Citrus Sinensis ID: 006512

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640--
MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
cccccccccEEEcccccccccEEEEEcccEEEEEcccccEEEEEcccccEEEEEEEccccEEEEEEEcccEEEEccccHHHHHHHHHHHHHHccccccccccEEEcEEEEEEEEEccEEEEEEccEEEEEEEcHHHcccccccccEEEEEEEccccccccccccEEEEEEEEccccccccccccccHHHHHHHHHHHHcccccccccEEEEEccccccccccEEEEEEEccEEEEEccccEEEEEcccEEEEEEEEccccccEEEEEEEccccccccccccEEEEEEccccEEEEcccccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccEEccccccEEEEccccccEEEEccccEEEEEcccEEEEcccEEEEEEEEEccccccEEEEEEEEEEccccEEEEEcccHHHHHHHHHHHccccEEEEEccccccccHHHHHccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccccccccc
ccccEEcccEEEcccccccccEEEEccccEEEEccccccEEEEcHHHHcEEEEEEEccccEEEEEEcccEEEEEccccHHHHHHHHHHHHHHccccccEEEEEEccccccEEEEcccEEEEEEccccEEEEEHHHccccccccccEEEEEEEcccccccccccEEEEEEEEEccccccccccccccHHHHHHHHHHHHcccccccccEEEEEccEEEEcccccEEEEEcccEEEEEcccEcEEEEccHEEEEEEcccccccEEEEEEEcccccccccccccEEEEEEccccEEEEEEcccHHHHHHHHHcHccHHcccHHHHHHHHHHHHHHcccEEcccccEccccccEEEEEEEcccccEEccccEEEEEccccEEEEcccEEEEEEEEEccccccccEEEEEEEEEcccEEEEccccHHHHHHHHHHHHHcccEEEccccHHHHHHHHHHHcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccc
mtdgpsfnnislggrggtnpgqlkiysgkiswkklgggkavevdkvdiagvtwmkvprtnqlgvrtkdglyykftgfrdqdvaTLTNFfqsnfgispeekqlsvsgrnwgevdlngnMLTFMVGQKQAFEVSLADVSQtqlqgkndvILEFHvddttganekDSLMEISFhipnsntqfvgdenhppaqvfrDKIMsmadvgaggeeAVVTFEGIailtprgrySVELHLSFLRLQGQANDFKIQYSSVVRLfllpksnqphtfvvvtldppirkgqtlyphIVLQFETDYVVQSELLMSEELLNTkykdklepsykGLIHEVFTTILRGlsgakitkpgkfrsaqdgyavksslkaedgvlypleksffflpkpptlilheeidyveferhaaggsnmhYFDLLIRLKTEQEHLFRNIQrneyhnlfdfisgkglkimnlgdmkttDGVAAVLqeddddavdphlerikneaggdesdeedsdfvadkddggsptddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdpnapkramsgfIFFSQMErenikksnpgiaftdVGRVLGERWKKmsveerepyeskaRADKKRYkdeisgyknpkpmdidsgnesdsa
mtdgpsfnnislggrggtnpgqLKIYSGKISWKKLGGGKAVEVDKVDiagvtwmkvprtnqlgvrtkdGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLsgakitkpgkfrsaqdgyAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLErikneaggdesdeedsdfvadkddggsptddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdpnapkramSGFIFFSQMErenikksnpgiaftdvgrVLGERwkkmsveerepyeskaradkkrykdeisgyknpkpmdidsgnesdsa
MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNeaggdesdeedsdFVADKDDGGSPTddsgeedsdasesggekekpakkeskkesssvkastskkksrdgdedgkkkkqkkkkdPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
*********************QLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTT********MEISFHI*****************VFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAV***************************************************************************************************************FIFFS************GIAFTDVGRVLGERW**********************************************
*TDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHI*****************VFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLM************L**SYKGLIHEVFTTILRGLSGAKITKP*********YAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLK*****************************************************************DSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGD*********************SGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKK*S***REPYESKARADKKRYKDE*********************
MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKN***************************************************************************************KRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS******************KDEISGYKNPKPMDI*********
***GPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNT*****ENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVA*VLQ****DAVDPHLERIK***********************************************************************************DPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN***************
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MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDEEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA
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 ?
Query642 2.2.26 [Sep-21-2011]
O04235642 FACT complex subunit SSRP N/A no 0.998 0.998 0.836 0.0
Q39601639 FACT complex subunit SSRP N/A no 0.995 1.0 0.809 0.0
Q05153646 FACT complex subunit SSRP yes no 0.998 0.992 0.776 0.0
Q9LGR0641 FACT complex subunit SSRP yes no 0.989 0.990 0.718 0.0
Q9LEF5639 FACT complex subunit SSRP N/A no 0.989 0.993 0.711 0.0
Q65WY8640 FACT complex subunit SSRP no no 0.989 0.992 0.696 0.0
Q04678706 FACT complex subunit SSRP yes no 0.945 0.859 0.350 1e-105
Q9W602693 FACT complex subunit SSRP N/A no 0.943 0.874 0.349 1e-102
Q08943708 FACT complex subunit SSRP yes no 0.939 0.851 0.349 1e-102
Q04931709 FACT complex subunit SSRP yes no 0.939 0.850 0.349 1e-100
>sp|O04235|SSRP1_VICFA FACT complex subunit SSRP1 OS=Vicia faba GN=SSRP1 PE=2 SV=1 Back     alignment and function desciption
 Score = 1070 bits (2768), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 538/643 (83%), Positives = 587/643 (91%), Gaps = 2/643 (0%)

Query: 1   MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTN 60
           MTDG  FNNI+LG RGGTNPGQ+KIYSG I WK+ GGGK ++VDK DI GVTWMKVP+TN
Sbjct: 1   MTDGHLFNNITLGXRGGTNPGQIKIYSGGILWKRQGGGKTIDVDKTDIMGVTWMKVPKTN 60

Query: 61  QLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLT 120
           QLGV+ KDGL YKFTGFRDQDV +LTNFFQ+ FGI+ EEKQLSV+GRNWGEVDLNGNML 
Sbjct: 61  QLGVQIKDGLLYKFTGFRDQDVVSLTNFFQNTFGITVEEKQLSVTGRNWGEVDLNGNMLA 120

