Citrus Sinensis ID: 024272

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
MMSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRRRIEGGDQKRKRMKNDSDISRLSPSMRNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPEGHRQ
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccEEEEEEEEEEccccEEEEEccccccccccccEEEEEEccccEEEccccccccccccccccEEEEEccccccEEEEEEEccccccccccEEEEEcccccccccccccccccEEEEccccccc
cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHcccccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccccccHHHHHHcccccccccccccccccccccccccccccHHccccccEEEEEEEccccccccEEEEEEEEEcccccEEEEEcccccccccccccEEEEEcHHHEccccccccccccccccccEEEEEcccccEEEEEEEEccccccccccEEEEEEcccccccccccccccEEEEEccccccc
MMSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKklhntpeviekpgdnsltKLKSLYIQAKELSENEVHVSNLLVGQldallpsgamgqqrrrieggdqkrkrmkndsdisrlspsmrnqLDTCASLKGEQVAARVTaenadkdeWFVVKVMHfdretkefevldeepgddeeggvqRKYKLHMSfiipfpkrndssipefppgrhvlavypgttALYKATvvstprkrktddyllefdddeedgalpqrtvpfhnvvplpeghrq
mmssapdiadildksreldRLRKEQEDVLLEINKmhkklhntpeviekpgdnslTKLKSLYIQAKELSENEVHVSNLLVGQLDAllpsgamgqqrrrieggdqkrkrmkndsdisrlspsmrnQLDTCASLKGEQVAARVtaenadkdewfVVKVMHFDRETKefevldeepgddeeggvqRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALykatvvstprkrkTDDYLLEFDDDeedgalpqrtvpfhnvvplpeghrq
MMSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRRRIEGGDQKRKRMKNDSDISRLSPSMRNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLdeepgddeeggVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTddyllefdddeedGALPQRTVPFHNVVPLPEGHRQ
********************************************************LKSLYIQAKELSENEVHVSNLLVGQLDALL****************************************************RVTAENADKDEWFVVKVMHFDRETKEF*****************KYKLHMSFIIPFP*********FPPGRHVLAVYPGTTALYKATVVST*******DYLL******************************
******D****LDK****************************************TKLKSLYIQAK*********************************************************************QVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDE*GGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLP*****
MMSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPSG************************ISRLSPSMRNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEV************VQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPEGHRQ
****APDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPS************************************LDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPE****
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MMSSAPDIADILDKSRExxxxxxxxxxxxxxxxxxxxxLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRRRIEGGDQKRKRMKNDSDISRLSPSMRNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEEDGALPQRTVPFHNVVPLPEGHRQ
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 ?
Query270 2.2.26 [Sep-21-2011]
P0C606293 SAGA-associated factor 29 yes no 0.929 0.856 0.291 9e-13
Q9DA08293 SAGA-associated factor 29 yes no 0.929 0.856 0.291 9e-13
Q96ES7293 SAGA-associated factor 29 yes no 0.929 0.856 0.284 4e-12
Q5ZL38293 SAGA-associated factor 29 yes no 0.933 0.860 0.284 9e-12
P25554259 SAGA-associated factor 29 yes no 0.388 0.405 0.371 7e-08
Q9USW9244 SAGA-associated factor 29 yes no 0.370 0.409 0.327 0.0001
>sp|P0C606|SGF29_RAT SAGA-associated factor 29 homolog OS=Rattus norvegicus GN=Ccdc101 PE=1 SV=1 Back     alignment and function desciption
 Score = 74.3 bits (181), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 88/302 (29%), Positives = 141/302 (46%), Gaps = 51/302 (16%)

Query: 1   MMSSAPDIADILDKSRELDRLRKEQ----EDVLLEINKMHKKLHNTPEVIEKPGDNSLTK 56
           ++S+   IA++L +  +L +  +E+    E  L+ I K H+++    ++         TK
Sbjct: 3   LVSADSRIAELLTELHQLIKQTQEERSRSEHNLVNIQKTHERMQTENKI----SPYYRTK 58

Query: 57  LKSLYIQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRR---RIEG----GDQKRKRMK 109
           L+ LY  AK  +E E    N+L   LD +    ++ ++RR   +I G     +  RK M+
Sbjct: 59  LRGLYTTAKADAEAEC---NILRKALDKIAEIKSLLEERRIAAKIAGLYNDSEPPRKTMR 115

Query: 110 NDSDISRLSPS-MRNQL----------DTCASL---------KGEQVAARVTAENADKDE 149
               ++ L  S M   L            C ++          G++VAARV A   D ++
Sbjct: 116 RGVLMTLLQQSAMTLPLWIGKPGDKPPPLCGAIPASGDYVAKPGDKVAARVKAVEGD-EQ 174

Query: 150 WFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFIIPFP--KRNDSSIPE--F 205
           W + +V+ +   T ++EV D     DEEG  + ++ L    IIP P  K N  + PE  F
Sbjct: 175 WILAEVVSYSHATNKYEVDD----IDEEG--KERHTLSRRRIIPLPQWKANPETDPEALF 228

Query: 206 PPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE-EDGALPQRTVPFHNVVPL 264
              + VLA+YP TT  Y+A ++ TP +R  DDY + F+D    DG  P   V    VV  
Sbjct: 229 QKEQLVLALYPQTTCFYRA-LIHTPPQRPQDDYSVLFEDTSYADGYSPPLNVAQRYVVAC 287

Query: 265 PE 266
            E
Sbjct: 288 KE 289
Involved in transcriptional regulation, through association with histone acetyltransferase (HAT) SAGA-type complexes like the TFTC-HAT, ATAC or STAGA complexes. Specifically recognizes and binds methylated 'Lys-4' of histone H3 (H3K4me), with a preference for trimethylated form (H3K4me3). In the SAGA-type complexes, required to recruit complexes to H3K4me. May be involved in MYC-mediated oncogenic transformation.
Rattus norvegicus (taxid: 10116)
>sp|Q9DA08|SGF29_MOUSE SAGA-associated factor 29 homolog OS=Mus musculus GN=Ccdc101 PE=2 SV=1 Back     alignment and function description
>sp|Q96ES7|SGF29_HUMAN SAGA-associated factor 29 homolog OS=Homo sapiens GN=CCDC101 PE=1 SV=1 Back     alignment and function description
>sp|Q5ZL38|SGF29_CHICK SAGA-associated factor 29 homolog OS=Gallus gallus GN=CCDC101 PE=2 SV=1 Back     alignment and function description
>sp|P25554|SGF29_YEAST SAGA-associated factor 29 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SGF29 PE=1 SV=2 Back     alignment and function description
>sp|Q9USW9|SGF29_SCHPO SAGA-associated factor 29 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sgf29 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 ?
Query270
22331369270 SGF29 tudor-like domain-containing prote 0.996 0.996 0.8 1e-123
238479921269 SGF29 tudor-like domain-containing prote 0.992 0.996 0.796 1e-122
7939518285 unnamed protein product [Arabidopsis tha 0.996 0.943 0.754 1e-120
297818344279 hypothetical protein ARALYDRAFT_322874 [ 0.996 0.964 0.770 1e-119
356570466269 PREDICTED: uncharacterized protein LOC10 0.988 0.992 0.768 1e-118
224055591269 predicted protein [Populus trichocarpa] 0.992 0.996 0.819 1e-118
356558829269 PREDICTED: uncharacterized protein LOC10 0.988 0.992 0.757 1e-117
388521317269 unknown [Lotus japonicus] 0.992 0.996 0.755 1e-116
356570464271 PREDICTED: uncharacterized protein LOC10 0.988 0.985 0.762 1e-116
356558827271 PREDICTED: uncharacterized protein LOC10 0.988 0.985 0.751 1e-116
>gi|22331369|ref|NP_189382.2| SGF29 tudor-like domain-containing protein [Arabidopsis thaliana] gi|19347735|gb|AAL86293.1| unknown protein [Arabidopsis thaliana] gi|21689749|gb|AAM67518.1| unknown protein [Arabidopsis thaliana] gi|332643801|gb|AEE77322.1| SGF29 tudor-like domain-containing protein [Arabidopsis thaliana] Back     alignment and taxonomy information
 Score =  448 bits (1153), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 216/270 (80%), Positives = 246/270 (91%), Gaps = 1/270 (0%)

Query: 2   MSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLY 61
           MSS+PDIA ILD ++ELDRLRKEQE+VL+EINKMHKKL  TPE++EKPGD SL+KLK+LY
Sbjct: 1   MSSSPDIAGILDNTKELDRLRKEQEEVLVEINKMHKKLQATPEIVEKPGDISLSKLKNLY 60

Query: 62  IQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRRRIEGGDQKRKRMKNDSDISRLSPSM 121
           IQAKELSE+EV VSN+L+ QLD+LLPSG  GQQRR++EG +QKRKRMK D+D++R+SPSM
Sbjct: 61  IQAKELSESEVTVSNILLTQLDSLLPSGPTGQQRRKLEGNEQKRKRMKVDTDVTRVSPSM 120

Query: 122 RNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQ 181
           RNQ++  ASLKGEQVAARVTAE+A+KDEWFVVKV+HFDRETKE EVLDEEPGDDEEGG Q
Sbjct: 121 RNQIEAYASLKGEQVAARVTAEDAEKDEWFVVKVIHFDRETKEVEVLDEEPGDDEEGGGQ 180

Query: 182 RKYKLHMSFIIPFPKRND-SSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLL 240
           R YKL MS I+PFPKRND SS  EF PG+HVLAVYPGTTALYKATV+STPRKRK+D+YLL
Sbjct: 181 RTYKLSMSCILPFPKRNDPSSTQEFIPGKHVLAVYPGTTALYKATVISTPRKRKSDEYLL 240

Query: 241 EFDDDEEDGALPQRTVPFHNVVPLPEGHRQ 270
           EFDDDEEDGALPQRTVPFH VV LPEGHRQ
Sbjct: 241 EFDDDEEDGALPQRTVPFHKVVALPEGHRQ 270

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|238479921|ref|NP_001154650.1| SGF29 tudor-like domain-containing protein [Arabidopsis thaliana] gi|332643802|gb|AEE77323.1| SGF29 tudor-like domain-containing protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|7939518|dbj|BAA95721.1| unnamed protein product [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297818344|ref|XP_002877055.1| hypothetical protein ARALYDRAFT_322874 [Arabidopsis lyrata subsp. lyrata] gi|297322893|gb|EFH53314.1| hypothetical protein ARALYDRAFT_322874 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|356570466|ref|XP_003553408.1| PREDICTED: uncharacterized protein LOC100526864 isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|224055591|ref|XP_002298555.1| predicted protein [Populus trichocarpa] gi|222845813|gb|EEE83360.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356558829|ref|XP_003547705.1| PREDICTED: uncharacterized protein LOC100807100 isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|388521317|gb|AFK48720.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|356570464|ref|XP_003553407.1| PREDICTED: uncharacterized protein LOC100526864 isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356558827|ref|XP_003547704.1| PREDICTED: uncharacterized protein LOC100807100 isoform 1 [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query270
TAIR|locus:2086711270 SGF29a "AT3G27460" [Arabidopsi 0.996 0.996 0.714 2.5e-97
TAIR|locus:2168793273 SGF29b "AT5G40550" [Arabidopsi 0.988 0.978 0.702 3.8e-94
UNIPROTKB|Q96ES7293 CCDC101 "SAGA-associated facto 0.470 0.433 0.275 1.1e-08
MGI|MGI:1922815293 Ccdc101 "coiled-coil domain co 0.470 0.433 0.282 1.1e-08
RGD|1310609293 Ccdc101 "coiled-coil domain co 0.470 0.433 0.282 1.1e-08
UNIPROTKB|Q5ZL38293 CCDC101 "SAGA-associated facto 0.470 0.433 0.268 1e-07
DICTYBASE|DDB_G0272054411 DDB_G0272054 "DUF1325 family p 0.548 0.360 0.256 3.9e-05
UNIPROTKB|E1BN74294 E1BN74 "Uncharacterized protei 0.314 0.289 0.303 0.00069
TAIR|locus:2086711 SGF29a "AT3G27460" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 967 (345.5 bits), Expect = 2.5e-97, P = 2.5e-97
 Identities = 193/270 (71%), Positives = 222/270 (82%)

Query:     2 MSSAPDIADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLY 61
             MSS+PDIA ILD ++ELDRLRKEQE+VL+EINKMHKKL  TPE++EKPGD SL+KLK+LY
Sbjct:     1 MSSSPDIAGILDNTKELDRLRKEQEEVLVEINKMHKKLQATPEIVEKPGDISLSKLKNLY 60

Query:    62 IQAKELSENEVHVSNLLVGQLDALLPSGAMGQQRRRIEGGDQKRKRMKNDSDISRLSPSM 121
             IQAKELSE+EV VSN+L+ QLD+LLPSG  GQQRR++EG +QKRKRMK D+D++R+SPSM
Sbjct:    61 IQAKELSESEVTVSNILLTQLDSLLPSGPTGQQRRKLEGNEQKRKRMKVDTDVTRVSPSM 120

Query:   122 RNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLXXXXXXXXXXXVQ 181
             RNQ++  ASLKGEQVAARVTAE+A+KDEWFVVKV+HFDRETKE EVL            Q
Sbjct:   121 RNQIEAYASLKGEQVAARVTAEDAEKDEWFVVKVIHFDRETKEVEVLDEEPGDDEEGGGQ 180

Query:   182 RKYKLHMSFIIPFPKRND-SSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTXXXXX 240
             R YKL MS I+PFPKRND SS  EF PG+HVLAVYPGTTALYKATV+STPRKRK+     
Sbjct:   181 RTYKLSMSCILPFPKRNDPSSTQEFIPGKHVLAVYPGTTALYKATVISTPRKRKSDEYLL 240

Query:   241 XXXXXXXXGALPQRTVPFHNVVPLPEGHRQ 270
                     GALPQRTVPFH VV LPEGHRQ
Sbjct:   241 EFDDDEEDGALPQRTVPFHKVVALPEGHRQ 270
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0009651 "response to salt stress" evidence=IMP
TAIR|locus:2168793 SGF29b "AT5G40550" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q96ES7 CCDC101 "SAGA-associated factor 29 homolog" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1922815 Ccdc101 "coiled-coil domain containing 101" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1310609 Ccdc101 "coiled-coil domain containing 101" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZL38 CCDC101 "SAGA-associated factor 29 homolog" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0272054 DDB_G0272054 "DUF1325 family protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|E1BN74 E1BN74 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

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 ?
Query270
pfam07039130 pfam07039, DUF1325, SGF29 tudor-like domain 2e-47
PRK05729874 PRK05729, valS, valyl-tRNA synthetase; Reviewed 0.003
>gnl|CDD|219277 pfam07039, DUF1325, SGF29 tudor-like domain Back     alignment and domain information 
 Score =  154 bits (390), Expect = 2e-47
 Identities = 53/138 (38%), Positives = 79/138 (57%), Gaps = 11/138 (7%)

Query: 132 KGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFI 191
            G++VAA+V   + +++EW + +V+ +  +T  +EV D +P +      +++YKL    +
Sbjct: 1   PGDEVAAKVKKGD-EEEEWILAEVISYSSDTNRYEVQDPDPEE------KKRYKLSRKDL 53

Query: 192 IPFPKRND---SSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDEED 248
           IP PK  +   S    FP G  VLA+YP TT  Y+A V S P KRK+D+Y L F+DDE+ 
Sbjct: 54  IPLPKTANPETSPHALFPKGTIVLALYPQTTCFYRAIVHSPP-KRKSDEYRLRFEDDEDA 112

Query: 249 GALPQRTVPFHNVVPLPE 266
              P R VP   VV  P 
Sbjct: 113 DGYPPREVPQRYVVAFPG 130

This domain is found in the yeast protein SAGA-associated factor 29. This domain is related to members of the Tudor domain superfamily such as pfam05641. The SAGA complex is involved in RNA polymerase II-dependent transcriptional regulation. The membership of the tudor domain superfamily suggests this domain may bind to RNA. Length = 130
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 270
KOG3038264 consensus Histone acetyltransferase SAGA associate 100.0
PF07039130 DUF1325: SGF29 tudor-like domain; InterPro: IPR010 100.0
PF15057124 DUF4537: Domain of unknown function (DUF4537) 98.03
PF0946555 LBR_tudor: Lamin-B receptor of TUDOR domain; Inter 97.89
smart0033357 TUDOR Tudor domain. Domain of unknown function pre 96.96
cd0450848 TUDOR Tudor domains are found in many eukaryotic o 96.9
KOG3038264 consensus Histone acetyltransferase SAGA associate 96.36
smart0074361 Agenet Tudor-like domain present in plant sequence 96.09
smart0074361 Agenet Tudor-like domain present in plant sequence 95.69
PF15057124 DUF4537: Domain of unknown function (DUF4537) 95.28
PF1171755 Tudor-knot: RNA binding activity-knot of a chromod 94.08
PF0564168 Agenet: Agenet domain; InterPro: IPR008395 This do 93.81
PF06003 264 SMN: Survival motor neuron protein (SMN); InterPro 93.68
smart0033357 TUDOR Tudor domain. Domain of unknown function pre 92.11
PF09038122 53-BP1_Tudor: Tumour suppressor p53-binding protei 91.42
PF09267114 Dict-STAT-coil: Dictyostelium STAT, coiled coil; I 86.57
PF1130275 DUF3104: Protein of unknown function (DUF3104); In 86.09
cd0516287 PWWP The PWWP domain, named for a conserved Pro-Tr 85.28
PF0946555 LBR_tudor: Lamin-B receptor of TUDOR domain; Inter 83.91
PF08605131 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; I 83.79
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only] Back     alignment and domain information 
Probab=100.00  E-value=6.4e-50  Score=361.31  Aligned_cols=255  Identities=44%  Similarity=0.657  Sum_probs=190.8

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCCcccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 024272            9 ADILDKSRELDRLRKEQEDVLLEINKMHKKLHNTPEVIEKPGDNSLTKLKSLYIQAKELSENEVHVSNLLVGQLDALLPS   88 (270)
Q Consensus         9 ~~i~~~l~el~~lr~~~e~~l~~I~k~h~k~~~~~e~~~k~~~~~~~kL~~lY~~a~~~ae~E~~~~~~~~~~i~~l~~~   88 (270)
                      .++++.-.|+++||..++.++..||++|.+.+..++..++...-....++.||.+++..++.+.++...++..+...++.
T Consensus         2 ~~~~~~~~e~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~s~~~~k~l~~~~~~~~~~~~~v~e~l~~~~~~~~~~   81 (264)
T KOG3038|consen    2 VGILENTVELDRLREDQEEVIVKINEMQKKEQAIPEIVEKPGDISLNELKTLYEQVKNLSEEEVNVSEILITQLDLGRPE   81 (264)
T ss_pred             cccchhhHHHHHHHHhhhhcchhhhHHHHHHhhcchhhhhhhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHhcccC
Confidence            35778889999999999999999999999999877777777777778999999999999999999988888777766654


Q ss_pred             Ccccchhhhhc--cCchhhhcccCCCCCCCCCccccccc---cccccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCC
Q 024272           89 GAMGQQRRRIE--GGDQKRKRMKNDSDISRLSPSMRNQL---DTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETK  163 (270)
Q Consensus        89 ~~~~~~~r~~~--~~~~~rk~~r~~~~~s~l~~~~~~~~---~~~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~  163 (270)
                      ++....+|+-.  +..++.+.+...+.-++..+.+..+.   ...++.+|++|||++++.+. +++||||+|++++++++
T Consensus        82 ~~~~~~~r~~~~el~k~~~~~lp~~~~~~~~~p~~~gaip~~~~~~~~~gd~VAa~v~~~~~-dg~WIlaeVv~~~~~~~  160 (264)
T KOG3038|consen   82 GPTGQMRRGVLMELLKQKAMTLPLWIGKPGKPPPLCGAIPAQGDYVLLKGDEVAARVKAVSE-DGDWILAEVVKVSSETR  160 (264)
T ss_pred             CccchhhhhhhhhHHhhhccccccccCCCCCCCcccccccccCCccccCCceeeeeeeeccC-CCCEEEEEEEEEecCCc
Confidence            44332222222  24455555543333333344444332   24788999999999987553 46799999999999875


Q ss_pred             eEEEecCCCCC--CCCCcceeEEEeecCceeecCCCCCCCCCCCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEE
Q 024272          164 EFEVLDEEPGD--DEEGGVQRKYKLHMSFIIPFPKRNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLE  241 (270)
Q Consensus       164 rYeV~D~dp~d--d~e~~~~~~~~l~~~~IIPLP~~~~~~~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~  241 (270)
                       |||+|+||+.  |+.+.+++.|++++..++|+|.    ..+.|++|+.|||+||+|||||+|+||++|++.. ++|.|+
T Consensus       161 -ye~ev~D~Epk~d~~g~r~~~yklp~~~~~p~p~----p~~~fpp~~~VLA~YP~TTcFY~aiVh~tp~d~s-~~y~vl  234 (264)
T KOG3038|consen  161 -YEFEVVDPEPKKDEVGNRGQLYKLPRWKLNPIPP----PTALFPPGTIVLAVYPGTTCFYKAIVHSTPRDGS-CDYYVL  234 (264)
T ss_pred             -eEeEecCCCccccccccccceecccHhhcCCCCC----CccCCCCCCEEEEEcCCcceeeeeEeecCCCCCC-Ccceee
Confidence             7777665422  3333224455555555555553    3567999999999999999999999999997655 556655


Q ss_pred             ecC-CCCCCCCCcccccCceEeeCCCCCCC
Q 024272          242 FDD-DEEDGALPQRTVPFHNVVPLPEGHRQ  270 (270)
Q Consensus       242 FeD-d~~~G~~P~~~Vp~ryVv~~p~~~~~  270 (270)
                      |+| ++++|++|++.|++||||+||++|+|
T Consensus       235 ffD~~ee~g~~pp~~V~~ryVva~~e~~~~  264 (264)
T KOG3038|consen  235 FFDDEEEDGVSPPTEVARRYVVAFPEGHKQ  264 (264)
T ss_pred             eecCcccccCCCCceeeeEEEEecCcccCC
Confidence            555 57999999999999999999999986

>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes Back     alignment and domain information
>PF15057 DUF4537: Domain of unknown function (DUF4537) Back     alignment and domain information
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane Back     alignment and domain information
>smart00333 TUDOR Tudor domain Back     alignment and domain information
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains Back     alignment and domain information
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only] Back     alignment and domain information
>smart00743 Agenet Tudor-like domain present in plant sequences Back     alignment and domain information
>smart00743 Agenet Tudor-like domain present in plant sequences Back     alignment and domain information
>PF15057 DUF4537: Domain of unknown function (DUF4537) Back     alignment and domain information
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F Back     alignment and domain information
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO [] Back     alignment and domain information
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins Back     alignment and domain information
>smart00333 TUDOR Tudor domain Back     alignment and domain information
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix Back     alignment and domain information
>PF09267 Dict-STAT-coil: Dictyostelium STAT, coiled coil; InterPro: IPR015347 The STAT protein (Signal Transducers and Activators of Transcription) family contains transcription factors that are specifically activated to regulate gene transcription when cells encounter cytokines and growth factors, hence they act as signal transducers in the cytoplasm and transcription activators in the nucleus [] Back     alignment and domain information
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria Back     alignment and domain information
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids Back     alignment and domain information
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane Back     alignment and domain information
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways 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 ?
Query270
3me9_A180 Crystal Structure Of Sgf29 In Complex With H3k4me3 2e-05
3lx7_A174 Crystal Structure Of A Novel Tudor Domain-Containin 2e-05
3mea_A180 Crystal Structure Of The Sgf29 In Complex With H3k4 3e-05
3mew_A159 Crystal Structure Of Novel Tudor Domain-Containing 3e-05
>pdb|3ME9|A Chain A, Crystal Structure Of Sgf29 In Complex With H3k4me3 Peptide Length = 180 Back     alignment and structure 
Iteration: 1

 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/104 (30%), Positives = 55/104 (52%), Gaps = 11/104 (10%)
Query: 133 GEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLXXXXXXXXXXXVQRKYKLHMSFII 192
           G++VAARV A + D ++W + +V+ +   T ++EV             + ++ L    +I
Sbjct: 46  GDKVAARVKAVDGD-EQWILAEVVSYSHATNKYEV------DDIDEEGKERHTLSRRRVI 98
Query: 193 PFP--KRNDSSIPE--FPPGRHVLAVYPGTTALYKATVVSTPRK 232
           P P  K N  + PE  F   + VLA+YP TT  Y+A + + P++
Sbjct: 99  PLPQWKANPETDPEALFQKEQLVLALYPQTTCFYRALIHAPPQR 142
>pdb|3LX7|A Chain A, Crystal Structure Of A Novel Tudor Domain-Containing Protein Sgf29 Length = 174 Back     alignment and structure
>pdb|3MEA|A Chain A, Crystal Structure Of The Sgf29 In Complex With H3k4me3 Length = 180 Back     alignment and structure
>pdb|3MEW|A Chain A, Crystal Structure Of Novel Tudor Domain-Containing Protein Sgf29 Length = 159 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 ?
Query270
3mea_A180 SAGA-associated factor 29 homolog; structural geno 2e-38
3mp6_A522 MBP, SGF29, maltose-binding periplasmic protein, l 6e-15
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-04
>3mea_A SAGA-associated factor 29 homolog; structural genomics consortium, SGC, nucleus, transcription, transcription regulation, chromosomal protein, DNA-binding; HET: M3L; 1.26A {Homo sapiens} PDB: 3meu_A* 3met_A* 3me9_A* 3mev_A* 3lx7_A 3mew_A Length = 180 Back     alignment and structure
 Score =  132 bits (332), Expect = 2e-38
 Identities = 42/140 (30%), Positives = 67/140 (47%), Gaps = 13/140 (9%)

Query: 132 KGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFI 191
            G++VAARV A + D ++W + +V+ +   T ++EV D +         + ++ L    +
Sbjct: 47  PGDKVAARVKAVDGD-EQWILAEVVSYSHATNKYEVDDIDEEG------KERHTLSRRRV 99

Query: 192 IPFPK----RNDSSIPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDDE- 246
           IP P+            F   + VLA+YP TT  Y+A + + P +R  DDY + F+D   
Sbjct: 100 IPLPQWKANPETDPEALFQKEQLVLALYPQTTCFYRALIHA-PPQRPQDDYSVLFEDTSY 158

Query: 247 EDGALPQRTVPFHNVVPLPE 266
            DG  P   V    VV   E
Sbjct: 159 ADGYSPPLNVAQRYVVACKE 178
>3mp6_A MBP, SGF29, maltose-binding periplasmic protein, linker, SAGA associated factor 29; histone, tudor domain, histone binding protei; HET: MLY MAL; 1.48A {Escherichia coli} PDB: 3mp1_A* 3mp8_A* Length = 522 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 ?
Query270
3mea_A180 SAGA-associated factor 29 homolog; structural geno 100.0
3mp6_A522 MBP, SGF29, maltose-binding periplasmic protein, l 100.0
3dlm_A213 Histone-lysine N-methyltransferase setdb1; setdb1_ 97.83
2l8d_A66 Lamin-B receptor; DNA binding protein; NMR {Gallus 97.69
2dig_A68 Lamin-B receptor; tudor domain, integral nuclear e 97.64
2g3r_A123 Tumor suppressor P53-binding protein 1; tandem tud 97.59
2equ_A74 PHD finger protein 20-like 1; tudor domain, struct 97.35
3p8d_A67 Medulloblastoma antigen MU-MB-50.72; tudor domain, 97.29
1mhn_A59 SurviVal motor neuron protein; SMN, SMA, spinal mu 97.23
3qii_A85 PHD finger protein 20; tudor domain, structural ge 97.19
2e5p_A68 Protein PHF1, PHD finger protein 1; tudor domain, 97.19
4hcz_A58 PHD finger protein 1; protein-peptide complex, tud 97.12
4a4f_A64 SurviVal of motor neuron-related-splicing factor; 96.98
3s6w_A54 Tudor domain-containing protein 3; methylated argi 96.78
1g5v_A88 SurviVal motor neuron protein 1; mRNA processing, 96.76
2eqj_A66 Metal-response element-binding transcription facto 96.72
2ldm_A81 Uncharacterized protein; PHF20, tudor domain, epig 95.75
2d9t_A78 Tudor domain-containing protein 3; structural geno 96.55
3pnw_C77 Tudor domain-containing protein 3; FAB, structural 96.15
2xk0_A69 Polycomb protein PCL; transcription, aromatic CAGE 95.98
2fhd_A153 RAD9 homolog, DNA repair protein RHP9/CRB2; tamdem 95.87
2e5q_A63 PHD finger protein 19; tudor domain, isoform B, st 95.83
1ssf_A156 Transformation related protein 53 binding protein 95.62
2m0o_A79 PHD finger protein 1; tudor domain, H3K36ME3 bindi 95.53
4a4f_A64 SurviVal of motor neuron-related-splicing factor; 94.87
3fdr_A94 Tudor and KH domain-containing protein; TDRD2, str 94.67
1mhn_A59 SurviVal motor neuron protein; SMN, SMA, spinal mu 94.29
3ask_A226 E3 ubiquitin-protein ligase UHRF1; histone reader 94.03
3pnw_C77 Tudor domain-containing protein 3; FAB, structural 93.91
2diq_A110 Tudor and KH domain-containing protein; tudor doma 93.85
2eko_A87 Histone acetyltransferase htatip; chromo domain, h 93.05
2eqk_A85 Tudor domain-containing protein 4; structural geno 92.84
2d9t_A78 Tudor domain-containing protein 3; structural geno 92.82
2equ_A74 PHD finger protein 20-like 1; tudor domain, struct 92.74
3s6w_A54 Tudor domain-containing protein 3; methylated argi 92.46
2lcc_A76 AT-rich interactive domain-containing protein 4A; 92.36
1g5v_A88 SurviVal motor neuron protein 1; mRNA processing, 91.58
2qqr_A118 JMJC domain-containing histone demethylation prote 90.34
3ntk_A169 Maternal protein tudor; tudor domain, OB-fold, GER 90.26
1ssf_A156 Transformation related protein 53 binding protein 89.56
2wac_A 218 CG7008-PA; unknown function, tudor, beta-barrel, n 89.25
2g3r_A123 Tumor suppressor P53-binding protein 1; tandem tud 88.53
3m9q_A101 Protein MALE-specific lethal-3; chromodomain, MSL3 88.5
3fdr_A94 Tudor and KH domain-containing protein; TDRD2, str 88.09
2rnz_A94 Histone acetyltransferase ESA1; HAT, chromodomain, 87.78
3sd4_A69 PHD finger protein 20; tudor domain, transcription 87.7
3h8z_A128 FragIle X mental retardation syndrome-related Pro; 87.29
4b9w_A201 TDRD1, tudor domain-containing protein 1; replicat 87.19
3oa6_A110 MALE-specific lethal 3 homolog; chromodomain, MSL3 86.42
2lrq_A85 Protein MRG15, NUA4 complex subunit EAF3 homolog; 86.18
2f5k_A102 MORF-related gene 15 isoform 1; beta barrel, gene 86.06
4b9x_A226 TDRD1, tudor domain-containing protein 1; replicat 85.81
3m9p_A110 MALE-specific lethal 3 homolog; chromodomain, MSL3 85.51
2ro0_A92 Histone acetyltransferase ESA1; HAT, chromodomain, 85.04
2xdp_A123 Lysine-specific demethylase 4C; oxidoreductase, hi 84.4
2qqr_A118 JMJC domain-containing histone demethylation prote 84.11
3qii_A85 PHD finger protein 20; tudor domain, structural ge 84.09
4hcz_A58 PHD finger protein 1; protein-peptide complex, tud 83.72
3p8d_A67 Medulloblastoma antigen MU-MB-50.72; tudor domain, 82.19
1wgs_A133 MYST histone acetyltransferase 1; tudor domain, MY 81.47
2diq_A110 Tudor and KH domain-containing protein; tudor doma 80.6
2ldm_A81 Uncharacterized protein; PHF20, tudor domain, epig 80.08
>3mea_A SAGA-associated factor 29 homolog; structural genomics consortium, SGC, nucleus, transcription, transcription regulation, chromosomal protein, DNA-binding; HET: M3L; 1.26A {Homo sapiens} PDB: 3meu_A* 3met_A* 3me9_A* 3mev_A* 3lx7_A 3mew_A Back     alignment and structure
Probab=100.00  E-value=6.2e-48  Score=334.91  Aligned_cols=147  Identities=30%  Similarity=0.509  Sum_probs=121.0

Q ss_pred             CCCCCCccccccccccccCCCCeeEEeeccCCCCCCCEEEEEEEeEeCCCCeEEEecCCCCCCCCCcceeEEEeecCcee
Q 024272          113 DISRLSPSMRNQLDTCASLKGEQVAARVTAENADKDEWFVVKVMHFDRETKEFEVLDEEPGDDEEGGVQRKYKLHMSFII  192 (270)
Q Consensus       113 ~~s~l~~~~~~~~~~~~~~~G~~VAa~v~~~~~~~~~WILa~Vv~~~~~~~rYeV~D~dp~dd~e~~~~~~~~l~~~~II  192 (270)
                      .++.||.++. ..+...+++|++|||+++..+ ++++||||+|++|++++++|||+|+|+    ++  +++|++++++||
T Consensus        29 ~~p~lcGa~p-~~~~~~~~~G~~VAakvk~~~-~~~~WILa~Vv~~~~~~~rYeV~D~d~----eg--~~~~~~s~~~II  100 (180)
T 3mea_A           29 KPPPLCGAIP-ASGDYVARPGDKVAARVKAVD-GDEQWILAEVVSYSHATNKYEVDDIDE----EG--KERHTLSRRRVI  100 (180)
T ss_dssp             CCCTTBTTCC-CCTTCCCCTTCEEEEEEECCC---EEEEEEEEEEEETTTTEEEEEECCT----TC--CEEEEEEGGGEE
T ss_pred             CCCCcccccc-CCCCcccCCCCEEEEEcCCCC-CCccEEEEEEEEEcCCCCEEEEecCCC----CC--ceeEEeCHHHEE
Confidence            3455664443 245678999999999998643 357999999999999999999999964    23  568999999999


Q ss_pred             ecCCCCC--CC--CCCCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC-CCCCCCCcccccCceEeeCCCC
Q 024272          193 PFPKRND--SS--IPEFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD-EEDGALPQRTVPFHNVVPLPEG  267 (270)
Q Consensus       193 PLP~~~~--~~--~~~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd-~~~G~~P~~~Vp~ryVv~~p~~  267 (270)
                      |||++.+  ++  .+.|++|++||||||+|||||+|+|+++|+ +.+++|+|+|||| +++|++|++.||+||||+||++
T Consensus       101 PLP~~~a~p~t~~~~~f~~G~~VLAlYP~TT~FY~A~V~~~p~-~~~~~y~L~FEdde~~dG~sp~~~V~~RyVv~~ke~  179 (180)
T 3mea_A          101 PLPQWKANPETDPEALFQKEQLVLALYPQTTCFYRALIHAPPQ-RPQDDYSVLFEDTSYADGYSPPLNVAQRYVVACKEP  179 (180)
T ss_dssp             ECCSBBCCTTTCGGGSCCTTCEEEEECTTSSEEEEEEEEECCS-STTCCEEEEEBCTTSTTSBCCCEEECGGGEEEC---
T ss_pred             ECCCcCCCcccCccccCCCCCEEEEeCCCCceeeEEEEecCCC-CCCCcEEEEEcCCCccCCCCCCcEecceEEEccCCC
Confidence            9998753  44  456999999999999999999999999985 4568899999999 5899999999999999999997


Q ss_pred             C
Q 024272          268 H  268 (270)
Q Consensus       268 ~  268 (270)
                      +
T Consensus       180 ~  180 (180)
T 3mea_A          180 K  180 (180)
T ss_dssp             -
T ss_pred             C
Confidence            4
>3mp6_A MBP, SGF29, maltose-binding periplasmic protein, linker, SAGA associated factor 29; histone, tudor domain, histone binding protei; HET: MLY MAL; 1.48A {Escherichia coli} PDB: 3mp1_A* 3mp8_A* Back     alignment and structure
>3dlm_A Histone-lysine N-methyltransferase setdb1; setdb1_human, structural genomics, structural genomics consortium, SGC, alternative splicing; 1.77A {Homo sapiens} Back     alignment and structure
>2l8d_A Lamin-B receptor; DNA binding protein; NMR {Gallus gallus} Back     alignment and structure
>2dig_A Lamin-B receptor; tudor domain, integral nuclear envelope inner membrane protein, nuclear protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2g3r_A Tumor suppressor P53-binding protein 1; tandem tudor domains, cell cycle-transcription complex; 1.25A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2ig0_A* 3lgf_A* 3lgl_A* 3lh0_A* 1xni_A Back     alignment and structure
>2equ_A PHD finger protein 20-like 1; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3p8d_A Medulloblastoma antigen MU-MB-50.72; tudor domain, lysine-methylated P53 binding, histone binding binding; 2.00A {Homo sapiens} Back     alignment and structure
>1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy, RNA binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 PDB: 4a4e_A* 4a4g_A* Back     alignment and structure
>3qii_A PHD finger protein 20; tudor domain, structural genomics, structural GE consortium, SGC, transcription regulator; 2.30A {Homo sapiens} Back     alignment and structure
>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens} Back     alignment and structure
>4a4f_A SurviVal of motor neuron-related-splicing factor; RNA binding protein; HET: 2MR; NMR {Homo sapiens} PDB: 4a4h_A* Back     alignment and structure
>3s6w_A Tudor domain-containing protein 3; methylated arginine recognize, ISO-propanol, transcri; 1.78A {Homo sapiens} PDB: 3pmt_A* Back     alignment and structure
>1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation; NMR {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus} Back     alignment and structure
>2ldm_A Uncharacterized protein; PHF20, tudor domain, epigenetics, methylated P53, transcript factor, transcription-protein binding complex; HET: M2L; NMR {Homo sapiens} Back     alignment and structure
>2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.34.9.1 Back     alignment and structure
>3pnw_C Tudor domain-containing protein 3; FAB, structural genomics consortium, antibody, SGC, protein immune system complex; 2.05A {Homo sapiens} Back     alignment and structure
>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster} Back     alignment and structure
>2fhd_A RAD9 homolog, DNA repair protein RHP9/CRB2; tamdem tudor domains, cell cycle; HET: DNA MSE PO4; 2.40A {Schizosaccharomyces pombe} Back     alignment and structure
>2e5q_A PHD finger protein 19; tudor domain, isoform B, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1ssf_A Transformation related protein 53 binding protein 1; tudor domains, tandem, SH3-like fold, beta barrel, alpha- helix, cell cycle; NMR {Mus musculus} SCOP: b.34.9.1 b.34.9.1 Back     alignment and structure
>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens} Back     alignment and structure
>4a4f_A SurviVal of motor neuron-related-splicing factor; RNA binding protein; HET: 2MR; NMR {Homo sapiens} PDB: 4a4h_A* Back     alignment and structure
>3fdr_A Tudor and KH domain-containing protein; TDRD2, structural genomics, structural genomics consortium, SGC, alternative splicing, RNA-binding; 1.75A {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy, RNA binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 PDB: 4a4e_A* 4a4g_A* Back     alignment and structure
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules, epigenetic regulation, trimethylaion of lysine residue, ligase-DNA binding protein; HET: M3L; 2.90A {Homo sapiens} Back     alignment and structure
>3pnw_C Tudor domain-containing protein 3; FAB, structural genomics consortium, antibody, SGC, protein immune system complex; 2.05A {Homo sapiens} Back     alignment and structure
>2diq_A Tudor and KH domain-containing protein; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2eko_A Histone acetyltransferase htatip; chromo domain, histone tail, chromatin organization modifier, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2eqk_A Tudor domain-containing protein 4; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.34.9.1 Back     alignment and structure
>2equ_A PHD finger protein 20-like 1; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3s6w_A Tudor domain-containing protein 3; methylated arginine recognize, ISO-propanol, transcri; 1.78A {Homo sapiens} PDB: 3pmt_A* Back     alignment and structure
>2lcc_A AT-rich interactive domain-containing protein 4A; chromobarrel domain, RBBP1, transcription; NMR {Homo sapiens} Back     alignment and structure
>1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation; NMR {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A* Back     alignment and structure
>3ntk_A Maternal protein tudor; tudor domain, OB-fold, GERM cell formation, transcription; 1.80A {Drosophila melanogaster} PDB: 3nth_A* 3nti_A* Back     alignment and structure
>1ssf_A Transformation related protein 53 binding protein 1; tudor domains, tandem, SH3-like fold, beta barrel, alpha- helix, cell cycle; NMR {Mus musculus} SCOP: b.34.9.1 b.34.9.1 Back     alignment and structure
>2wac_A CG7008-PA; unknown function, tudor, beta-barrel, nuclease domain, tudor P100, SND1, methylated arginine, SDMA, splicing; 2.10A {Drosophila melanogaster} Back     alignment and structure
>2g3r_A Tumor suppressor P53-binding protein 1; tandem tudor domains, cell cycle-transcription complex; 1.25A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2ig0_A* 3lgf_A* 3lgl_A* 3lh0_A* 1xni_A Back     alignment and structure
>3m9q_A Protein MALE-specific lethal-3; chromodomain, MSL3, methyllysine recognition, aromatic CAGE, complex, transcription upregulation; 1.29A {Drosophila melanogaster} SCOP: b.34.13.0 Back     alignment and structure
>3fdr_A Tudor and KH domain-containing protein; TDRD2, structural genomics, structural genomics consortium, SGC, alternative splicing, RNA-binding; 1.75A {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2rnz_A Histone acetyltransferase ESA1; HAT, chromodomain, tudor domain, RNA binding, activator, chromatin regulator, transcription; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>3sd4_A PHD finger protein 20; tudor domain, transcription; 1.93A {Homo sapiens} PDB: 3q1j_A Back     alignment and structure
>3h8z_A FragIle X mental retardation syndrome-related Pro; tudor domains, FXR2, structura genomics, structural genomics consortium, SGC; 1.92A {Homo sapiens} PDB: 3o8v_A 3kuf_A 2bkd_N* Back     alignment and structure
>4b9w_A TDRD1, tudor domain-containing protein 1; replication; HET: 2MR; 2.10A {Mus musculus} Back     alignment and structure
>3oa6_A MALE-specific lethal 3 homolog; chromodomain, MSL3, histone H4 tail, DNA backbone recognitio methyllysine recognition, H4K20ME1; HET: DNA MLZ; 2.35A {Homo sapiens} PDB: 3ob9_A* Back     alignment and structure
>2lrq_A Protein MRG15, NUA4 complex subunit EAF3 homolog; epigenetics, LID complex, transcription; NMR {Drosophila melanogaster} Back     alignment and structure
>2f5k_A MORF-related gene 15 isoform 1; beta barrel, gene regulation; 2.20A {Homo sapiens} SCOP: b.34.13.3 PDB: 2efi_A Back     alignment and structure
>4b9x_A TDRD1, tudor domain-containing protein 1; replication; 2.80A {Mus musculus} Back     alignment and structure
>2ro0_A Histone acetyltransferase ESA1; HAT, chromodomain, tudor domain, RNA binding, activator, chromatin regulator, transcription; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens} Back     alignment and structure
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A* Back     alignment and structure
>3qii_A PHD finger protein 20; tudor domain, structural genomics, structural GE consortium, SGC, transcription regulator; 2.30A {Homo sapiens} Back     alignment and structure
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens} Back     alignment and structure
>3p8d_A Medulloblastoma antigen MU-MB-50.72; tudor domain, lysine-methylated P53 binding, histone binding binding; 2.00A {Homo sapiens} Back     alignment and structure
>1wgs_A MYST histone acetyltransferase 1; tudor domain, MYST family, struct genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: b.34.13.3 Back     alignment and structure
>2diq_A Tudor and KH domain-containing protein; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.9.1 Back     alignment and structure
>2ldm_A Uncharacterized protein; PHF20, tudor domain, epigenetics, methylated P53, transcript factor, transcription-protein binding complex; HET: M2L; NMR {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query270
d2diga155 Lamin-b receptor {Human (Homo sapiens) [TaxId: 960 97.16
d2d9ta160 Tudor domain-containing protein 3, TDRD3 {Mouse (M 97.05
d1mhna_59 Survival motor neuron protein 1, smn {Human (Homo 97.01
d2d9ta160 Tudor domain-containing protein 3, TDRD3 {Mouse (M 94.46
d2diqa197 Tudor and KH domain-containing protein TDRKH {Huma 93.76
d2g3ra153 p53-binding protein 1, 53BP1 {Human (Homo sapiens) 91.93
d1mhna_59 Survival motor neuron protein 1, smn {Human (Homo 90.54
d2f5ka183 Mortality factor 4-like protein 1, MRG15 {Human (H 90.14
d2diqa197 Tudor and KH domain-containing protein TDRKH {Huma 87.18
d2hqxa190 P100 co-activator, SND1 {Human (Homo sapiens) [Tax 85.95
d2hqxa190 P100 co-activator, SND1 {Human (Homo sapiens) [Tax 85.78
d1h3za_108 Hypothetical protein SPBC215.07c {Fission yeast (S 84.29
d2nlua1100 Hepatoma-derived growth factor, HDGF {Human (Homo 80.25
>d2diga1 b.34.9.1 (A:8-62) Lamin-b receptor {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All beta proteins
fold: SH3-like barrel
superfamily: Tudor/PWWP/MBT
family: Tudor domain
domain: Lamin-b receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.00019  Score=48.47  Aligned_cols=40  Identities=23%  Similarity=0.560  Sum_probs=35.8

Q ss_pred             CCCCCCeEEEeCCCCCccccEEEecCCCCCCCCCeEEEecCC
Q 024272          204 EFPPGRHVLAVYPGTTALYKATVVSTPRKRKTDDYLLEFDDD  245 (270)
Q Consensus       204 ~f~kg~~VLAlYP~TT~FY~A~V~~~p~~~~~~~Y~L~FeDd  245 (270)
                      .|..|+.||+.||+.+-+|.-.|.+-  +.++..|.|+|.|-
T Consensus         5 k~~~Ge~vm~RwPgSsLyyev~vls~--d~~~~~YtV~ykDG   44 (55)
T d2diga1           5 KFADGEVVRGRWPGSSLYYEVEILSH--DSTSQLYTVKYKDG   44 (55)
T ss_dssp             SSCSSCEEEEECTTTCCEEEEEEEEE--ETTTTEEEEECTTS
T ss_pred             cccCCcEEEeecCCCceEEEEEEEee--cCcceEEEEEecCC
Confidence            59999999999999999999999976  45677899999774
>d2d9ta1 b.34.9.1 (A:8-67) Tudor domain-containing protein 3, TDRD3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1mhna_ b.34.9.1 (A:) Survival motor neuron protein 1, smn {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2d9ta1 b.34.9.1 (A:8-67) Tudor domain-containing protein 3, TDRD3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2diqa1 b.34.9.1 (A:8-104) Tudor and KH domain-containing protein TDRKH {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2g3ra1 b.34.9.1 (A:1485-1537) p53-binding protein 1, 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mhna_ b.34.9.1 (A:) Survival motor neuron protein 1, smn {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2f5ka1 b.34.13.3 (A:6-88) Mortality factor 4-like protein 1, MRG15 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2diqa1 b.34.9.1 (A:8-104) Tudor and KH domain-containing protein TDRKH {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hqxa1 b.34.9.1 (A:8-97) P100 co-activator, SND1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hqxa1 b.34.9.1 (A:8-97) P100 co-activator, SND1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1h3za_ b.34.9.2 (A:) Hypothetical protein SPBC215.07c {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Back     information, alignment and structure
>d2nlua1 b.34.9.2 (A:1-100) Hepatoma-derived growth factor, HDGF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure