Citrus Sinensis ID: 040695

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------17
Protein Sequence
MQDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIFSTKSQPPPYDDNSSSKATSANSFEPHVGGNTSSTRPQP
Secondary Structure (PSIPRED)
cccccccccccccccccccccEEEEEHHHHHccccccccccccccccccEEEEccccHHHccccccEEEccccccccccccccccccHHHHHHHHHHHccccHHHHHHHccccccccccccccccHHHHHHcccccccccccccccHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHcccccccccccccccEHHHHHHHHHHHccccccccccccccccEEEEccccHHHHccccccEEcccccccccccccccccccHHHHHHHHHHccccHHHHHHHcccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mqdasqcsetglhslenkrkPLVLKELKKLWEkidpnlpwkkgeynetntlllddspykalcnpahtaifpypydyrnaedsslghggnlRVYLEGLADAENVQEYVrqnpfgqeaiternpswgfyskifstksqpppyddnssskatsansfephvggntsstrpqp
Flexible Loop (DISEMBL)
mqdasqcsetglhslenkrkplVLKELKKLwekidpnlpwkkgeyNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQnpfgqeaiternpSWGFYSKIFSTKSQPPPYDDNSSSkatsansfephvggntsstrpqp
Low Complexity Region (SEG)
MQDASQCSETGLHSLENkrkplvlkelkklwekIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIFSTKSQPPPYDDNSSSKATSANSFEPHVGGNTSSTRPQP
Disordered region (IsUnstruct)
*********************LVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIF**************************************
Disordered Region (DISOPRED)
M***SQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPW*KGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKI***************************************
Disordered Region (DISEMBL)
**********GLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIFSTK*****************NSFEP*************
Disordered Region (DISPRO)
*****QCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIFSTK***********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MQDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSWGFYSKIFSTKSQPPPYDDNSSSKATSANSFEPHVGGNTSSTRPQP
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	169
255547163	576	conserved hypothetical protein [Ricinus	0.781	0.229	0.681	8e-49
449441105	593	PREDICTED: uncharacterized protein LOC10	0.792	0.225	0.634	2e-46
224130020	285	predicted protein [Populus trichocarpa]	0.786	0.466	0.676	2e-46
225456581	652	PREDICTED: uncharacterized protein LOC10	0.769	0.199	0.661	4e-46
224080213	209	predicted protein [Populus trichocarpa]	0.739	0.598	0.656	2e-45
356519138	689	PREDICTED: uncharacterized protein LOC10	0.763	0.187	0.635	9e-45
356507060	672	PREDICTED: uncharacterized protein LOC10	0.763	0.191	0.643	3e-44
449438961	142	PREDICTED: uncharacterized protein LOC10	0.775	0.922	0.628	5e-44
218198970	797	hypothetical protein OsI_24622 [Oryza sa	0.798	0.169	0.614	1e-43
357111771	266	PREDICTED: uncharacterized FCP1 homology	0.757	0.481	0.656	2e-43

>gi|255547163|ref|XP_002514639.1| conserved hypothetical protein [Ricinus communis] gi|223546243|gb|EEF47745.1| conserved hypothetical protein [Ricinus communis]

 Score =  198 bits (503), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 90/132 (68%), Positives = 108/132 (81%)

Query: 5   SQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNP 64
           S C+ TG  ++EN  KPLVLKELKKLW+K DP LPW KGEY+E+NTLLLDDSPYKAL NP
Sbjct: 432 SHCTNTGFTTVENNSKPLVLKELKKLWDKFDPRLPWNKGEYDESNTLLLDDSPYKALRNP 491

Query: 65  AHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSW 124
            HTAIFP+ Y Y++A DSSLG GG+LRVYLE LA+A+NVQ++V Q+PFGQ AIT+ NPSW
Sbjct: 492 PHTAIFPHTYCYKDAGDSSLGPGGDLRVYLERLAEAQNVQDFVAQHPFGQRAITKSNPSW 551

Query: 125 GFYSKIFSTKSQ 136
           GFY K+    S+
Sbjct: 552 GFYKKLLGVASR 563

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441105|ref|XP_004138324.1| PREDICTED: uncharacterized protein LOC101219396 [Cucumis sativus]

 Score =  190 bits (482), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 85/134 (63%), Positives = 112/134 (83%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D S C+ T  ++LEN +KPLVLKELKK+WE ++PNLPWKKGE++E+NTLLLDDSPYKAL 
Sbjct: 459 DQSHCTPTRFNTLENNKKPLVLKELKKIWENLEPNLPWKKGEFHESNTLLLDDSPYKALR 518

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NPA+TA+FP  Y Y++++D+SLG GG+LR YLEG+  AENV++YV QNPFGQ+AI+E +P
Sbjct: 519 NPANTAVFPTSYRYKDSDDTSLGPGGDLRTYLEGVYAAENVKKYVEQNPFGQKAISESSP 578

Query: 123 SWGFYSKIFSTKSQ 136
           SW FY KI  ++ +
Sbjct: 579 SWKFYRKIIESERE 592

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130020|ref|XP_002328634.1| predicted protein [Populus trichocarpa] gi|222838810|gb|EEE77161.1| predicted protein [Populus trichocarpa]

 Score =  189 bits (481), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 90/133 (67%), Positives = 106/133 (79%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D S C++TG  ++EN+ KPL LKELKK+WE ++  L   KGEY+E+NTLLLDDSPYKALC
Sbjct: 138 DQSHCTDTGFTTVENRSKPLFLKELKKIWEYLESTLQLNKGEYDESNTLLLDDSPYKALC 197

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NP HTAIFP  Y YR+  DSSLG  G+LRVYLE LA+AENVQEYV Q+PFGQ AITE +P
Sbjct: 198 NPVHTAIFPPSYGYRDLADSSLGPEGDLRVYLERLAEAENVQEYVAQHPFGQRAITESDP 257

Query: 123 SWGFYSKIFSTKS 135
           SWGFYS+I S  S
Sbjct: 258 SWGFYSRIASADS 270

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456581|ref|XP_002265588.1| PREDICTED: uncharacterized protein LOC100263840 [Vitis vinifera] gi|297734071|emb|CBI15318.3| unnamed protein product [Vitis vinifera]

 Score =  189 bits (480), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 86/130 (66%), Positives = 108/130 (83%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D SQC+ TG  + EN +KPL+LKEL+KLWEK +PNL W+KGEYNE+NTLLLDDSP KAL 
Sbjct: 505 DQSQCTNTGFTTHENPQKPLLLKELRKLWEKHEPNLRWEKGEYNESNTLLLDDSPCKALL 564

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NPA+TAIFPY Y+Y++ +D+ L  GG LRVYLEGLA A+NVQ+YV+QNPFGQ AIT+ + 
Sbjct: 565 NPAYTAIFPYSYEYKDVKDNMLATGGKLRVYLEGLAMADNVQKYVKQNPFGQRAITKSSA 624

Query: 123 SWGFYSKIFS 132
           +W +YSK+ S
Sbjct: 625 TWTYYSKVVS 634

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224080213|ref|XP_002306055.1| predicted protein [Populus trichocarpa] gi|222849019|gb|EEE86566.1| predicted protein [Populus trichocarpa]

 Score =  186 bits (473), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 82/125 (65%), Positives = 106/125 (84%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D S+C+ T   +LENK KPLV KEL+++WEK D  LPW+KG+Y+E+NT+LLDDSPYKAL 
Sbjct: 85  DLSKCTATQFCTLENKHKPLVFKELRRIWEKDDSELPWEKGDYSESNTMLLDDSPYKALL 144

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NPAHTAIFPYPY ++N+ D+SLG GG+LRVYLE LA A+NVQE+V  +PFGQ AI++R+P
Sbjct: 145 NPAHTAIFPYPYQFQNSNDNSLGAGGDLRVYLEELAAADNVQEFVEHHPFGQRAISQRSP 204

Query: 123 SWGFY 127
           +WGF+
Sbjct: 205 NWGFF 209

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519138|ref|XP_003528231.1| PREDICTED: uncharacterized protein LOC100806707 [Glycine max]

 Score =  184 bits (468), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 82/129 (63%), Positives = 102/129 (79%)

Query: 5   SQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNP 64
           S C++T   ++EN  KPLVLKE++KLWEK +P+LPW+KGE+NE+NTLLLDDSPYKAL NP
Sbjct: 548 SHCTKTKFSTVENIDKPLVLKEIRKLWEKAEPDLPWEKGEFNESNTLLLDDSPYKALMNP 607

Query: 65  AHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSW 124
            H+AIFPY Y Y +  DS LG  G+LRVYL+GLA AENVQ YV +NPFGQ  I E NPSW
Sbjct: 608 RHSAIFPYSYRYYHTRDSELGREGDLRVYLKGLAKAENVQNYVSENPFGQRPIREANPSW 667

Query: 125 GFYSKIFST 133
           G+Y ++  +
Sbjct: 668 GYYRRVIES 676

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507060|ref|XP_003522289.1| PREDICTED: uncharacterized protein LOC100786318 [Glycine max]

 Score =  182 bits (463), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 83/129 (64%), Positives = 101/129 (78%)

Query: 5   SQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNP 64
           S C+ET   ++EN  KPLVLKE+ KLWEK +P+LPW+KGE+NE+NTLLLDDSPYKAL NP
Sbjct: 531 SHCTETKFTTVENIEKPLVLKEITKLWEKEEPDLPWEKGEFNESNTLLLDDSPYKALMNP 590

Query: 65  AHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNPSW 124
            H+AIFPY Y Y +  DS LG GG+LRVYL+GLA AENVQ YV +NPFGQ  I E NPSW
Sbjct: 591 RHSAIFPYSYRYYHTRDSELGPGGDLRVYLKGLAKAENVQNYVSENPFGQRPIREANPSW 650

Query: 125 GFYSKIFST 133
            +Y ++  +
Sbjct: 651 VYYRRVIES 659

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438961|ref|XP_004137256.1| PREDICTED: uncharacterized protein LOC101216785 [Cucumis sativus] gi|449476514|ref|XP_004154758.1| PREDICTED: uncharacterized LOC101216785 [Cucumis sativus]

 Score =  182 bits (461), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 83/132 (62%), Positives = 106/132 (80%), Gaps = 1/132 (0%)

Query: 1   MQDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKA 60
           MQD S C+ +   +LENK K +V K+L++LWEK DPNLPWK+GEYNE+NTLLLDDSPYK+
Sbjct: 1   MQDLSHCAASKFKTLENKHKRVVFKQLRRLWEKQDPNLPWKEGEYNESNTLLLDDSPYKS 60

Query: 61  LCNPAHTAIFPYPYDYRN-AEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITE 119
           L NPAH+A+FPY Y + + A+D+SLG  G+LR+YLEGLA+AENVQ+YV QNPFGQ  I+E
Sbjct: 61  LLNPAHSAVFPYSYTFLDEAKDTSLGTSGDLRIYLEGLAEAENVQKYVGQNPFGQSPISE 120

Query: 120 RNPSWGFYSKIF 131
            + SW FY  + 
Sbjct: 121 GSASWDFYHMVL 132

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218198970|gb|EEC81397.1| hypothetical protein OsI_24622 [Oryza sativa Indica Group] gi|222636311|gb|EEE66443.1| hypothetical protein OsJ_22823 [Oryza sativa Japonica Group]

 Score =  181 bits (458), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 83/135 (61%), Positives = 105/135 (77%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D S+C+ TG  +LENK KPLVLKELKKLW K DP+LPW++ E++ +NTLL+DDSPYKAL 
Sbjct: 661 DMSKCTGTGFKTLENKNKPLVLKELKKLWNKEDPDLPWEQEEFSPSNTLLVDDSPYKALG 720

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NP HTAIFP+PY Y N +D SLG GG+LRVYLE LA A++VQ YV+++PFGQ +IT+ + 
Sbjct: 721 NPPHTAIFPHPYSYLNKKDDSLGPGGDLRVYLENLATADDVQRYVQEHPFGQPSITKSDR 780

Query: 123 SWGFYSKIFSTKSQP 137
            W FY KI     +P
Sbjct: 781 HWNFYVKILDKLEKP 795

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357111771|ref|XP_003557684.1| PREDICTED: uncharacterized FCP1 homology domain-containing protein C1271.03c-like [Brachypodium distachyon]

 Score =  180 bits (457), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 84/128 (65%), Positives = 107/128 (83%)

Query: 3   DASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
           D S+C+ TG  +LENK+KPLVLKELKKLW K +P+LPW++GE++ +NTLL+DDSPYKAL 
Sbjct: 130 DLSKCTTTGYKTLENKQKPLVLKELKKLWNKEEPDLPWEQGEFSPSNTLLVDDSPYKALR 189

Query: 63  NPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQNPFGQEAITERNP 122
           NP HTAIFP+PY YRN +D+SLG GG+LRVYLE LA A++VQ YV+++PFGQ  ITE + 
Sbjct: 190 NPPHTAIFPHPYSYRNKKDNSLGPGGDLRVYLENLAAADDVQHYVQEHPFGQPFITESDQ 249

Query: 123 SWGFYSKI 130
           +W FY KI
Sbjct: 250 NWNFYVKI 257

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	169
TAIR|locus:2044862	249	AT2G36540 "AT2G36540" [Arabido	0.520	0.353	0.449	1.2e-19
TAIR|locus:2091823	465	AT3G29760 "AT3G29760" [Arabido	0.396	0.144	0.507	5e-12

TAIR|locus:2044862 AT2G36540 "AT2G36540" [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 1.2e-19, Sum P(2) = 1.2e-19
 Identities = 40/89 (44%), Positives = 57/89 (64%)

Query:    42 KGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAE 101
             KG ++ +NT+ +DD PYKAL NP +T +FP  YD  N +D+ L   G L  YLEGLA + 
Sbjct:   157 KG-FSASNTIFIDDEPYKALRNPDNTGLFPMSYDASNIKDNLLDPEGELCSYLEGLAKSS 215

Query:   102 NVQEYVRQNPFGQEAITERNPSWGFYSKI 130
             +VQ Y++ + FG+  I   +P W FYS +
Sbjct:   216 DVQAYIKVHSFGRPMIDSSHPDWSFYSNV 244

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2091823 AT3G29760 "AT3G29760" [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 5.0e-12, P = 5.0e-12
 Identities = 34/67 (50%), Positives = 40/67 (59%)

Query:     3 DASQCSETGLHSLENXXXXXXXXXXXXXXXXIDPNLPWKKGEYNETNTLLLDDSPYKALC 62
             D S C+ T + SLEN                 DP LPWK G+YNETNT+LLDDSPYKAL 
Sbjct:   388 DMSYCATTSVGSLENRYKYVVFKDLNRLWEKHDPRLPWKMGDYNETNTVLLDDSPYKALL 447

Query:    63 NPAHTAI 69
             NP ++ I
Sbjct:   448 NPQYSLI 454


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.309   0.129   0.390    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      169       153   0.00081  105 3  11 23  0.46    32
                                                     30  0.41    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  586 (62 KB)
  Total size of DFA:  156 KB (2093 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  16.64u 0.10s 16.74t   Elapsed:  00:00:01
  Total cpu time:  16.64u 0.10s 16.74t   Elapsed:  00:00:01
  Start:  Sat May 11 07:36:23 2013   End:  Sat May 11 07:36:24 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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

Your Input: GSVIVG00000035001 SubName- Full=Chromosome chr17 scaffold_101, whole genome shotgun sequence; (652 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	169
TIGR02245	195	HAD_IIID1 HAD-superfamily subfamily IIID hydrolase	99.7
PF03031	159	NIF: NLI interacting factor-like phosphatase; Inte	99.06
KOG1605	262	consensus TFIIF-interacting CTD phosphatase, inclu	98.95
TIGR02251	162	HIF-SF_euk Dullard-like phosphatase domain. This d	98.86
smart00577	148	CPDc catalytic domain of ctd-like phosphatases.	97.37
TIGR02250	156	FCP1_euk FCP1-like phosphatase, phosphatase domain	96.2
COG5190	390	FCP1 TFIIF-interacting CTD phosphatases, including	91.63
KOG2832	393	consensus TFIIF-interacting CTD phosphatase, inclu	86.09

>TIGR02245 HAD_IIID1 HAD-superfamily subfamily IIID hydrolase, TIGR02245

Probab=99.70  E-value=1.3e-17  Score=137.86  Aligned_cols=95  Identities=21%  Similarity=0.334  Sum_probs=72.8

Q ss_pred             CCccccCcccccCCCCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcC
Q 040695            5 SQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSL   84 (169)
Q Consensus         5 ~~CT~~g~~t~e~~~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L   84 (169)
                      ++|...++.+  .+.++.++|+|+.||++..       +.|+++|||||||+|+|+++|| .|+|.+++|.++..++...
T Consensus        96 d~~~~~~~~~--~~~g~~~vKdL~~lw~~l~-------~~~~~~ntiiVDd~p~~~~~~P-~N~i~I~~f~~~~~~~~~D  165 (195)
T TIGR02245        96 DSTAMITVHT--PRRGKFDVKPLGVIWALLP-------EFYSMKNTIMFDDLRRNFLMNP-QNGLKIRPFKKAHANRGTD  165 (195)
T ss_pred             ccccceeeEe--eccCcEEEeecHHhhhhcc-------cCCCcccEEEEeCCHHHHhcCC-CCccccCCccccCCCCccc
Confidence            3454333333  2345678999999998543       3589999999999999999999 8899999999864222222


Q ss_pred             CCcchHHHHHHHhhcCcChHHHHhh
Q 040695           85 GHGGNLRVYLEGLADAENVQEYVRQ  109 (169)
Q Consensus        85 ~~~g~Lr~YLe~La~a~dV~~yVr~  109 (169)
                      .++.+|..||++||.++||+.+...
T Consensus       166 ~eL~~L~~yL~~la~~~Dvr~~~~~  190 (195)
T TIGR02245       166 QELLKLTQYLKTIAELEDFSSLDHK  190 (195)
T ss_pred             HHHHHHHHHHHHHhcCcccchhhhc
Confidence            2336999999999999999998764

This family of sequences appears to belong to the Haloacid Dehalogenase (HAD) superfamily of enzymes by virtue of the presence of three catalytic domains, in this case: LLVLD(ILV)D(YH)T, I(VMG)IWS, and (DN)(VC)K(PA)Lx{15-17}T(IL)(MH)(FV)DD(IL)(GRS)(RK)N. Since this family has no large "cap" domain between motifs 1 and 2 or between 2 and 3, it is formally a "class III" HAD.

>PF03031 NIF: NLI interacting factor-like phosphatase; InterPro: IPR004274 The function of this domain is unclear

Probab=99.06  E-value=3.8e-11  Score=92.17  Aligned_cols=64  Identities=33%  Similarity=0.444  Sum_probs=45.9

Q ss_pred             eeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhhcCcCh
Q 040695           24 LKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADAENV  103 (169)
Q Consensus        24 ~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La~a~dV  103 (169)
                      .|+|++|             +.+.+|||||||+|.+...+| .|+|.+++|.++..+|..|   ..|..||++|+.++||
T Consensus        96 ~KdL~~l-------------~~~~~~vvivDD~~~~~~~~~-~N~i~v~~f~~~~~~D~~L---~~l~~~L~~l~~~~Dv  158 (159)
T PF03031_consen   96 IKDLSKL-------------GRDLDNVVIVDDSPRKWALQP-DNGIPVPPFFGDTPNDREL---LRLLPFLEELAKEDDV  158 (159)
T ss_dssp             E--GGGS-------------SS-GGGEEEEES-GGGGTTSG-GGEEE----SSCHTT--HH---HHHHHHHHHHHTHS-C
T ss_pred             ccchHHH-------------hhccccEEEEeCCHHHeeccC-CceEEeccccCCCcchhHH---HHHHHHHHHhCcccCC
Confidence            5999999             248999999999999999997 9999999999984345444   3899999999999998


Q ss_pred             H
Q 040695          104 Q  104 (169)
Q Consensus       104 ~  104 (169)
                      +
T Consensus       159 r  159 (159)
T PF03031_consen  159 R  159 (159)
T ss_dssp             H
T ss_pred             C
Confidence            6

It is found in proteins of diverse function including phosphatases some of which may be active in active in ternary elongation complexes and a number of NLI interacting factors. In the phospatases this domain is often present N-terminal to the BRCT domain (IPR001357 from INTERPRO).; GO: 0005515 protein binding; PDB: 3L0Y_A 2GHQ_A 3PGL_A 3L0C_B 1TA0_A 2GHT_A 3L0B_B 1T9Z_A 3QLE_A 2Q5E_E ....

>KOG1605 consensus TFIIF-interacting CTD phosphatase, including NLI-interacting factor (involved in RNA polymerase II regulation) [Transcription]

Probab=98.95  E-value=6.1e-10  Score=96.35  Aligned_cols=79  Identities=20%  Similarity=0.252  Sum_probs=63.0

Q ss_pred             CCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhh
Q 040695           19 RKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLA   98 (169)
Q Consensus        19 ~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La   98 (169)
                      +..+++++..-||+.-..      |+ +++|||||||||...++|| .|||-+.+|..+..++++|    .|..||++|+
T Consensus       180 R~~C~~~~g~yvKdls~~------~~-dL~~viIiDNsP~sy~~~p-~NgIpI~sw~~d~~D~eLL----~LlpfLe~L~  247 (262)
T KOG1605|consen  180 RDSCTLKDGNYVKDLSVL------GR-DLSKVIIVDNSPQSYRLQP-ENGIPIKSWFDDPTDTELL----KLLPFLEALA  247 (262)
T ss_pred             ccceEeECCcEEEEccee------cc-CcccEEEEcCChHHhccCc-cCCCcccccccCCChHHHH----HHHHHHHHhc
Confidence            334444555555443221      45 9999999999999999999 9999999999988777766    8999999999


Q ss_pred             cCcChHHHHhh
Q 040695           99 DAENVQEYVRQ  109 (169)
Q Consensus        99 ~a~dV~~yVr~  109 (169)
                      .++||+..++.
T Consensus       248 ~~~Dvr~~l~~  258 (262)
T KOG1605|consen  248 FVDDVRPILAR  258 (262)
T ss_pred             ccccHHHHHHH
Confidence            99999887764

>TIGR02251 HIF-SF_euk Dullard-like phosphatase domain

Probab=98.86  E-value=1.5e-09  Score=85.80  Aligned_cols=74  Identities=26%  Similarity=0.318  Sum_probs=60.0

Q ss_pred             CCCCCccccCcccccCCCCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCC
Q 040695            2 QDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAED   81 (169)
Q Consensus         2 W~q~~CT~~g~~t~e~~~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D   81 (169)
                      |.+++|+..         ++.++|+|+++|             .+.+++|+|||+|++...+| .|+|.+..|.|+. +|
T Consensus        89 l~r~~~~~~---------~~~~~K~L~~l~-------------~~~~~vIiVDD~~~~~~~~~-~NgI~i~~f~~~~-~D  144 (162)
T TIGR02251        89 LYRESCVFT---------NGKYVKDLSLVG-------------KDLSKVIIIDNSPYSYSLQP-DNAIPIKSWFGDP-ND  144 (162)
T ss_pred             EEccccEEe---------CCCEEeEchhcC-------------CChhhEEEEeCChhhhccCc-cCEeecCCCCCCC-CH
Confidence            456666642         333899999993             46789999999999999999 8899999999864 55


Q ss_pred             CcCCCcchHHHHHHHhhcCcC
Q 040695           82 SSLGHGGNLRVYLEGLADAEN  102 (169)
Q Consensus        82 ~~L~~~g~Lr~YLe~La~a~d  102 (169)
                      +.|   ..|..||+.|+..+|
T Consensus       145 ~~L---~~l~~~L~~l~~~~~  162 (162)
T TIGR02251       145 TEL---LNLIPFLEGLRFEDD  162 (162)
T ss_pred             HHH---HHHHHHHHHHhccCC
Confidence            555   489999999998865

This domain is related to domains found in FCP1-like phosphatases (TIGR02250), and together both are detected by the Pfam model pfam03031.

>smart00577 CPDc catalytic domain of ctd-like phosphatases

Probab=97.37  E-value=0.00019  Score=55.40  Aligned_cols=47  Identities=26%  Similarity=0.214  Sum_probs=41.2

Q ss_pred             CCCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCC
Q 040695           18 KRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRN   78 (169)
Q Consensus        18 ~~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~   78 (169)
                      ..||.++|.|++++             .+++++|+||||+.....+| .|+|...+|.++.
T Consensus        99 ~~KP~~~k~l~~l~-------------~~p~~~i~i~Ds~~~~~aa~-~ngI~i~~f~~~~  145 (148)
T smart00577       99 FVKGKYVKDLSLLG-------------RDLSNVIIIDDSPDSWPFHP-ENLIPIKPWFGDP  145 (148)
T ss_pred             ccCCeEeecHHHcC-------------CChhcEEEEECCHHHhhcCc-cCEEEecCcCCCC
Confidence            36788999999992             46789999999999999998 8999999999965

>TIGR02250 FCP1_euk FCP1-like phosphatase, phosphatase domain

Probab=96.20  E-value=0.0032  Score=50.06  Aligned_cols=41  Identities=24%  Similarity=0.338  Sum_probs=34.5

Q ss_pred             EeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCC
Q 040695           23 VLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDY   76 (169)
Q Consensus        23 ~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~   76 (169)
                      ..|+|.+|+.            .+.+++|+|||+|.--..+| .|+|.+.+|.+
T Consensus       115 ~~KdL~~i~~------------~d~~~vvivDd~~~~~~~~~-~N~i~i~~~~~  155 (156)
T TIGR02250       115 HTKSLLRLFP------------ADESMVVIIDDREDVWPWHK-RNLIQIEPYNY  155 (156)
T ss_pred             ccccHHHHcC------------CCcccEEEEeCCHHHhhcCc-cCEEEeCCccc
Confidence            5789988832            36788999999999999999 89999998864

This domain is related to domains found in the human NLI interacting factor-like phosphatases, and together both are detected by the Pfam model pfam03031.

>COG5190 FCP1 TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]

Probab=91.63  E-value=0.12  Score=47.72  Aligned_cols=66  Identities=26%  Similarity=0.380  Sum_probs=55.6

Q ss_pred             EeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhhc--C
Q 040695           23 VLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLAD--A  100 (169)
Q Consensus        23 ~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La~--a  100 (169)
                      +.|+|.++             ..+.+-|+|||.+|+=-..+| .++|-.+++..+..+++.+    .|.-+|+.|++  .
T Consensus       310 ~ikDis~i-------------~r~l~~viiId~~p~SY~~~p-~~~i~i~~W~~d~~d~el~----~ll~~le~L~~~~~  371 (390)
T COG5190         310 YIKDISKI-------------GRSLDKVIIIDNSPASYEFHP-ENAIPIEKWISDEHDDELL----NLLPFLEDLPDRDL  371 (390)
T ss_pred             hhhhHHhh-------------ccCCCceEEeeCChhhhhhCc-cceeccCcccccccchhhh----hhcccccccccccc
Confidence            78889888             367889999999999999999 8899999999987677666    88889999998  4


Q ss_pred             cChHHH
Q 040695          101 ENVQEY  106 (169)
Q Consensus       101 ~dV~~y  106 (169)
                      .||+..
T Consensus       372 ~d~~~~  377 (390)
T COG5190         372 KDVSSI  377 (390)
T ss_pred             hhhhhh
Confidence            577654

>KOG2832 consensus TFIIF-interacting CTD phosphatase, including NLI-interacting factor (involved in RNA polymerase II regulation) [Transcription]

Probab=86.09  E-value=1.2  Score=41.36  Aligned_cols=68  Identities=24%  Similarity=0.359  Sum_probs=54.3

Q ss_pred             eeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhhcC--c
Q 040695           24 LKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLADA--E  101 (169)
Q Consensus        24 ~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La~a--~  101 (169)
                      +|+|.+|             .=+.+..|.||=.++=..++| .|.|-.+++.|+. +|..|-   +|..+|+.||.+  +
T Consensus       273 vKdls~L-------------NRdl~kVivVd~d~~~~~l~P-~N~l~l~~W~Gn~-dDt~L~---dL~~FL~~ia~~~~e  334 (393)
T KOG2832|consen  273 VKDLSKL-------------NRDLQKVIVVDFDANSYKLQP-ENMLPLEPWSGND-DDTSLF---DLLAFLEYIAQQQVE  334 (393)
T ss_pred             hhhhhhh-------------ccccceeEEEEccccccccCc-ccccccCcCCCCc-ccchhh---hHHHHHHHHHHccHH
Confidence            7899888             236788999999999999999 6688888899954 444443   999999999877  5


Q ss_pred             ChHHHHhh
Q 040695          102 NVQEYVRQ  109 (169)
Q Consensus       102 dV~~yVr~  109 (169)
                      ||+..++.
T Consensus       335 DvR~vL~~  342 (393)
T KOG2832|consen  335 DVRPVLQS  342 (393)
T ss_pred             HHHHHHHH
Confidence            88876663

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	169
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	6e-07

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster} Length = 320

 Score = 47.1 bits (111), Expect = 6e-07
 Identities = 18/95 (18%), Positives = 33/95 (34%), Gaps = 10/95 (10%)

Query: 17  NKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDY 76
            +R  + +K L  +W            +YN +NT++ DD     L NP    +   P+  
Sbjct: 225 PERGVVDVKPLGVIWALYK--------QYNSSNTIMFDDIRRNFLMNPKS-GLKIRPFRQ 275

Query: 77  RNAEDSSLGHGGNLRVYLEGLAD-AENVQEYVRQN 110
            +    +      L  YL  +A    +      + 
Sbjct: 276 AHLNRGTDTELLKLSDYLRKIAHHCPDFNSLNHRK 310

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	169
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.46
3qle_A	204	TIM50P; chaperone, mitochondrion, preprotein trans	99.15
2ght_A	181	Carboxy-terminal domain RNA polymerase II polypept	99.15
2hhl_A	195	CTD small phosphatase-like protein; CTD phosphatas	98.62
3ef0_A	372	RNA polymerase II subunit A C-terminal domain phos	94.71
3ef1_A	442	RNA polymerase II subunit A C-terminal domain phos	93.72

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}

Probab=99.46  E-value=1.3e-14  Score=125.51  Aligned_cols=79  Identities=25%  Similarity=0.439  Sum_probs=68.8

Q ss_pred             CCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCC---CCCCCcCCCcchHHHHHH
Q 040695           19 RKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYR---NAEDSSLGHGGNLRVYLE   95 (169)
Q Consensus        19 ~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~---~~~D~~L~~~g~Lr~YLe   95 (169)
                      .+..++|+|++||++++        +++++|||||||||+++.+|| .|+|.+.+|.++   +.+|..|   ..|..||+
T Consensus       227 ~g~~~vKdLs~Lw~~~p--------~rdl~~tIiIDdsp~~~~~~p-~NgI~I~~~~~~~~~~~~D~eL---~~L~~~L~  294 (320)
T 3shq_A          227 RGVVDVKPLGVIWALYK--------QYNSSNTIMFDDIRRNFLMNP-KSGLKIRPFRQAHLNRGTDTEL---LKLSDYLR  294 (320)
T ss_dssp             TEEEEECCHHHHHHHCT--------TCCGGGEEEEESCGGGGTTSG-GGEEECCCCCCHHHHTTTCCHH---HHHHHHHH
T ss_pred             CCCEEEEEhHHhhcccC--------CCChhHEEEEeCChHHhccCc-CceEEeCeEcCCCCCCCccHHH---HHHHHHHH
Confidence            34579999999999975        499999999999999999999 899999999886   2456555   59999999


Q ss_pred             Hhh-cCcChHHHHhh
Q 040695           96 GLA-DAENVQEYVRQ  109 (169)
Q Consensus        96 ~La-~a~dV~~yVr~  109 (169)
                      .|+ .++||+.+.++
T Consensus       295 ~L~~~~~DVr~~~~~  309 (320)
T 3shq_A          295 KIAHHCPDFNSLNHR  309 (320)
T ss_dssp             HHHHHCSCGGGCCGG
T ss_pred             HHhccCcchhHHHHH
Confidence            999 99999988764

>3qle_A TIM50P; chaperone, mitochondrion, preprotein translocation; HET: 1PE; 1.83A {Saccharomyces cerevisiae EC1118}

Probab=99.15  E-value=1.5e-11  Score=100.55  Aligned_cols=80  Identities=24%  Similarity=0.362  Sum_probs=65.2

Q ss_pred             CCCCCccccCcccccCCCCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCC
Q 040695            2 QDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAED   81 (169)
Q Consensus         2 W~q~~CT~~g~~t~e~~~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D   81 (169)
                      |.+++|+..         .-.++|+|++|             +.+++|||||||+|+....|| .|+|.+.+|.++. ++
T Consensus       106 l~R~~c~~~---------~g~y~KdL~~L-------------grdl~~vIiIDDsp~~~~~~p-~N~I~I~~~~~~~-D~  161 (204)
T 3qle_A          106 LFKEHCVYK---------DGVHIKDLSKL-------------NRDLSKVIIIDTDPNSYKLQP-ENAIPMEPWNGEA-DD  161 (204)
T ss_dssp             ECGGGSEEE---------TTEEECCGGGS-------------CSCGGGEEEEESCTTTTTTCG-GGEEECCCCCSSC-CC
T ss_pred             EEecceeEE---------CCeeeecHHHh-------------CCChHHEEEEECCHHHHhhCc-cCceEeeeECCCC-Ch
Confidence            456677641         22489999999             247899999999999999999 8999999998753 44


Q ss_pred             CcCCCcchHHHHHHHhhc--CcChHHHHhh
Q 040695           82 SSLGHGGNLRVYLEGLAD--AENVQEYVRQ  109 (169)
Q Consensus        82 ~~L~~~g~Lr~YLe~La~--a~dV~~yVr~  109 (169)
                      + |   ..|..||+.|+.  .+||+.+++.
T Consensus       162 e-L---~~L~~~L~~L~~~~~~DVR~~L~~  187 (204)
T 3qle_A          162 K-L---VRLIPFLEYLATQQTKDVRPILNS  187 (204)
T ss_dssp             H-H---HHHHHHHHHHHHTCCSCSHHHHTT
T ss_pred             h-H---HHHHHHHHHHhhcChHHHHHHHHH
Confidence            3 4   489999999994  7899999986

>2ght_A Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1; protein-peptide complex, HAD superfamily, hydrolase; HET: SEP; 1.80A {Homo sapiens} PDB: 2ghq_A* 3pgl_A* 1t9z_A* 1ta0_A* 3l0c_A 3l0y_A 3l0b_A* 2q5e_A

Probab=99.15  E-value=2.5e-11  Score=95.43  Aligned_cols=72  Identities=25%  Similarity=0.373  Sum_probs=62.4

Q ss_pred             CceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhhc
Q 040695           20 KPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLAD   99 (169)
Q Consensus        20 Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La~   99 (169)
                      |-.++|.|++|             +.+++++|+|||||.....+| .|+|.+.+|.++. +|..|   ..|..||+.|+.
T Consensus       110 k~~~~k~L~~L-------------g~~~~~~vivdDs~~~~~~~~-~ngi~i~~~~~~~-~D~eL---~~l~~~L~~l~~  171 (181)
T 2ght_A          110 RGNYVKDLSRL-------------GRDLRRVLILDNSPASYVFHP-DNAVPVASWFDNM-SDTEL---HDLLPFFEQLSR  171 (181)
T ss_dssp             TTEEECCGGGT-------------CSCGGGEEEECSCGGGGTTCT-TSBCCCCCCSSCT-TCCHH---HHHHHHHHHHTT
T ss_pred             CCcEeccHHHh-------------CCCcceEEEEeCCHHHhccCc-CCEeEeccccCCC-ChHHH---HHHHHHHHHhCc
Confidence            45689999998             368999999999999999999 8899999999854 44444   389999999999


Q ss_pred             CcChHHHHhh
Q 040695          100 AENVQEYVRQ  109 (169)
Q Consensus       100 a~dV~~yVr~  109 (169)
                      ++||+.++++
T Consensus       172 ~~DVr~~l~~  181 (181)
T 2ght_A          172 VDDVYSVLRQ  181 (181)
T ss_dssp             CSCTHHHHCC
T ss_pred             CccHHHHhhC
Confidence            9999999874

>2hhl_A CTD small phosphatase-like protein; CTD phosphatase, keggins anion, structural genomics, PSI, protein structure initiative; HET: KEG; 2.10A {Homo sapiens}

Probab=98.62  E-value=1.4e-08  Score=81.17  Aligned_cols=65  Identities=22%  Similarity=0.374  Sum_probs=53.4

Q ss_pred             CceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCCCcCCCcchHHHHHHHhhc
Q 040695           20 KPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAEDSSLGHGGNLRVYLEGLAD   99 (169)
Q Consensus        20 Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D~~L~~~g~Lr~YLe~La~   99 (169)
                      |-.++|.|++|             +.+++++|+|||||.....+| .|+|.+.+|.++. +|..|   ..|..||+.|+.
T Consensus       123 k~~~lK~L~~L-------------g~~~~~~vivDDs~~~~~~~~-~ngi~i~~~~~~~-~D~eL---~~L~~~L~~l~~  184 (195)
T 2hhl_A          123 RGNYVKDLSRL-------------GRELSKVIIVDNSPASYIFHP-ENAVPVQSWFDDM-TDTEL---LDLIPFFEGLSR  184 (195)
T ss_dssp             TTEEECCGGGS-------------SSCGGGEEEEESCGGGGTTCG-GGEEECCCCSSCT-TCCHH---HHHHHHHHHHHC
T ss_pred             CCceeeeHhHh-------------CCChhHEEEEECCHHHhhhCc-cCccEEeeecCCC-ChHHH---HHHHHHHHHHHh
Confidence            46789999999             357899999999999999999 8899999998854 45555   389999999999


Q ss_pred             CcC
Q 040695          100 AEN  102 (169)
Q Consensus       100 a~d  102 (169)
                      +.|
T Consensus       185 ~~~  187 (195)
T 2hhl_A          185 EDD  187 (195)
T ss_dssp             ---
T ss_pred             CcC
Confidence            876

>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe}

Probab=94.71  E-value=0.018  Score=50.63  Aligned_cols=42  Identities=26%  Similarity=0.419  Sum_probs=36.0

Q ss_pred             eEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCC
Q 040695           22 LVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYR   77 (169)
Q Consensus        22 ~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~   77 (169)
                      .+.|+|++||.            .+.+++|+|||+|.-...||  |+|.+.+|.+-
T Consensus       131 ~~~KdL~~L~~------------~dl~~viiiDd~~~~~~~~p--N~I~i~~~~~f  172 (372)
T 3ef0_A          131 LAQKSLRRLFP------------CDTSMVVVIDDRGDVWDWNP--NLIKVVPYEFF  172 (372)
T ss_dssp             SSCCCGGGTCS------------SCCTTEEEEESCSGGGTTCT--TEEECCCCCCS
T ss_pred             cceecHHHhcC------------CCCceEEEEeCCHHHcCCCC--cEeeeCCcccc
Confidence            36899999942            57899999999999999996  89999999764

>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe}

Probab=93.72  E-value=0.036  Score=50.11  Aligned_cols=40  Identities=25%  Similarity=0.434  Sum_probs=34.8

Q ss_pred             EeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCC
Q 040695           23 VLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDY   76 (169)
Q Consensus        23 ~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~   76 (169)
                      +.|+|++|+            +.+.+.+|||||+|.-...+|  |+|.+.+|.+
T Consensus       140 ~~KdL~~ll------------~rdl~~vvIIDd~p~~~~~~p--N~I~I~~~~f  179 (442)
T 3ef1_A          140 AQKSLRRLF------------PCDTSMVVVIDDRGDVWDWNP--NLIKVVPYEF  179 (442)
T ss_dssp             SCCCGGGTC------------SSCCTTEEEEESCSGGGTTCT--TEEECCCCCC
T ss_pred             eeeehHHhc------------CCCcceEEEEECCHHHhCCCC--CEEEcCCccc
Confidence            679999983            257889999999999999996  8999999975

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	169
d1ta0a_	181	c.108.1.16 (A:) Carboxy-terminal domain RNA polyme	1e-06

>d1ta0a_ c.108.1.16 (A:) Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, NRAMP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 181

class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: NLI interacting factor-like phosphatase
domain: Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, NRAMP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 1e-06
 Identities = 19/97 (19%), Positives = 38/97 (39%), Gaps = 18/97 (18%)

Query: 13  HSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPY 72
                  +   +K+L +L               +    L+LD+SP   + +P + A+   
Sbjct: 103 RESCVFHRGNYVKDLSRLG-------------RDLRRVLILDNSPASYVFHPDN-AVPVA 148

Query: 73  PYDYRNAEDSSLGHGGNLRVYLEGLADAENVQEYVRQ 109
            + + N  D+ L     L  + E L+  ++V   +RQ
Sbjct: 149 SW-FDNMSDTELHD---LLPFFEQLSRVDDVYSVLRQ 181

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	169
d1ta0a_	181	Carboxy-terminal domain RNA polymerase II polypept	99.42

>d1ta0a_ c.108.1.16 (A:) Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, NRAMP1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: NLI interacting factor-like phosphatase
domain: Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, NRAMP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=3.4e-14  Score=110.54  Aligned_cols=81  Identities=23%  Similarity=0.331  Sum_probs=68.2

Q ss_pred             CCCCCccccCcccccCCCCceEeeehHHhhcccCCCCCcCCCCCCCCceEEecCCchhhccCCCCcccccCCCCCCCCCC
Q 040695            2 QDASQCSETGLHSLENKRKPLVLKELKKLWEKIDPNLPWKKGEYNETNTLLLDDSPYKALCNPAHTAIFPYPYDYRNAED   81 (169)
Q Consensus         2 W~q~~CT~~g~~t~e~~~Kp~~~K~L~kVW~~~~~~~pw~~g~~~~sNTLLIDDSPyKA~~NP~~naI~P~ef~~~~~~D   81 (169)
                      |.+++|+.+         +..++|+|++|             +++.+|||||||+|++...|| .|+|.+.+|.++. +|
T Consensus       101 ~~r~~c~~~---------~~~~~KdL~~l-------------~~~l~~vvivDd~~~~~~~~~-~N~I~I~~f~~~~-~D  156 (181)
T d1ta0a_         101 LFRESCVFH---------RGNYVKDLSRL-------------GRDLRRVLILDNSPASYVFHP-DNAVPVASWFDNM-SD  156 (181)
T ss_dssp             ECGGGSEEE---------TTEEECCGGGS-------------CSCGGGEEEECSCGGGGTTCG-GGBCCCCCCSSCT-TC
T ss_pred             EEeeeeeec---------CCcccccHhhc-------------CCCHHHeEEEcCChhhhhcCc-cCeeEecCcCCCC-Cc
Confidence            456777653         34588999999             368899999999999999998 8999999999975 45


Q ss_pred             CcCCCcchHHHHHHHhhcCcChHHHHhh
Q 040695           82 SSLGHGGNLRVYLEGLADAENVQEYVRQ  109 (169)
Q Consensus        82 ~~L~~~g~Lr~YLe~La~a~dV~~yVr~  109 (169)
                      ..|   -.|..||+.|+.++||+.++|+
T Consensus       157 ~eL---~~l~~~L~~l~~~~DVR~~l~~  181 (181)
T d1ta0a_         157 TEL---HDLLPFFEQLSRVDDVYSVLRQ  181 (181)
T ss_dssp             CHH---HHHHHHHHHHTTCSCHHHHHCC
T ss_pred             HHH---HHHHHHHHHHccCCcHHHHhcC
Confidence            555   3899999999999999999874