Query: 121 FMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFV 180
           FMVG KQAFEVSLADVSQT LQGKNDVILEFHVDDTTGANEKDSLME+SFHIP+SNTQFV
Sbjct: 121 FMVGSKQAFEVSLADVSQTNLQGKNDVILEFHVDDTTGANEKDSLMEMSFHIPSSNTQFV 180

Query: 181 GDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN 240
           GDEN P AQVFRDKIMSMADVG GGE+AVVTF+GIAILTPRGRYSVELHLSFLRLQGQAN
Sbjct: 181 GDENRPSAQVFRDKIMSMADVGVGGEDAVVTFDGIAILTPRGRYSVELHLSFLRLQGQAN 240

Query: 241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMS 300
           DFKIQYSSVVRLFLLPKSNQPHTFV+++LDPPIRKGQTLYPHIV+QFETD VV SEL +S
Sbjct: 241 DFKIQYSSVVRLFLLPKSNQPHTFVIISLDPPIRKGQTLYPHIVMQFETDTVVDSELAIS 300

Query: 301 EELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDG 360
           E+L N+KYKDKLE SYKGLIHEVFTT+LRGLSG K+TKPG FRS QDGYAVKSSLKAEDG
Sbjct: 301 EDLYNSKYKDKLELSYKGLIHEVFTTVLRGLSGGKVTKPGNFRSCQDGYAVKSSLKAEDG 360

Query: 361 VLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQ 420
           +LYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLK+EQEHLFRNIQ
Sbjct: 361 ILYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKSEQEHLFRNIQ 420

Query: 421 RNEYHNLFDFISGKGLKIMNLGD-MKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESD 479
           RNEYHNL+ FIS KGLKIMN+ D  +   GVA VL+ DDDDAVDPHLERI+NEAGGDESD
Sbjct: 421 RNEYHNLYGFISSKGLKIMNIADAQQAVGGVAKVLENDDDDAVDPHLERIRNEAGGDESD 480

Query: 480 EEDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRD 539
           EEDSDFV DKDDGGSPTDDSG + SDAS+SGGE EKPAKKE KK+ SS  +S+ KK    
Sbjct: 481 EEDSDFVIDKDDGGSPTDDSGADVSDASQSGGETEKPAKKEPKKDLSSKASSSKKKSKDA 540

Query: 540 GDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKM 599
            D DG KKKQKKKKDPNAPKRA+SGF+FFSQMEREN+KK+NPGI+FTDVGRVLGE+WK +
Sbjct: 541 -DVDGVKKKQKKKKDPNAPKRALSGFMFFSQMERENLKKTNPGISFTDVGRVLGEKWKNL 599

Query: 600 SVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDSA 642
           S EE+EPYE+KA+ADKKRYKDEISGYKNP+PM++DSGNESDSA
Sbjct: 600 SAEEKEPYEAKAQADKKRYKDEISGYKNPQPMNVDSGNESDSA 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|Q9W602|SSRP1_XENLA FACT complex subunit SSRP1 OS=Xenopus laevis GN=ssrp1 PE=1 SV=1 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|Q04931|SSRP1_RAT FACT complex subunit SSRP1 OS=Rattus norvegicus GN=Ssrp1 PE=1 SV=2 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 ?
Query642
255552860640 structure-specific recognition protein, 0.995 0.998 0.882 0.0
449459450642 PREDICTED: FACT complex subunit SSRP1-li 0.998 0.998 0.877 0.0
356496334640 PREDICTED: FACT complex subunit SSRP1-li 0.996 1.0 0.853 0.0
147866286644 hypothetical protein VITISV_042446 [Viti 0.998 0.995 0.897 0.0
225452706644 PREDICTED: FACT complex subunit SSRP1 [V 0.998 0.995 0.897 0.0
356506416614 PREDICTED: FACT complex subunit SSRP1-li 0.956 1.0 0.834 0.0
75218951642 RecName: Full=FACT complex subunit SSRP1 0.998 0.998 0.836 0.0
357492685648 FACT complex subunit SSRP1 [Medicago tru 1.0 0.990 0.833 0.0
2495256639 RecName: Full=FACT complex subunit SSRP1 0.995 1.0 0.809 0.0
224141351610 high mobility group family [Populus tric 0.950 1.0 0.792 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 = 1150 bits (2976), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 566/641 (88%), Positives = 606/641 (94%), Gaps = 2/641 (0%)

Query: 1   MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTN 60
           MTDG  FNNISLGGRGGTNPGQLK++SG I WKK GGGKAVEVDK DIAG+TWMKVPRTN
Sbjct: 1   MTDGHLFNNISLGGRGGTNPGQLKLHSGGILWKKQGGGKAVEVDKADIAGLTWMKVPRTN 60

Query: 61  QLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLT 120
           QLGVR KDGL+YKFTGFRDQD A LT+FFQSN GI+ EEKQLSVSGRNWGEVDLNGNMLT
Sbjct: 61  QLGVRIKDGLFYKFTGFRDQDHANLTSFFQSNCGITLEEKQLSVSGRNWGEVDLNGNMLT 120

Query: 121 FMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFV 180
           F+VG KQAFEVSLADVSQTQ+QGKNDVILEFHVDDTTGANEKDSLMEISFHIP++NTQFV
Sbjct: 121 FLVGSKQAFEVSLADVSQTQMQGKNDVILEFHVDDTTGANEKDSLMEISFHIPSNNTQFV 180

Query: 181 GDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN 240
           GDENHPPAQVFRDKIMSMADV  GGEEAVVTF+G+AILTPRGRYSVELHLSFLRLQGQAN
Sbjct: 181 GDENHPPAQVFRDKIMSMADVNPGGEEAVVTFDGVAILTPRGRYSVELHLSFLRLQGQAN 240

Query: 241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMS 300
           DFKIQYSSVVRLFLLPKSNQPHTFV+VTLDPPIRKGQTLYPHIVLQF+TD+VVQS L M+
Sbjct: 241 DFKIQYSSVVRLFLLPKSNQPHTFVIVTLDPPIRKGQTLYPHIVLQFDTDFVVQSTLTMN 300

Query: 301 EELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDG 360
           E+LL+TKYKDKLEPSYKGLIHEVFTTILRGLSGAK+TKPGKFRS QDGYAVKSSLKAEDG
Sbjct: 301 EDLLSTKYKDKLEPSYKGLIHEVFTTILRGLSGAKVTKPGKFRSCQDGYAVKSSLKAEDG 360

Query: 361 VLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQ 420
           +LYPLEKSFFFLPKPPTLILHEEIDYVEFERHA G SNMHYFDLLIRLKTEQEHLFRNIQ
Sbjct: 361 LLYPLEKSFFFLPKPPTLILHEEIDYVEFERHATGSSNMHYFDLLIRLKTEQEHLFRNIQ 420

Query: 421 RNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDE 480
           RNEYHNLFDFISGKGLKIMNLGDMKTT+GVAAVLQ DDDDAVDPHLERIKNEA GDESDE
Sbjct: 421 RNEYHNLFDFISGKGLKIMNLGDMKTTNGVAAVLQNDDDDAVDPHLERIKNEA-GDESDE 479

Query: 481 EDSDFVADKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDG 540
           EDSDFVADKDDGGSPTDDSGEEDSD S SG   EK  +KES KE SS KA+  KK+S+DG
Sbjct: 480 EDSDFVADKDDGGSPTDDSGEEDSDGSLSGDGTEKHVRKESTKEPSSSKAA-PKKRSKDG 538

Query: 541 DEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS 600
           ++DGKKKKQKKKKDPNAPK+AMSGF+FFSQMEREN+KKSNPGIAF DVG++LG++WKK+S
Sbjct: 539 NDDGKKKKQKKKKDPNAPKKAMSGFMFFSQMERENVKKSNPGIAFGDVGKILGDKWKKLS 598

Query: 601 VEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNESDS 641
            EE+EPYE+KARADKKRYK+E+SGYKNP+PMDIDSGNESDS
Sbjct: 599 AEEKEPYEAKARADKKRYKEEVSGYKNPQPMDIDSGNESDS 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|147866286|emb|CAN79926.1| hypothetical protein VITISV_042446 [Vitis vinifera] 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|356506416|ref|XP_003521979.1| PREDICTED: FACT complex subunit SSRP1-like [Glycine max] 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|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|224141351|ref|XP_002324036.1| high mobility group family [Populus trichocarpa] gi|222867038|gb|EEF04169.1| 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 ?
Query642
TAIR|locus:2098413646 HMG "high mobility group" [Ara 0.772 0.767 0.802 2.5e-252
UNIPROTKB|Q9W602693 ssrp1 "FACT complex subunit SS 0.711 0.659 0.372 2.3e-93
ZFIN|ZDB-GENE-031118-9705 ssrp1a "structure specific rec 0.750 0.683 0.353 3.8e-93
UNIPROTKB|B6ZLK1706 SSRP1 "Structure-specific reco 0.707 0.643 0.359 4.3e-92
UNIPROTKB|Q04678706 SSRP1 "FACT complex subunit SS 0.707 0.643 0.359 4.3e-92
UNIPROTKB|F6QYV9709 SSRP1 "Uncharacterized protein 0.711 0.644 0.351 6.2e-91
UNIPROTKB|I3LLA8709 SSRP1 "Uncharacterized protein 0.711 0.644 0.351 6.2e-91
ZFIN|ZDB-GENE-041008-209703 ssrp1b "structure specific rec 0.713 0.651 0.351 8e-91
UNIPROTKB|F1Q2J2710 SSRP1 "Uncharacterized protein 0.711 0.643 0.351 8e-91
MGI|MGI:107912708 Ssrp1 "structure specific reco 0.711 0.645 0.353 8e-91
TAIR|locus:2098413 HMG "high mobility group" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2086 (739.4 bits), Expect = 2.5e-252, Sum P(2) = 2.5e-252
 Identities = 399/497 (80%), Positives = 438/497 (88%)

Query:     1 MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTN 60
             M DG SFNNISL GRGG NPG LKI SG I WKK GGGKAVEVD+ DI  V+W KV ++N
Sbjct:     1 MADGHSFNNISLSGRGGKNPGLLKINSGGIQWKKQGGGKAVEVDRSDIVSVSWTKVTKSN 60

Query:    61 QLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLT 120
             QLGV+TKDGLYYKF GFRDQDV +L++FFQS++G +P+EKQLSVSGRNWGEVDL+GN LT
Sbjct:    61 QLGVKTKDGLYYKFVGFRDQDVPSLSSFFQSSYGKTPDEKQLSVSGRNWGEVDLHGNTLT 120

Query:   121 FMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFV 180
             F+VG KQAFEVSLADVSQTQLQGKNDV LEFHVDDT GANEKDSLMEISFHIPNSNTQFV
Sbjct:   121 FLVGSKQAFEVSLADVSQTQLQGKNDVTLEFHVDDTAGANEKDSLMEISFHIPNSNTQFV 180

Query:   181 GDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN 240
             GDEN PP+QVF D I++MADV  G E+AVVTFE IAILTPRGRY+VELHLSFLRLQGQAN
Sbjct:   181 GDENRPPSQVFNDTIVAMADVSPGVEDAVVTFESIAILTPRGRYNVELHLSFLRLQGQAN 240

Query:   241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMS 300
             DFKIQYSSVVRLFLLPKSNQPHTFVV++LDPPIRKGQT+YPHIV+QFETD VV+SEL +S
Sbjct:   241 DFKIQYSSVVRLFLLPKSNQPHTFVVISLDPPIRKGQTMYPHIVMQFETDTVVESELSIS 300

Query:   301 EELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDG 360
             +EL+NTK+KDKLE SYKGLIHEVFTT+LR LSGAKITKPGKFRS+QDG+AVKSSLKAEDG
Sbjct:   301 DELMNTKFKDKLERSYKGLIHEVFTTVLRWLSGAKITKPGKFRSSQDGFAVKSSLKAEDG 360

Query:   361 VLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQ 420
             VLYPLEK FFFLPKPPTLILH+EIDYVEFERHAAGG+NMHYFDLLIRLKT+ EHLFRNIQ
Sbjct:   361 VLYPLEKGFFFLPKPPTLILHDEIDYVEFERHAAGGANMHYFDLLIRLKTDHEHLFRNIQ 420

Query:   421 RNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQE-DDDDAVDPHLERIKNXXXXXXXX 479
             RNEYHNL+ FIS KGLKIMNLG   T DGVAAVL + DDDDAVDPHL RI+N        
Sbjct:   421 RNEYHNLYTFISSKGLKIMNLGGAGTADGVAAVLGDNDDDDAVDPHLTRIRNQAADESDE 480

Query:   480 XXXXXFVADKDDGGSPT 496
                   + + DDGGSPT
Sbjct:   481 EDEDFVMGEDDDGGSPT 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
UNIPROTKB|Q9W602 ssrp1 "FACT complex subunit SSRP1" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-031118-9 ssrp1a "structure specific recognition protein 1a" [Danio rerio (taxid:7955)] 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
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
ZFIN|ZDB-GENE-041008-209 ssrp1b "structure specific recognition protein 1b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1Q2J2 SSRP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:107912 Ssrp1 "structure specific recognition protein 1" [Mus musculus (taxid:10090)] 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) ?
Q4H2R2SSRP1_CIOINNo assigned EC number0.32640.94540.8622yesno
Q05153SSRP1_ARATHNo assigned EC number0.77670.99840.9922yesno
Q9LEF5SSRP1_MAIZENo assigned EC number0.71110.98900.9937N/Ano
Q04931SSRP1_RATNo assigned EC number0.34950.93920.8504yesno
Q39601SSRP1_CATRONo assigned EC number0.80990.99531.0N/Ano
O04235SSRP1_VICFANo assigned EC number0.83670.99840.9984N/Ano
Q04678SSRP1_CHICKNo assigned EC number0.35070.94540.8597yesno
Q08943SSRP1_MOUSENo assigned EC number0.34950.93920.8516yesno
Q08945SSRP1_HUMANNo assigned EC number0.33750.93610.8476yesno
Q9LGR0SSP1A_ORYSJNo assigned EC number0.71820.98900.9906yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query642
pfam03531213 pfam03531, SSrecog, Structure-specific recognition 1e-117
COG5165508 COG5165, POB3, Nucleosome-binding factor SPN, POB3 1e-101
cd13230137 cd13230, PH1_SSRP1-like, Structure Specific Recogn 2e-67
cd13231100 cd13231, PH2_SSRP1-like, Structure Specific Recogn 3e-45
pfam0851293 pfam08512, Rtt106, Histone chaperone Rttp106-like 1e-24
cd0139066 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class 4e-23
smart0039870 smart00398, HMG, high mobility group 4e-22
cd0008466 cd00084, HMG-box, High Mobility Group (HMG)-box is 7e-22
COG5648211 COG5648, NHP6B, Chromatin-associated proteins cont 8e-22
PTZ0019994 PTZ00199, PTZ00199, high mobility group protein; P 3e-21
pfam0050569 pfam00505, HMG_box, HMG (high mobility group) box 1e-20
pfam0901169 pfam09011, DUF1898, Domain of unknown function (DU 4e-15
cd0138872 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I 1e-09
cd0138977 cd01389, MATA_HMG-box, MATA_HMG-box, class I membe 8e-08
COG5163591 COG5163, NOP7, Protein required for biogenesis of 1e-04
pfam09073424 pfam09073, BUD22, BUD22 6e-04
pfam04147 809 pfam04147, Nop14, Nop14-like family 8e-04
PTZ00121 2084 PTZ00121, PTZ00121, MAEBL; Provisional 0.002
pfam08208193 pfam08208, RNA_polI_A34, DNA-directed RNA polymera 0.002
pfam05764238 pfam05764, YL1, YL1 nuclear protein 0.002
pfam04147 809 pfam04147, Nop14, Nop14-like family 0.004
>gnl|CDD|202677 pfam03531, SSrecog, Structure-specific recognition protein (SSRP1) Back     alignment and domain information 
 Score =  346 bits (890), Expect = e-117
 Identities = 122/222 (54%), Positives = 159/222 (71%), Gaps = 9/222 (4%)

Query: 74  FTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSL 133
           F GFRDQD+  L NF +SNF  S +EK+LSV G NWGE D  G+ LTF VG K AFEV L
Sbjct: 1   FDGFRDQDLDKLQNFIKSNFSKSIDEKELSVKGWNWGEADFKGSNLTFDVGSKPAFEVPL 60

Query: 134 ADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRD 193
           ++VSQT LQGKN+V LEFH +D +G     SLME+ FH+P +NT+  GD      +VF++
Sbjct: 61  SNVSQT-LQGKNEVTLEFHQNDDSGV----SLMEMRFHVPVTNTEDDGD----AVEVFKE 111

Query: 194 KIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLF 253
            +++ ADV    E+A+VTFE I ILTPRGRY ++L+ +FLRL G+  D+KI YSS+ RLF
Sbjct: 112 TVLAKADVIQATEDAIVTFEEILILTPRGRYDIKLYPTFLRLHGKTYDYKIPYSSINRLF 171

Query: 254 LLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQS 295
           LLP  +Q   F V++LDPPIR+GQT YP++VLQFE D  ++ 
Sbjct: 172 LLPHKDQRQVFFVISLDPPIRQGQTRYPYLVLQFEKDEEMEL 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|218737 pfam05764, YL1, YL1 nuclear protein Back     alignment and domain information
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 642
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: 99.94
PTZ0019994 high mobility group protein; Provisional 99.8
cd0138977 MATA_HMG-box MATA_HMG-box, class I member of the H 99.68
cd0138872 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of 99.66
COG5648211 NHP6B Chromatin-associated proteins containing the 99.61
cd0139066 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II 99.6
PF0050569 HMG_box: HMG (high mobility group) box; InterPro: 99.6
smart0039870 HMG high mobility group. 99.58
PF0901173 HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi 99.55
KOG038196 consensus HMG box-containing protein [General func 99.49
KOG0527 331 consensus HMG-box transcription factor [Transcript 99.49
cd0008466 HMG-box High Mobility Group (HMG)-box is found in 99.48
KOG3248 421 consensus Transcription factor TCF-4 [Transcriptio 98.81
KOG0528 511 consensus HMG-box transcription factor SOX5 [Trans 98.74
KOG4715 410 consensus SWI/SNF-related matrix-associated actin- 98.64
KOG2746 683 consensus HMG-box transcription factor Capicua and 98.13
PF1488785 HMG_box_5: HMG (high mobility group) box 5; PDB: 1 97.86
KOG1189960 consensus Global transcriptional regulator, cell d 97.14
PF04690170 YABBY: YABBY protein; InterPro: IPR006780 YABBY pr 95.97
PF1447096 bPH_3: Bacterial PH domain 95.74
PF0851295 Rtt106: Histone chaperone Rttp106-like; InterPro: 95.36
COG5648211 NHP6B Chromatin-associated proteins containing the 95.3
COG54061001 Nucleosome binding factor SPN, SPT16 subunit [Tran 94.89
PF06382183 DUF1074: Protein of unknown function (DUF1074); In 94.64
KOG0526615 consensus Nucleosome-binding factor SPN, POB3 subu 92.39
PF05764240 YL1: YL1 nuclear protein; InterPro: IPR008895 The 91.85
KOG3064303 consensus RNA-binding nuclear protein (MAK16) cont 90.37
PF1447096 bPH_3: Bacterial PH domain 90.03
PF0807355 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 89.01
KOG18321516 consensus HIV-1 Vpr-binding protein [Cell cycle co 87.03
PF04769201 MAT_Alpha1: Mating-type protein MAT alpha 1; Inter 86.36
COG0779153 Uncharacterized protein conserved in bacteria [Fun 86.09
PF04283221 CheF-arch: Chemotaxis signal transduction system p 85.96
PF0856779 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal dom 85.84
PF04147 840 Nop14: Nop14-like family ; InterPro: IPR007276 Emg 84.34
PF04931784 DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070 84.08
PF06524314 NOA36: NOA36 protein; InterPro: IPR010531 This fam 80.59
>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=1.1e-167  Score=1325.73  Aligned_cols=608  Identities=47%  Similarity=0.768  Sum_probs=537.4

Q ss_pred             CCCCCcccceEecCCCCCCCeeEEEecCceeEeeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChh
Q 006512            1 MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQ   80 (642)
Q Consensus         1 m~~~~~f~~i~~~~~g~~~~G~~~~~~~g~~~k~~~~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~   80 (642)
                      |+++++|++||++++|...+|+|||+.+||+||+++||++++|+++||..+.|+|++|+|+|||.+++|.+|+|+||+++
T Consensus         1 mae~l~fn~iyl~~~G~~~~G~lkit~~gi~~K~~~ggk~~~v~~sei~~~~w~k~~r~~~LrV~tk~g~~~~~~GF~d~   80 (615)
T KOG0526|consen    1 MAESLEFNDIYLEVSGHLKPGTLKITESGIGFKNSKGGKVVTVPASEIDKVKWQKGVRGYGLRVFTKDGGVYRFDGFRDD   80 (615)
T ss_pred             CCcccccCceEEecccccccceEEEccCceeEeeCCCCceEEeehHHhhhhhhhhhccccceEEEccCCceEEecCcCHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhhcCCCCcceeeeeeeeeeeeeeecCceEEEEeCCEeEEEEeccccccccccCCceEEEEEecCCCCCCC
Q 006512           81 DVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGAN  160 (642)
Q Consensus        81 d~~~l~~~~~~~~~~~~~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~feip~~~is~~~~~~knev~~ef~~~~~~~~~  160 (642)
                      |++.|++||+++|++++++++||++|||||++.|.|+.|+|.+++||+|||||++|+|| ++|||||+||||++|+    
T Consensus        81 d~~~L~~ff~~~~~~~i~qkel~ikGwNwGea~~~G~~l~F~~~skpiFEIP~s~Vsn~-l~gKNEv~LEFh~nDd----  155 (615)
T KOG0526|consen   81 DLEKLKSFFSSNFSITIEQKELSIKGWNWGEADFKGQELVFDVNSKPIFEIPLSDVSNT-LTGKNEVTLEFHQNDD----  155 (615)
T ss_pred             HHHHHHHHHHHhhccchhhheeeecccccccccccCcEEEEeeCCceeEEeehhhhhhh-hcCCceEEEEEeccCC----
Confidence            99999999999999999999999999999999999999999999999999999999999 7799999999999998    


Q ss_pred             CCCceeEEEEEecCCCCCCCCCCCCCHHHHHHHHHHhhcccccCCcceEEEEcCeeeecCCcceEEEEecCcEEEEcccc
Q 006512          161 EKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN  240 (642)
Q Consensus       161 ~~~~l~e~rf~iP~~~~~~~~~~~~~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~PRGry~i~~~~~~lrl~gkt~  240 (642)
                      .+.+|||||||||.+..  .| ++++++++|++.|+++||+++++||+||+|++|+|+||||||+|+||+++||||||||
T Consensus       156 a~~~LmEmRF~iP~d~~--~g-ed~~~~e~F~~~v~~kAdv~~~~gdaI~~f~~i~~lTPRGRYdI~iy~t~lrL~GkTy  232 (615)
T KOG0526|consen  156 APVGLMEMRFHIPEDQE--DG-EDRDKVEAFYENVLAKADVSSAVGDAIVSFEEILCLTPRGRYDIKIYPTFLRLHGKTY  232 (615)
T ss_pred             CCcceEEEEEecCcccc--cc-ccccHHHHHHHHHHHhcCcccccCCceEEeeeeeeecCCccceeEEehhhhhhccccc
Confidence            36779999999996543  22 4579999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEEEEEccceehhcccCCHHHHhhhhhcccccccccch
Q 006512          241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLI  320 (642)
Q Consensus       241 d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~~f~~~e~~~~el~~~eee~~~k~~~~l~~~~~g~~  320 (642)
                      ||||+|++|.|+|+||++|++|+||||+|+||||||||||||||+||.++++++++|++++++++.+|+++|++.|+||+
T Consensus       233 DyKI~y~SI~rLflLPk~d~rh~~fVisldPPIRQGQTrY~~LV~qF~kDee~e~eLslsdE~l~~k~~~kL~k~ysg~i  312 (615)
T KOG0526|consen  233 DYKIPYKSINRLFLLPKKDQRHVYFVISLDPPIRQGQTRYPFLVLQFGKDEEVELELSLSDEELEEKYKGKLKKEYSGPI  312 (615)
T ss_pred             ceecchhheeeeEeccCCCCceEEEEEecCCccccCccccceEEEEeccccceeEeecccHHHHhhhhcchhhhhcCccH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCceeEEEecCcceeeccCCCeEEEcCceeEEEEEEecCCCccee
Q 006512          321 HEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMH  400 (642)
Q Consensus       321 ~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~LypL~~~llf~~KPp~~I~~~dI~~V~f~Rv~~~~~~~r  400 (642)
                      |+||+++|++|||+||++||+|.|+.|++||+|++||++|+||||++|||||||||+||+|+||..|+|+|++.+++++|
T Consensus       313 ~Ev~s~V~k~L~~rKit~Pg~F~s~~g~~av~CS~KAneG~LYPLekgFlFl~KP~l~I~f~EIS~V~fsR~~~s~t~tr  392 (615)
T KOG0526|consen  313 YEVFSIVMKALCGRKITVPGEFLSHSGTAAVKCSFKANEGLLYPLEKGFLFLPKPPLYIRFEEISSVNFSRSGLSGTSTR  392 (615)
T ss_pred             HHHHHHHHHHHhCceeeccccccccCCCceeeeeecccCceEeecccceEeecCCceEeeccceeeEEEEeccCCcccee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999987677779


Q ss_pred             eEEEEEEEcCCceEEEeeechhhhhhHHHHHhcCCceEeecCCccccchhhhhhc-CCCCCCCChhhhhhcccCCCCCCC
Q 006512          401 YFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQ-EDDDDAVDPHLERIKNEAGGDESD  479 (642)
Q Consensus       401 tFDl~i~~K~~~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n~~~~~~~~~~~~~~~-~~~dd~~d~~~~~~~~~~~~ddde  479 (642)
                      ||||+|++|+|.+|+|++|+++||..|++||++|+|+|+|.+.....-...+.+. .+.+++++      .+++..|+++
T Consensus       393 tFD~ei~lk~g~~~tFs~i~keE~~~L~~fl~sK~lki~N~~~~~~~D~~~~~~~~e~~~~edd------~~d~~~de~~  466 (615)
T KOG0526|consen  393 TFDFEITLKSGTSYTFSNISKEEYGKLFDFLNSKGLKIRNEGREDEIDEYLATLKAEDRDEEDD------SDDSSTDEDE  466 (615)
T ss_pred             eEEEEEEEcCCCeeeecccCHHHHHHHHHHHhhcCceeecCCcccccchHHhhhccccchhhhc------ccccccccch
Confidence            9999999999999999999999999999999999999999966331112222222 22222211      2344456678


Q ss_pred             ccCccccc--CCCCCCCCCCCCCCCCCCCCcCCCCCCchhhhhcccccccccccccccCCCCCCcccccccccccCCCCC
Q 006512          480 EEDSDFVA--DKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNA  557 (642)
Q Consensus       480 eeDedf~~--~~sd~~ee~ds~~e~~~~~~e~~~e~e~~~kk~~k~~~~k~k~kkkkKk~k~~~~k~kkkkkkkkkd~~~  557 (642)
                      |+|+||+.  +++|++|+|||++.++++++.+++   +++++..    .+++++++++.+    +++++++.|+++||++
T Consensus       467 e~Dedf~~~~~~d~vaee~dS~~~ds~~~eg~S~---~~~k~~~----~~kk~K~ek~~k----~~~~~k~~kk~kdpna  535 (615)
T KOG0526|consen  467 EEDEDFKPGEEDDDVAEEFDSDEADSSDEEGDSD---EPKKERS----SEKKPKREKKEK----EKEKKKKGKKKKDPNA  535 (615)
T ss_pred             hhhhhcccCccccccccccCCcccccccccCCcc---ccccccc----ccccchhhhHhh----hhccccCcccCCCCCC
Confidence            88999996  556689999993333333332222   1111111    111111111111    2233366788999999


Q ss_pred             CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCCCCCCCCCCC
Q 006512          558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGN  637 (642)
Q Consensus       558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~~~~~~~~~~  637 (642)
                      ||||+||||+|++..|..||.+  |+++++|+|++|++|+.|++  |.+|+++|+.+|+||+.+|++|+... ....++.
T Consensus       536 pkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~g~-~~~~~~~  610 (615)
T KOG0526|consen  536 PKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKNGQ-MNSKSGK  610 (615)
T ss_pred             CccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHhhcCCC-cccccCc
Confidence            9999999999999999999988  99999999999999999998  99999999999999999999999554 4444444


Q ss_pred             C
Q 006512          638 E  638 (642)
Q Consensus       638 ~  638 (642)
                      .
T Consensus       611 s  611 (615)
T KOG0526|consen  611 S  611 (615)
T ss_pred             c
Confidence            3

>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
>smart00398 HMG high mobility group 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
>KOG0381 consensus HMG box-containing protein [General function prediction only] Back     alignment and domain information
>KOG0527 consensus HMG-box transcription factor [Transcription] 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
>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
>PF14470 bPH_3: Bacterial PH domain 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
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics] 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
>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
>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
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification] Back     alignment and domain information
>PF14470 bPH_3: Bacterial PH domain 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
>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
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function Back     alignment and domain information
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity 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
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues 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 ?
Query642
2gcj_A261 Crystal Structure Of The Pob3 Middle Domain Length 1e-45
2gcl_A261 Structure Of The Pob3 Middle Domain Length = 261 1e-44
1j5n_A93 Solution Structure Of The Non-Sequence-Specific Hmg 5e-17
1cg7_A93 Hmg Protein Nhp6a From Saccharomyces Cerevisiae Len 5e-17
3f5r_A191 The Crystal Structure Of A Subunit Of The Heterodim 1e-12
1j3d_A78 Solution Structure Of The C-Terminal Domain Of The 2e-11
2yqi_A81 Solution Structure Of The Second Hmg-Box Domain Fro 4e-11
1j3c_A79 Solution Structure Of The C-Terminal Domain Of The 4e-11
2lhj_A97 Nmr Structure Of The High Mobility Group Protein-Li 2e-10
2yrq_A173 Solution Structure Of The Tandem Hmg Box Domain Fro 1e-09
2ly4_A83 Hmgb1-Facilitated P53 Dna Binding Occurs Via Hmg-Bo 2e-09
1aab_A83 Nmr Structure Of Rat Hmg1 Hmga Fragment Length = 83 3e-09
1hme_A77 Structure Of The Hmg Box Motif In The B-Domain Of H 5e-09
1wxl_A73 Solution Structure Of The Hmg-Box Domain In The Ssr 7e-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
1ckt_A71 Crystal Structure Of Hmg1 Domain A Bound To A Cispl 4e-08
2gzk_A159 Structure Of A Complex Of Tandem Hmg Boxes And Dna 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 7e-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 8e-06
1hma_A73 The Solution Structure And Dynamics Of The Dna Bind 1e-05
1e7j_A74 Hmg-D Complexed To A Bulge Dna Length = 74 1e-05
1qrv_A73 Crystal Structure Of The Complex Of Hmg-D And Dna L 1e-05
3nm9_A73 Hmgd(M13a)-Dna Complex Length = 73 2e-05
1i11_A81 Solution Structure Of The Dna Binding Domain, Sox-5 7e-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: 188 AQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYS 247
           A+ F +++   AD+G    +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+ 
Sbjct: 4   AEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHR 63
Query: 248 SVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTK 307
            + R+  LPK++  H  +V+ ++PP+RKGQT YP +VLQF+ D   + +L + +E     
Sbjct: 64  QIQRIVSLPKADDIHHLLVLAIEPPLRKGQTTYPFLVLQFQKDEETEVQLNLEDEDYEEN 123
Query: 308 YKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEK 367
           YKDKL+  Y    H V + +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+ 
Sbjct: 124 YKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDN 183
Query: 368 SFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQ-EHLFRNIQRNEYHN 426
           +FFFL KP   I   ++  V   R     ++   FDL + L++ +    F NI + E   
Sbjct: 184 AFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQL 243
Query: 427 LFDFISGKGLKIMN 440
           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|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|1CG7|A Chain A, Hmg Protein Nhp6a From Saccharomyces Cerevisiae Length = 93 Back     alignment and structure
>pdb|3F5R|A Chain A, The Crystal Structure Of A Subunit Of The Heterodimeric Fact Complex (Spt16p-Pob3p) Length = 191 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|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|1J3C|A Chain A, Solution Structure Of The C-Terminal Domain Of The Hmgb2 Length = 79 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|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|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|1AAB|A Chain A, Nmr Structure Of Rat Hmg1 Hmga Fragment Length = 83 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|1WXL|A Chain A, Solution Structure Of The Hmg-Box Domain In The Ssrp1 Subunit Of Fact Length = 73 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|1CKT|A Chain A, Crystal Structure Of Hmg1 Domain A Bound To A Cisplatin-modified Dna Duplex Length = 71 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|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|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|1E7J|A Chain A, Hmg-D Complexed To A Bulge Dna Length = 74 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 ?
Query642
2gcl_A261 Hypothetical 63.0 kDa protein in DAK1-ORC1 interge 4e-95
3fss_A237 Histone chaperone RTT106; chromosomal protein, nuc 3e-58
3f5r_A191 FACT complex subunit POB3; APC7736, FACT complex ( 4e-53
1cg7_A93 Protein (NON histone protein 6 A); HMG BOX, DNA be 1e-34
2co9_A102 Thymus high mobility group box protein TOX; TOX pr 2e-34
2lhj_A97 High mobility group protein homolog NHP1; structur 2e-33
2eqz_A86 High mobility group protein B3; HMG-box domain, mo 4e-32
1aab_A83 High mobility group protein; HMG-BOX, DNA-binding; 6e-31
1k99_A99 Upstream binding factor 1; alpha-helix, L-shape, D 9e-31
2crj_A92 SWI/SNF-related matrix-associated actin- dependent 1e-30
1hme_A77 High mobility group protein fragment-B; DNA-bindin 2e-30
1wgf_A90 Upstream binding factor 1; transcription factor, D 9e-30
1wxl_A73 Single-strand recognition protein; FACT, SSRP1, HM 1e-26
2cs1_A92 PMS1 protein homolog 1; DNA mismatch repair protei 2e-26
2yrq_A173 High mobility group protein B1; HMG box domain, DN 6e-26
2yrq_A173 High mobility group protein B1; HMG box domain, DN 2e-21
3nm9_A73 HMG-D, high mobility group protein D; DNA bending, 3e-25
3tq6_A 214 Transcription factor A, mitochondrial; transcripti 2e-24
3tq6_A214 Transcription factor A, mitochondrial; transcripti 4e-17
3tmm_A 238 Transcription factor A, mitochondrial; HMG, high m 2e-24
3tmm_A238 Transcription factor A, mitochondrial; HMG, high m 4e-17
1ckt_A71 High mobility group 1 protein; high-mobility group 5e-24
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 3e-23
2gzk_A159 Sex-determining region on Y / HMGB1; protein-DNA c 3e-21
3fgh_A67 Transcription factor A, mitochondrial; HMG domain, 2e-22
1v64_A108 Nucleolar transcription factor 1; DNA binding, str 6e-17
2e6o_A87 HMG box-containing protein 1; HMG-box domain, HMG- 6e-17
1v63_A101 Nucleolar transcription factor 1; DNA binding, str 2e-15
4euw_A106 Transcription factor SOX-9; protein-DNA complex, H 9e-15
1wz6_A82 HMG-box transcription factor BBX; bobby SOX homolo 2e-14
4a3n_A71 Transcription factor SOX-17; 2.40A {Homo sapiens} 4e-14
3u2b_C79 Transcription factor SOX-4; HMG domain, transcript 5e-13
1hry_A76 Human SRY; DNA, DNA-binding protein, DNA binding p 8e-13
2lef_A86 LEF-1 HMG, protein (lymphoid enhancer-binding fact 8e-13
1j46_A85 SRY, sex-determining region Y protein; MALE sex de 9e-13
2d7l_A81 WD repeat and HMG-box DNA binding protein 1; high 1e-12
1gt0_D80 Transcription factor SOX-2; POU factors, SOX prote 3e-12
1i11_A81 Transcription factor SOX-5; HMG BOX, DNA bending, 3e-12
3f27_D83 Transcription factor SOX-17; protein-DNA complex, 3e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-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 =  292 bits (748), Expect = 4e-95
 Identities = 87/258 (33%), Positives = 149/258 (57%), Gaps = 1/258 (0%)

Query: 187 PAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQY 246
            A+ F +++   AD+G    +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+
Sbjct: 3   MAEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQH 62

Query: 247 SSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNT 306
             + R+  LPK++  H  +V+ ++PP+R+GQT YP +VLQF+ D   + +L + +E    
Sbjct: 63  RQIQRIVSLPKADDIHHMMVMAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEE 122

Query: 307 KYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLE 366
            YKDKL+  Y    H V + +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+
Sbjct: 123 NYKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLD 182

Query: 367 KSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT-EQEHLFRNIQRNEYH 425
            +FFFL KP   I   ++  V   R     ++   FDL + L++      F NI + E  
Sbjct: 183 NAFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQ 242

Query: 426 NLFDFISGKGLKIMNLGD 443
            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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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

No hit with probability above 80.00

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 642
d2gcla1238 b.55.1.10 (A:237-474) FACT complex subunit POB3, m 5e-85
d1lwma_93 a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces 6e-28
d1k99a_91 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 4e-24
d1wgfa_90 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 5e-24
d1hsma_79 a.21.1.1 (A:) High mobility group protein 1, HMG1 1e-23
d1qrva_73 a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxI 5e-21
d1ckta_71 a.21.1.1 (A:) High mobility group protein 1, HMG1 2e-19
d1v64a_108 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 2e-19
d1gt0d_80 a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 5e-19
d1j46a_85 a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 96 1e-18
d1i11a_70 a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 3e-18
d2lefa_86 a.21.1.1 (A:) Lymphoid enhancer-binding factor, LE 8e-18
d1v63a_101 a.21.1.1 (A:) Nucleolar transcription factor 1 (Up 9e-18
>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 =  264 bits (675), Expect = 5e-85
 Identities = 82/235 (34%), Positives = 139/235 (59%), Gaps = 1/235 (0%)

Query: 207 EAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVV 266
           +A+V+F+ +   TPRGRY ++++ + +RL+G+  ++K+Q+  + R+  LPK++  H  +V
Sbjct: 4   DAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHRQIQRIVSLPKADDIHHMMV 63

Query: 267 VTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTT 326
           + ++PP+R+GQT YP +VLQF+ D   + +L + +E     YKDKL+  Y    H V + 
Sbjct: 64  MAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEENYKDKLKKQYDAKTHIVLSH 123

Query: 327 ILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDY 386
           +L+GL+  ++  PG+++S  D  AV  S KA +G LYPL+ +FFFL KP   I   ++  
Sbjct: 124 VLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDNAFFFLTKPTLYIPFSDVSM 183

Query: 387 VEFERHAAGGSNMHYFDLLIRLKT-EQEHLFRNIQRNEYHNLFDFISGKGLKIMN 440
           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
>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
>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
>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
>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 71 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
>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 ?
Query642
d2gcla1238 FACT complex subunit POB3, middle domain {Baker's 100.0
d1k99a_91 Nucleolar transcription factor 1 (Upstream binding 99.67
d1lwma_93 NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T 99.66
d1hsma_79 High mobility group protein 1, HMG1 {Hamster (Cric 99.64
d1j46a_85 SRY {Human (Homo sapiens) [TaxId: 9606]} 99.63
d1gt0d_80 Sox-2 {Mouse (Mus musculus) [TaxId: 10090]} 99.63
d1i11a_70 Sox-5 {Mouse (Mus musculus) [TaxId: 10090]} 99.57
d2lefa_86 Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus 99.56
d1qrva_73 HMG-D {Drosophila melanogaster [TaxId: 7227]} 99.56
d1wgfa_90 Nucleolar transcription factor 1 (Upstream binding 99.55
d1ckta_71 High mobility group protein 1, HMG1 {Rat (Rattus n 99.54
d1v64a_108 Nucleolar transcription factor 1 (Upstream binding 99.46
d1v63a_101 Nucleolar transcription factor 1 (Upstream binding 99.41
d2gcla1238 FACT complex subunit POB3, middle domain {Baker's 95.56
d2rnrb1108 TFIIH basal transcription factor complex p62 subun 93.46
d1l8ya_84 Nucleolar transcription factor 1 (Upstream binding 91.52
d1wkya1151 Endo-beta-1,4-mannanase C-terminal domain {Bacillu 86.22
>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=0  Score=523.80  Aligned_cols=237  Identities=35%  Similarity=0.671  Sum_probs=231.3

Q ss_pred             CCCCEEEEECCEEEECCCCCEEEEEECCCEEEECCCCEEEEECCCEEEEEECCCCCCCEEEEEEECCCCCCCCCCCCCEE
Q ss_conf             78642799738045437863379982470899711200476417441898501599890899993589514798546528
Q 006512          204 GGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHI  283 (642)
Q Consensus       204 ~~~~~i~~~~~i~~~~PRGry~i~~~~~~lrl~gkt~d~kI~y~nI~r~f~lP~~d~~~~~~vi~L~~PirqGqt~y~~i  283 (642)
                      ++|++||+|+||+|+||||||+|+||.++|||||++|||+|+|+||+|+||||||+++|+++||+|+||||||||+|+++
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
T ss_conf             98747999967548768983689996682899888501377945422789766799764999998468231598258608


Q ss_pred             EEEEECCCEEHHCCCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEECCCCCCCCCCCCCEEEEEECCCEEEEE
Q ss_conf             99997264010012478989855520232421232258999999953039802157886567886307874217403798
Q 006512          284 VLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLY  363 (642)
Q Consensus       284 v~~f~~~e~~~~el~~~eee~~~k~~~~l~~~~~g~~~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~Ly  363 (642)
                      |+||+++++++++++++++++++++.++|+++|+++.+++++++|+++++++++.|++|.++.+++||+|++++++|+||
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
T ss_conf             99980688737786488689765420002333056088999999998728575387333577886128876156307999


Q ss_pred             ECCCCEEECCCCCEEEECCCEEEEEEEEECCCCCCEEEEEEEEEECCC-CEEEEEEECHHHHHHHHHHHHCCCCEEEE
Q ss_conf             247630121678769971756699999712899612339899999078-14899400323333088888407926842
Q 006512          364 PLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHLFRNIQRNEYHNLFDFISGKGLKIMN  440 (642)
Q Consensus       364 pL~~~lifi~KPp~~I~~~eI~~V~f~Rv~~~~~~~rtFDl~i~~K~~-~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n  440 (642)
                      ||++||+|++|||++|+|+||++|+|+||++|+++.|||||+|++|++ ++++|+||+|+||++|++||++|+|+|+|
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
T ss_conf             716727980377599990038699999632775323166699999479744899161889988899999977981359
>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
>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Hamster (Cricetulus griseus) [TaxId: 10029]} Back     information, alignment and structure
>d1j46a_ a.21.1.1 (A:) SRY {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
>d1i11a_ a.21.1.1 (A:) Sox-5 {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
>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]} 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
>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]} 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
>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
>d2rnrb1 b.55.1.9 (B:1-108) TFIIH basal transcription factor complex p62 subunit (BTF2-p62), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} 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
>d1wkya1 b.18.1.31 (A:340-490) Endo-beta-1,4-mannanase C-terminal domain {Bacillus sp. JAMB-602 [TaxId: 244966]} Back     information, alignment and structure