 LFDFISGKGLKIMN 323
           L  F+  K L++ N
Sbjct: 244 LEQFLKSKNLRVKN 257
>pdb|2GCL|A Chain A, Structure Of The Pob3 Middle Domain Length = 261 Back     alignment and structure
>pdb|1CG7|A Chain A, Hmg Protein Nhp6a From Saccharomyces Cerevisiae Length = 93 Back     alignment and structure
>pdb|1J5N|A Chain A, Solution Structure Of The Non-Sequence-Specific Hmgb Protein Nhp6a In Complex With Sry Dna Length = 93 Back     alignment and structure
>pdb|2YQI|A Chain A, Solution Structure Of The Second Hmg-Box Domain From High Mobility Group Protein B3 Length = 81 Back     alignment and structure
>pdb|1J3D|A Chain A, Solution Structure Of The C-Terminal Domain Of The Hmgb2 Length = 78 Back     alignment and structure
>pdb|1J3C|A Chain A, Solution Structure Of The C-Terminal Domain Of The Hmgb2 Length = 79 Back     alignment and structure
>pdb|2LY4|A Chain A, Hmgb1-Facilitated P53 Dna Binding Occurs Via Hmg-BoxP53 Transactivation Domain Interaction And Is Regulated By The Acidic Tail Length = 83 Back     alignment and structure
>pdb|2LHJ|A Chain A, Nmr Structure Of The High Mobility Group Protein-Like Protein Nhp1 From Babesia Bovis T2bo (Baboa.00841.A) Length = 97 Back     alignment and structure
>pdb|1AAB|A Chain A, Nmr Structure Of Rat Hmg1 Hmga Fragment Length = 83 Back     alignment and structure
>pdb|1WXL|A Chain A, Solution Structure Of The Hmg-Box Domain In The Ssrp1 Subunit Of Fact Length = 73 Back     alignment and structure
>pdb|1HME|A Chain A, Structure Of The Hmg Box Motif In The B-Domain Of Hmg1 Length = 77 Back     alignment and structure
>pdb|2YRQ|A Chain A, Solution Structure Of The Tandem Hmg Box Domain From Human High Mobility Group Protein B1 Length = 173 Back     alignment and structure
>pdb|1J3X|A Chain A, Solution Structure Of The N-Terminal Domain Of The Hmgb2 Length = 77 Back     alignment and structure
>pdb|1NHM|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna Length = 81 Back     alignment and structure
>pdb|2GZK|A Chain A, Structure Of A Complex Of Tandem Hmg Boxes And Dna Length = 159 Back     alignment and structure
>pdb|1CKT|A Chain A, Crystal Structure Of Hmg1 Domain A Bound To A Cisplatin-modified Dna Duplex Length = 71 Back     alignment and structure
>pdb|1HSM|A Chain A, The Structure Of The Hmg Box And Its Interaction With Dna Length = 79 Back     alignment and structure
>pdb|2EQZ|A Chain A, Solution Structure Of The First Hmg-Box Domain From High Mobility Group Protein B3 Length = 86 Back     alignment and structure
>pdb|2CRJ|A Chain A, Solution Structure Of The Hmg Domain Of Mouse Hmg Domain Protein Hmgx2 Length = 92 Back     alignment and structure
>pdb|2E6O|A Chain A, Solution Structure Of The Hmg Box Domain From Human Hmg-Box Transcription Factor 1 Length = 87 Back     alignment and structure
>pdb|1E7J|A Chain A, Hmg-D Complexed To A Bulge Dna Length = 74 Back     alignment and structure
>pdb|1HMA|A Chain A, The Solution Structure And Dynamics Of The Dna Binding Domain Of Hmg-D From Drosophila Melanogaster Length = 73 Back     alignment and structure
>pdb|1QRV|A Chain A, Crystal Structure Of The Complex Of Hmg-D And Dna Length = 73 Back     alignment and structure
>pdb|3NM9|A Chain A, Hmgd(M13a)-Dna Complex Length = 73 Back     alignment and structure
>pdb|1I11|A Chain A, Solution Structure Of The Dna Binding Domain, Sox-5 Hmg Box From Mouse Length = 81 Back     alignment and structure
>pdb|3TQ6|A Chain A, Crystal Structure Of Human Mitochondrial Transcription Factor A, Tfam Or Mttfa, Bound To The Light Strand Promoter Lsp Length = 214 Back     alignment and structure
>pdb|3TMM|A Chain A, Tfam Imposes A U-Turn On Mitochondrial Dna Length = 238 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 ?
Query525
2gcl_A261 Hypothetical 63.0 kDa protein in DAK1-ORC1 interge 1e-94
3fss_A237 Histone chaperone RTT106; chromosomal protein, nuc 4e-58
1cg7_A93 Protein (NON histone protein 6 A); HMG BOX, DNA be 6e-34
2co9_A102 Thymus high mobility group box protein TOX; TOX pr 7e-34
2lhj_A97 High mobility group protein homolog NHP1; structur 1e-32
2eqz_A86 High mobility group protein B3; HMG-box domain, mo 1e-31
1aab_A83 High mobility group protein; HMG-BOX, DNA-binding; 3e-30
2crj_A92 SWI/SNF-related matrix-associated actin- dependent 5e-30
1hme_A77 High mobility group protein fragment-B; DNA-bindin 7e-30
1k99_A99 Upstream binding factor 1; alpha-helix, L-shape, D 9e-30
1wgf_A90 Upstream binding factor 1; transcription factor, D 3e-29
1wxl_A73 Single-strand recognition protein; FACT, SSRP1, HM 4e-26
2cs1_A92 PMS1 protein homolog 1; DNA mismatch repair protei 6e-26
2yrq_A173 High mobility group protein B1; HMG box domain, DN 2e-25
2yrq_A173 High mobility group protein B1; HMG box domain, DN 5e-21
3nm9_A73 HMG-D, high mobility group protein D; DNA bending, 7e-25
3tmm_A 238 Transcription factor A, mitochondrial; HMG, high m 2e-23
3tmm_A238 Transcription factor A, mitochondrial; HMG, high m 3e-16
1ckt_A71 High mobility group 1 protein; high-mobility group 3e-23
3tq6_A 214 Transcription factor A, mitochondrial; transcripti 3e-23
3tq6_A214 Transcription factor A, mitochondrial; transcripti 3e-16
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 1e-22
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 1e-20
3fgh_A67 Transcription factor A, mitochondrial; HMG domain, 6e-22
2e6o_A87 HMG box-containing protein 1; HMG-box domain, HMG- 9e-17
1v64_A108 Nucleolar transcription factor 1; DNA binding, str 2e-16
1v63_A101 Nucleolar transcription factor 1; DNA binding, str 5e-15
4euw_A106 Transcription factor SOX-9; protein-DNA complex, H 2e-14
1wz6_A82 HMG-box transcription factor BBX; bobby SOX homolo 3e-14
4a3n_A71 Transcription factor SOX-17; 2.40A {Homo sapiens} 7e-14
3u2b_C79 Transcription factor SOX-4; HMG domain, transcript 8e-13
1hry_A76 Human SRY; DNA, DNA-binding protein, DNA binding p 1e-12
2lef_A86 LEF-1 HMG, protein (lymphoid enhancer-binding fact 1e-12
1j46_A85 SRY, sex-determining region Y protein; MALE sex de 1e-12
2d7l_A81 WD repeat and HMG-box DNA binding protein 1; high 2e-12
1gt0_D80 Transcription factor SOX-2; POU factors, SOX prote 4e-12
1i11_A81 Transcription factor SOX-5; HMG BOX, DNA bending, 4e-12
3f27_D83 Transcription factor SOX-17; protein-DNA complex, 5e-12
3f5r_A191 FACT complex subunit POB3; APC7736, FACT complex ( 7e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-04
>2gcl_A Hypothetical 63.0 kDa protein in DAK1-ORC1 intergenic region; chromaint, double PH domain, yfact, DNA replication, RPA; 2.21A {Saccharomyces cerevisiae} SCOP: b.55.1.10 PDB: 2gcj_A Length = 261 Back     alignment and structure
 Score =  287 bits (736), Expect = 1e-94
 Identities = 87/258 (33%), Positives = 149/258 (57%), Gaps = 1/258 (0%)

Query: 70  PAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQY 129
            A+ F +++   AD+G    +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+
Sbjct: 3   MAEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQH 62

Query: 130 SSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNT 189
             + R+  LPK++  H  +V+ ++PP+R+GQT YP +VLQF+ D   + +L + +E    
Sbjct: 63  RQIQRIVSLPKADDIHHMMVMAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEE 122

Query: 190 KYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLE 249
            YKDKL+  Y    H V + +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+
Sbjct: 123 NYKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLD 182

Query: 250 KSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT-EQEHLFRNIQRNEYH 308
            +FFFL KP   I   ++  V   R     ++   FDL + L++      F NI + E  
Sbjct: 183 NAFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQ 242

Query: 309 NLFDFISGKGLKIMNLGD 326
            L  F+  K L++ N   
Sbjct: 243 LLEQFLKSKNLRVKNEDR 260
>3fss_A Histone chaperone RTT106; chromosomal protein, nucleus, phosphoprotein, transcription, transcription regulation, transposition; 1.43A {Saccharomyces cerevisiae} PDB: 3tw1_A* 3tvv_A* 3gyp_A 3gyo_A 3to1_A Length = 237 Back     alignment and structure
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A 1lwm_A Length = 93 Back     alignment and structure
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box domain, structural genomics, NPPSFA; NMR {Mus musculus} Length = 102 Back     alignment and structure
>2lhj_A High mobility group protein homolog NHP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Babesia bovis} Length = 97 Back     alignment and structure
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group protein 2A, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 86 Back     alignment and structure
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 Length = 83 Back     alignment and structure
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; structural DNA-binding protein BRAF35, DNA-bending; NMR {Mus musculus} Length = 92 Back     alignment and structure
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A 1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A Length = 77 Back     alignment and structure
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 Length = 99 Back     alignment and structure
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1 Length = 90 Back     alignment and structure
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding protein; NMR {Drosophila melanogaster} Length = 73 Back     alignment and structure
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 92 Back     alignment and structure
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 173 Back     alignment and structure
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 173 Back     alignment and structure
>3nm9_A HMG-D, high mobility group protein D; DNA bending, non-sequence-specific, HMG chromosomal protein; HET: DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A* 1hma_A 1qrv_A* Length = 73 Back     alignment and structure
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} Length = 238 Back     alignment and structure
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} Length = 238 Back     alignment and structure
>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT DNA, protein-drug-DNA compl regulation-DNA complex; HET: DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1j3x_A Length = 71 Back     alignment and structure
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens} Length = 214 Back     alignment and structure
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens} Length = 214 Back     alignment and structure
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1 Length = 159 Back     alignment and structure
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1 Length = 159 Back     alignment and structure
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial transcription, activator, DNA- binding, mitochondrion, phosphoprotein; 1.35A {Homo sapiens} Length = 67 Back     alignment and structure
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription factor 1, high mobility group box transcription factor 1, structural genomics; NMR {Homo sapiens} Length = 87 Back     alignment and structure
>1v64_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1 Length = 108 Back     alignment and structure
>1v63_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: a.21.1.1 Length = 101 Back     alignment and structure
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain, activator, DNA-binding, NUC transcription; HET: DNA; 2.77A {Homo sapiens} Length = 106 Back     alignment and structure
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus} Length = 82 Back     alignment and structure
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens} Length = 71 Back     alignment and structure
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation, transcription-DNA CO; HET: DNA; 2.40A {Mus musculus} Length = 79 Back     alignment and structure
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1hrz_A* Length = 76 Back     alignment and structure
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG, TCR-A, transcription factor; HET: DNA; NMR {Mus musculus} SCOP: a.21.1.1 Length = 86 Back     alignment and structure
>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor, SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1j47_A Length = 85 Back     alignment and structure
>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81 Back     alignment and structure
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B Length = 80 Back     alignment and structure
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein, DNA sequence specific, testis determining.; NMR {Mus musculus} SCOP: a.21.1.1 Length = 81 Back     alignment and structure
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain, endodermal, activator, DNA- nucleus, transcription regulation, transcrip complex; HET: DNA; 2.75A {Mus musculus} PDB: 2yul_A Length = 83 Back     alignment and structure
>3f5r_A FACT complex subunit POB3; APC7736, FACT complex (SPT16P-POB3P), saccharomyces cerevisi structural genomics, PSI-2; 1.70A {Saccharomyces cerevisiae} Length = 191 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>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 ?
Query525
2gcl_A261 Hypothetical 63.0 kDa protein in DAK1-ORC1 interge 100.0
3fss_A237 Histone chaperone RTT106; chromosomal protein, nuc 99.98
2co9_A102 Thymus high mobility group box protein TOX; TOX pr 99.83
1k99_A99 Upstream binding factor 1; alpha-helix, L-shape, D 99.82
2eqz_A86 High mobility group protein B3; HMG-box domain, mo 99.82
1hme_A77 High mobility group protein fragment-B; DNA-bindin 99.81
1aab_A83 High mobility group protein; HMG-BOX, DNA-binding; 99.81
2lhj_A97 High mobility group protein homolog NHP1; structur 99.81
1wgf_A90 Upstream binding factor 1; transcription factor, D 99.8
2e6o_A87 HMG box-containing protein 1; HMG-box domain, HMG- 99.79
1cg7_A93 Protein (NON histone protein 6 A); HMG BOX, DNA be 99.79
2cs1_A92 PMS1 protein homolog 1; DNA mismatch repair protei 99.79
1hry_A76 Human SRY; DNA, DNA-binding protein, DNA binding p 99.78
2crj_A92 SWI/SNF-related matrix-associated actin- dependent 99.78
3nm9_A73 HMG-D, high mobility group protein D; DNA bending, 99.77
1ckt_A71 High mobility group 1 protein; high-mobility group 99.77
1wxl_A73 Single-strand recognition protein; FACT, SSRP1, HM 99.76
1wz6_A82 HMG-box transcription factor BBX; bobby SOX homolo 99.76
1l8y_A91 Upstream binding factor 1; HUBF, HMG box 5, DNA bi 99.75
1j46_A85 SRY, sex-determining region Y protein; MALE sex de 99.75
4a3n_A71 Transcription factor SOX-17; 2.40A {Homo sapiens} 99.74
4euw_A106 Transcription factor SOX-9; protein-DNA complex, H 99.74
1gt0_D80 Transcription factor SOX-2; POU factors, SOX prote 99.73
3f27_D83 Transcription factor SOX-17; protein-DNA complex, 99.73
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 99.72
3u2b_C79 Transcription factor SOX-4; HMG domain, transcript 99.72
2lef_A86 LEF-1 HMG, protein (lymphoid enhancer-binding fact 99.72
1i11_A81 Transcription factor SOX-5; HMG BOX, DNA bending, 99.72
3fgh_A67 Transcription factor A, mitochondrial; HMG domain, 99.71
1v64_A108 Nucleolar transcription factor 1; DNA binding, str 99.7
2yrq_A173 High mobility group protein B1; HMG box domain, DN 99.69
2yrq_A173 High mobility group protein B1; HMG box domain, DN 99.67
1v63_A101 Nucleolar transcription factor 1; DNA binding, str 99.65
2d7l_A81 WD repeat and HMG-box DNA binding protein 1; high 99.64
2cto_A93 Novel protein; high mobility group box domain, hel 99.63
2yuk_A90 Myeloid/lymphoid or mixed-lineage leukemia protein 99.62
3tmm_A 238 Transcription factor A, mitochondrial; HMG, high m 99.58
3tq6_A 214 Transcription factor A, mitochondrial; transcripti 99.55
3tq6_A214 Transcription factor A, mitochondrial; transcripti 99.52
3tmm_A238 Transcription factor A, mitochondrial; HMG, high m 99.51
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 99.48
3f5r_A191 FACT complex subunit POB3; APC7736, FACT complex ( 96.46
>2gcl_A Hypothetical 63.0 kDa protein in DAK1-ORC1 intergenic region; chromaint, double PH domain, yfact, DNA replication, RPA; 2.21A {Saccharomyces cerevisiae} SCOP: b.55.1.10 PDB: 2gcj_A Back     alignment and structure
Probab=100.00  E-value=1.2e-79  Score=609.05  Aligned_cols=257  Identities=34%  Similarity=0.650  Sum_probs=227.6

Q ss_pred             ChHHHHHHHHHhhcccCcCCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEE
Q 009802           69 PPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFV  148 (525)
Q Consensus        69 ~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~  148 (525)
                      ++|++|+++||+||+|++++|++||+|+||+|+||||||+|+||.++|||||+||||+|+|++|+|+||||+|++.|++|
T Consensus         2 ~~~~~~~~~i~~ka~i~~~~gd~i~~~~dv~~ltPRGrydi~~~~~~lrl~gkt~dyki~~~~I~r~f~LP~pd~~~~~~   81 (261)
T 2gcl_A            2 HMAEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQIQRIVSLPKADDIHHMM   81 (261)
T ss_dssp             ------------------CCTTSSEEEEEEEEEETTEEEEEEECSSEEEEEESSCEEEEEGGGEEEEEEEECTTSSEEEE
T ss_pred             cHHHHHHHHHHhhccccccCCceEEEEcCceEEcCCCceEEEEecCcEEEeCCcccceechhhEEEEEEccCCCcCceEE
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCcccCCCcccceEEEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccC
Q 009802          149 VVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSA  228 (525)
Q Consensus       149 v~~L~~Pi~~Gqt~y~~lv~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~  228 (525)
                      ||+|+||||||||+|++|||||++++++++++|+++++++++|+++|.++|+|++|++|+++|++|+|++++.|+.|.|+
T Consensus        82 vi~ld~PirqGqt~y~~lV~qf~~~e~~~~~ln~~~~~~~~ky~~~L~~~~~g~~~~vv~~ilk~l~g~kv~~P~~F~S~  161 (261)
T 2gcl_A           82 VMAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEENYKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSK  161 (261)
T ss_dssp             EEEEEEEEEETTEEEEEEEEEEETTCEEEEECCCCHHHHHHHTTTTCCSEEEEEHHHHHHHHHHHHHCCCEECCCSCCCT
T ss_pred             EEecCCCccCCCccCCeEEEEEeCCCceEeeecCCHHHHhhhhccccccccCCcHHHHHHHHHHHhcCCeeecCCccccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcceEEEeecCcceEEEecCcceeeccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCC-ceEEEeccchhhh
Q 009802          229 QDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHLFRNIQRNEY  307 (525)
Q Consensus       229 ~~~~~v~c~~ka~~G~Lypl~~~llfl~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~-~~~~Fs~I~~~e~  307 (525)
                      .+++||+|++||++|+||||++||||+||||+||+|++|++|+|+|||++++++|||||+|++|+| ++++|+||+|+||
T Consensus       162 ~~~~~Vkcs~ka~eG~LypL~~gflF~~KP~~~i~~~~I~sV~fsrvg~~~~~~rTFdl~v~~k~g~~~~~Fs~IdreE~  241 (261)
T 2gcl_A          162 YDQCAVSCSFKANEGYLYPLDNAFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQ  241 (261)
T ss_dssp             TSCSCEEEEETTEEEEEEECSSEEEEESSSCEEEEGGGEEEEEEEC--------CEEEEEEEESTTCCEEEEEEEEGGGH
T ss_pred             CCCceEEEeccCCceEEEEecCceEEeeCCcEEEEhhHeeEEEEEeccCCcccCceEEEEEEEcCCCccEEEcccCHHHH
Confidence            999999999999999999999999999999999999999999999997765556999999999998 9999999999999


Q ss_pred             hhHHHHHhcCCceEeecC
Q 009802          308 HNLFDFISGKGLKIMNLG  325 (525)
Q Consensus       308 ~~l~~~l~~k~i~~~~~~  325 (525)
                      ++|.+||++|||+|+|++
T Consensus       242 ~~L~~ylk~k~l~ikn~~  259 (261)
T 2gcl_A          242 QLLEQFLKSKNLRVKNED  259 (261)
T ss_dssp             HHHHHHHHHTTCCEEC--
T ss_pred             HHHHHHHHHcCCeeecCC
Confidence            999999999999999873
>3fss_A Histone chaperone RTT106; chromosomal protein, nucleus, phosphoprotein, transcription, transcription regulation, transposition; 1.43A {Saccharomyces cerevisiae} PDB: 3tw1_A* 3tvv_A* 3gyp_A 3gyo_A 3to1_A Back     alignment and structure
>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box domain, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 Back     alignment and structure
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group protein 2A, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A 1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A Back     alignment and structure
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 Back     alignment and structure
>2lhj_A High mobility group protein homolog NHP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Babesia bovis} Back     alignment and structure
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription factor 1, high mobility group box transcription factor 1, structural genomics; NMR {Homo sapiens} Back     alignment and structure
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A 1lwm_A Back     alignment and structure
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1hrz_A* Back     alignment and structure
>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; structural DNA-binding protein BRAF35, DNA-bending; NMR {Mus musculus} Back     alignment and structure
>3nm9_A HMG-D, high mobility group protein D; DNA bending, non-sequence-specific, HMG chromosomal protein; HET: DNA; 2.85A {Drosophila melanogaster} SCOP: a.21.1.1 PDB: 1e7j_A* 1hma_A 1qrv_A* Back     alignment and structure
>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT DNA, protein-drug-DNA compl regulation-DNA complex; HET: DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1j3x_A Back     alignment and structure
>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding protein; NMR {Drosophila melanogaster} Back     alignment and structure
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus} Back     alignment and structure
>1l8y_A Upstream binding factor 1; HUBF, HMG box 5, DNA binding domain, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1l8z_A 2hdz_A Back     alignment and structure
>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor, SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1j47_A Back     alignment and structure
>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens} SCOP: a.21.1.0 Back     alignment and structure
>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain, activator, DNA-binding, NUC transcription; HET: DNA; 2.77A {Homo sapiens} Back     alignment and structure
>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B Back     alignment and structure
>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain, endodermal, activator, DNA- nucleus, transcription regulation, transcrip complex; HET: DNA; 2.75A {Mus musculus} SCOP: a.21.1.1 PDB: 2yul_A Back     alignment and structure
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1 Back     alignment and structure
>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation, transcription-DNA CO; HET: DNA; 2.40A {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG, TCR-A, transcription factor; HET: DNA; NMR {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein, DNA sequence specific, testis determining.; NMR {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial transcription, activator, DNA- binding, mitochondrion, phosphoprotein; 1.35A {Homo sapiens} Back     alignment and structure
>1v64_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1v63_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: a.21.1.1 Back     alignment and structure
>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2cto_A Novel protein; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2yuk_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens} Back     alignment and structure
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} Back     alignment and structure
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens} Back     alignment and structure
>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens} Back     alignment and structure
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} Back     alignment and structure
>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1 Back     alignment and structure
>3f5r_A FACT complex subunit POB3; APC7736, FACT complex (SPT16P-POB3P), saccharomyces cerevisi structural genomics, PSI-2; 1.70A {Saccharomyces cerevisiae} 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 525
d2gcla1238 b.55.1.10 (A:237-474) FACT complex subunit POB3, m 3e-85
d1lwma_93 a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces 5e-27
d1wgfa_90 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 2e-23
d1k99a_91 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 4e-23
d1hsma_79 a.21.1.1 (A:) High mobility group protein 1, HMG1 6e-23
d1qrva_73 a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxI 2e-20
d1v64a_108 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 1e-18
d1ckta_71 a.21.1.1 (A:) High mobility group protein 1, HMG1 1e-18
d1gt0d_80 a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 2e-18
d1j46a_85 a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 96 5e-18
d1i11a_70 a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 1e-17
d2lefa_86 a.21.1.1 (A:) Lymphoid enhancer-binding factor, LE 3e-17
d1v63a_101 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 5e-17
>d2gcla1 b.55.1.10 (A:237-474) FACT complex subunit POB3, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 238 Back     information, alignment and structure

class: All beta proteins
fold: PH domain-like barrel
superfamily: PH domain-like
family: SSRP1-like
domain: FACT complex subunit POB3, middle domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  261 bits (669), Expect = 3e-85
 Identities = 82/235 (34%), Positives = 139/235 (59%), Gaps = 1/235 (0%)

Query: 90  EAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVV 149
           +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+  + R+  LPK++  H  +V
Sbjct: 4   DAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQIQRIVSLPKADDIHHMMV 63

Query: 150 VTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTT 209
           + ++PP+R+GQT YP +VLQF+ D   + +L + +E     YKDKL+  Y    H V + 
Sbjct: 64  MAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEENYKDKLKKQYDAKTHIVLSH 123

Query: 210 ILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDY 269
           +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+ +FFFL KP   I   ++  
Sbjct: 124 VLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDNAFFFLTKPTLYIPFSDVSM 183

Query: 270 VEFERHAAGGSNMHYFDLLIRLKT-EQEHLFRNIQRNEYHNLFDFISGKGLKIMN 323
           V   R     ++   FDL + L++      F NI + E   L  F+  K L++ N
Sbjct: 184 VNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQLLEQFLKSKNLRVKN 238
>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 93 Back     information, alignment and structure
>d1wgfa_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 90 Back     information, alignment and structure
>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]} Length = 91 Back     information, alignment and structure
>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Hamster (Cricetulus griseus) [TaxId: 10029]} Length = 79 Back     information, alignment and structure
>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]} Length = 73 Back     information, alignment and structure
>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 108 Back     information, alignment and structure
>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 71 Back     information, alignment and structure
>d1gt0d_ a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80 Back     information, alignment and structure
>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]} Length = 85 Back     information, alignment and structure
>d1i11a_ a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 70 Back     information, alignment and structure
>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86 Back     information, alignment and structure
>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 101 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 ?
Query525
d2gcla1238 FACT complex subunit POB3, middle domain {Baker's 100.0
d1hsma_79 High mobility group protein 1, HMG1 {Hamster (Cric 99.78
d1lwma_93 NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T 99.77
d1k99a_91 Nucleolar transcription factor 1 (Upstream binding 99.76
d1gt0d_80 Sox-2 {Mouse (Mus musculus) [TaxId: 10090]} 99.75
d1j46a_85 SRY {Human (Homo sapiens) [TaxId: 9606]} 99.74
d1i11a_70 Sox-5 {Mouse (Mus musculus) [TaxId: 10090]} 99.73
d1qrva_73 HMG-D {Drosophila melanogaster [TaxId: 7227]} 99.73
d1ckta_71 High mobility group protein 1, HMG1 {Rat (Rattus n 99.73
d1wgfa_90 Nucleolar transcription factor 1 (Upstream binding 99.68
d2lefa_86 Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus 99.68
d1v64a_108 Nucleolar transcription factor 1 (Upstream binding 99.58
d1v63a_101 Nucleolar transcription factor 1 (Upstream binding 99.58
d1l8ya_84 Nucleolar transcription factor 1 (Upstream binding 94.53
d1t77a2110 Lipopolysaccharide-responsive and beige-like ancho 84.79
>d2gcla1 b.55.1.10 (A:237-474) FACT complex subunit POB3, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: All beta proteins
fold: PH domain-like barrel
superfamily: PH domain-like
family: SSRP1-like
domain: FACT complex subunit POB3, middle domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.2e-73  Score=559.19  Aligned_cols=237  Identities=35%  Similarity=0.671  Sum_probs=225.5

Q ss_pred             CCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCcccCCCcccceE
Q 009802           87 GGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHI  166 (525)
Q Consensus        87 ~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gqt~y~~l  166 (525)
                      ++|++||+|+||+|+||||||+|+||.|+|||||+++||+|+|+||+|+||||||+++|+++||||+||||||||+||++
T Consensus         1 ~~g~~i~~~~dv~~~~PRgk~~i~~~~~~lrl~g~~~d~~I~~~~I~~~f~lP~p~~~~~~~~~~L~ppi~~G~t~y~~~   80 (238)
T d2gcla1           1 VAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQIQRIVSLPKADDIHHMMVMAIEPPLRQGQTTYPFL   80 (238)
T ss_dssp             CCTTSSEEEEEEEEEETTEEEEEEECSSEEEEEESSCEEEEEGGGEEEEEEEECTTSSEEEEEEEEEEEEEETTEEEEEE
T ss_pred             CCCcEEEEEeCceEEcCCCceEEEEecCeEEEECCccceEEEhhheeEEEEccCCCCceEEEEEEecChhhcCCccCceE
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCcceEEE
Q 009802          167 VLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLY  246 (525)
Q Consensus       167 v~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~Ly  246 (525)
                      |+||+++++++++|++++++++++|.++|+++|.++++++++++|+++++++++.|++|.++.+++||+|++++++|+||
T Consensus        81 v~qf~~~e~~~~~l~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~k~l~~~kv~~p~~f~~~~~~~~v~~~~~~~~G~L~  160 (238)
T d2gcla1          81 VLQFQKDEETEVQLNLEDEDYEENYKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLY  160 (238)
T ss_dssp             EEEEETTCEEEEECCCCHHHHHHHTTTTCCSEEEEEHHHHHHHHHHHHHCCCEECCCSCCCTTSCSCEEEEETTEEEEEE
T ss_pred             EEEEccCCCcEEEecCChHHHhhhhcchhhhhhcchHHHHHHHHHHHHhCcEecCCccccCCCCcceEEEeeccccEEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCcceeeccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCC-ceEEEeccchhhhhhHHHHHhcCCceEee
Q 009802          247 PLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHLFRNIQRNEYHNLFDFISGKGLKIMN  323 (525)
Q Consensus       247 pl~~~llfl~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~-~~~~Fs~I~~~e~~~l~~~l~~k~i~~~~  323 (525)
                      ||++||||++|||+||+|+||++|+|+||++|+.++|||||+|++|++ ++++|+|||++||++|++||++|+|+|+|
T Consensus       161 pl~~~llf~~KP~~~i~~~eI~~V~f~Rv~~~~~~~rtFD~~v~~k~~~~~~~fs~I~~~e~~~i~~~l~~~~ikikn  238 (238)
T d2gcla1         161 PLDNAFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQLLEQFLKSKNLRVKN  238 (238)
T ss_dssp             ECSSEEEEESSSCEEEEGGGEEEEEEEC--------CEEEEEEEESTTCCEEEEEEEEGGGHHHHHHHHHHTTCCEEC
T ss_pred             EccCeEEEecCCcEEEEehhEeEEEEEeecCCccccceeeEEEEEeCCCccEEEeccCHHHHHHHHHHHHHCCCcccC
Confidence            999999999999999999999999999999877667999999999996 48999999999999999999999999986
>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Hamster (Cricetulus griseus) [TaxId: 10029]} Back     information, alignment and structure
>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1gt0d_ a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1i11a_ a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1wgfa_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1l8ya_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t77a2 b.55.1.6 (A:2076-2185) Lipopolysaccharide-responsive and beige-like anchor protein LRBA {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure