Citrus Sinensis ID: 030692

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170---
Protein Sequence
MDPFSGSGSWNMMPSIPSHNSSPAASNQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP
Secondary Structure (PSIPRED)
ccccccccccEEcccccccccccccccccccccccccccccccccccccccHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccHEEEcccccccccccHHHHHcccHHHccccccHccHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccEHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mdpfsgsgswnmmpsipshnsspaasnqdnlflspqhqqqfyqqptqfpqqqfqqqgrtpqqqqqpqqqQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP
Flexible Loop (DISEMBL)
MDPFSGSGSWNMMPSIPSHNSSPAASNQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVegqrrkleeseQLLNQRKELIDKYMNSVEELIEYEP
Low Complexity Region (SEG)
MDPFSGSGSWNMMPSIPSHNSSPAASNQDNLFLSpqhqqqfyqqptqfpqqqfqqqgrtpqqqqqpqqqqqqnqhhqSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP
Disordered region (IsUnstruct)
**********************************************************************************FHLLHLMENLAD*******************************************************************************
Disordered Region (DISOPRED)
*********WN**********************************************************************NFHLLHLMENLADAIE**T*DQQSDALVNELNNHFEKCQQLLSS*******************************LIDKYMNSVEELI****
Disordered Region (DISEMBL)
********SWNMMPSIPS********NQDNLFLSPQHQ***************************************SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP
Disordered Region (DISPRO)
***************************QDNLFLS*********Q*********************************SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDPFSGSGSWNMMPSIPSHNSSPAASNQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTxxxxxxxxxxxxxxxxxxxxxxxxxxxxVEELIEYEP
Positional Conservation
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	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	173	2.2.26 [Sep-21-2011]
Q8RWA2	244	Mediator of RNA polymeras	yes	no	0.572	0.405	0.676	5e-33

>sp|Q8RWA2|MED9_ARATH Mediator of RNA polymerase II transcription subunit 9 OS=Arabidopsis thaliana GN=MED9 PE=1 SV=1

 Score =  140 bits (353), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 67/99 (67%), Positives = 83/99 (83%)

Query: 74  QHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK 133
           Q HQSLAS+FHL  ++E LAD IENGTRDQ SDALVNELN+HF+KCQQLL+SIS SL +K
Sbjct: 145 QQHQSLASHFHLYPMVEKLADVIENGTRDQNSDALVNELNSHFDKCQQLLNSISGSLGSK 204

Query: 134 AMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYE 172
            MTV+GQ+R +EESEQLL QR++LI +Y  S+EE++  E
Sbjct: 205 TMTVDGQKRNVEESEQLLQQRRDLIVEYRKSIEEIVTME 243


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.310    0.123    0.344 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 62,247,030
Number of Sequences: 539616
Number of extensions: 2461926
Number of successful extensions: 80329
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 1274
Number of HSP's successfully gapped in prelim test: 641
Number of HSP's that attempted gapping in prelim test: 19814
Number of HSP's gapped (non-prelim): 19340
length of query: 173
length of database: 191,569,459
effective HSP length: 109
effective length of query: 64
effective length of database: 132,751,315
effective search space: 8496084160
effective search space used: 8496084160
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.6 bits)

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.
Arabidopsis thaliana (taxid: 3702)

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	173
224135025	190	predicted protein [Populus trichocarpa]	0.982	0.894	0.645	5e-47
225442291	166	PREDICTED: uncharacterized protein LOC10	0.953	0.993	0.660	4e-40
449458229	133	PREDICTED: mediator of RNA polymerase II	0.554	0.721	0.781	1e-35
356522394	195	PREDICTED: uncharacterized protein LOC10	0.554	0.492	0.739	7e-34
351723835	177	uncharacterized protein LOC100305737 [Gl	0.976	0.954	0.582	1e-32
357513635	196	hypothetical protein MTR_8g017180 [Medic	0.554	0.489	0.718	5e-32
22330255	244	uncharacterized protein [Arabidopsis tha	0.572	0.405	0.676	2e-31
255574430	89	conserved hypothetical protein [Ricinus	0.514	1.0	0.719	3e-30
242074772	174	hypothetical protein SORBIDRAFT_06g03295	0.612	0.609	0.612	2e-29
226506690	174	uncharacterized protein LOC100276155 [Ze	0.612	0.609	0.612	7e-29

>gi|224135025|ref|XP_002327548.1| predicted protein [Populus trichocarpa] gi|222836102|gb|EEE74523.1| predicted protein [Populus trichocarpa]

 Score =  192 bits (487), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 120/186 (64%), Positives = 136/186 (73%), Gaps = 16/186 (8%)

Query: 4   FSGSGSWNMMPSIPSHNSSPAASNQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQ 63
           FSG GSW ++PS+P+H+ SPA SNQD  +LSPQ QQ  + Q  Q  Q   QQQ    QQQ
Sbjct: 5   FSGGGSWTVIPSVPTHSGSPAHSNQDQFYLSPQQQQPQFTQFQQQQQFNQQQQQFQQQQQ 64

Query: 64  QQPQQQQQQ----------------NQHHQSLASNFHLLHLMENLADAIENGTRDQQSDA 107
            Q QQ QQQ                N HHQSLAS+FHLL L ENLADAIENGTRDQ SDA
Sbjct: 65  YQQQQSQQQRFIQQQQQQQPQVQQQNHHHQSLASHFHLLQLAENLADAIENGTRDQHSDA 124

Query: 108 LVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEE 167
           LVNELN HF+KCQQLL+SIS S++ KAMTVEGQ+RKLEESEQLLNQR+ELI KY NSVEE
Sbjct: 125 LVNELNTHFDKCQQLLNSISSSINAKAMTVEGQKRKLEESEQLLNQRRELIGKYRNSVEE 184

Query: 168 LIEYEP 173
           L++ EP
Sbjct: 185 LLKSEP 190

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442291|ref|XP_002280177.1| PREDICTED: uncharacterized protein LOC100260024 [Vitis vinifera] gi|147856497|emb|CAN78638.1| hypothetical protein VITISV_031737 [Vitis vinifera] gi|297743090|emb|CBI35957.3| unnamed protein product [Vitis vinifera]

 Score =  169 bits (428), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 115/174 (66%), Positives = 137/174 (78%), Gaps = 9/174 (5%)

Query: 1   MD-PFSGSGSWNMMPSIPSHNSSPAASNQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRT 59
           MD P+SG GSW+M+PS+  H+++   S+QD+            QQP Q    Q QQQ   
Sbjct: 1   MDHPYSG-GSWSMIPSMSPHSNAATPSDQDH-------LFLQQQQPQQHHLYQHQQQRLH 52

Query: 60  PQQQQQPQQQQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKC 119
            QQQQQ QQQQQQ+ HHQSLAS+FHLLHL+ENL+DAIENGTRDQ SDALV ELN+HFEKC
Sbjct: 53  HQQQQQQQQQQQQHHHHQSLASHFHLLHLVENLSDAIENGTRDQHSDALVRELNSHFEKC 112

Query: 120 QQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173
           QQLL+SIS S++TKAMTVEGQ+RKLEESEQLLNQR++LI KY NSVE+LI+ EP
Sbjct: 113 QQLLNSISVSINTKAMTVEGQKRKLEESEQLLNQRRDLIAKYRNSVEDLIKSEP 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458229|ref|XP_004146850.1| PREDICTED: mediator of RNA polymerase II transcription subunit 9-like [Cucumis sativus]

 Score =  154 bits (389), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 75/96 (78%), Positives = 87/96 (90%)

Query: 78  SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTV 137
           SLAS+FHLLHL+E LADAIENGTRDQQSDALVN+LNNHFEKC+QLL+SIS SL +KAMT 
Sbjct: 38  SLASHFHLLHLVEKLADAIENGTRDQQSDALVNDLNNHFEKCRQLLNSISGSLSSKAMTK 97

Query: 138 EGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173
           EGQ++KLEE EQLL+ R+ELI KY NSVEEL++ EP
Sbjct: 98  EGQKKKLEEHEQLLSHRRELIGKYKNSVEELVKGEP 133

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356522394|ref|XP_003529831.1| PREDICTED: uncharacterized protein LOC100803884 [Glycine max]

 Score =  148 bits (374), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 71/96 (73%), Positives = 87/96 (90%)

Query: 78  SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTV 137
           SLAS++HLLHL+ENLA+ IE+GT DQQSDAL+NEL+NHFEKCQQLL+SIS+S+ TKAMTV
Sbjct: 100 SLASHYHLLHLVENLAEVIEHGTPDQQSDALINELSNHFEKCQQLLNSISDSISTKAMTV 159

Query: 138 EGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173
           EGQ++KLEESEQLLNQR++LI  Y  SVE+L+  EP
Sbjct: 160 EGQKKKLEESEQLLNQRRDLIANYRKSVEDLVRSEP 195

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723835|ref|NP_001236013.1| uncharacterized protein LOC100305737 [Glycine max] gi|255626477|gb|ACU13583.1| unknown [Glycine max]

 Score =  144 bits (364), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 102/175 (58%), Positives = 122/175 (69%), Gaps = 6/175 (3%)

Query: 1   MDPFSGSG-SWNMMPSIPSHNSSPAASNQD-NLFLSPQHQQQFYQQPTQFPQQQFQQQGR 58
           MD +  SG SW M   IP+HNS  + SNQD NLFL  Q   Q          Q   QQ +
Sbjct: 1   MDHYGSSGGSWTM---IPTHNSQ-SQSNQDPNLFLQQQQFLQSQPFQQALAPQSPFQQQQ 56

Query: 59  TPQQQQQPQQQQQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEK 118
             +  QQ QQQQQ    HQSLAS++HLLHL+ENLA+ IE+GT DQ SDAL+NE +NHFEK
Sbjct: 57  QQRLLQQQQQQQQPQNLHQSLASHYHLLHLVENLAEVIEHGTPDQPSDALINESSNHFEK 116

Query: 119 CQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173
           C QLL+SIS S+ TKAMTVEGQ++KLEESEQLLNQR++LI  Y  SVE+L+  EP
Sbjct: 117 CLQLLNSISGSISTKAMTVEGQKKKLEESEQLLNQRRDLIGNYRKSVEDLVRSEP 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357513635|ref|XP_003627106.1| hypothetical protein MTR_8g017180 [Medicago truncatula] gi|355521128|gb|AET01582.1| hypothetical protein MTR_8g017180 [Medicago truncatula] gi|388506434|gb|AFK41283.1| unknown [Medicago truncatula]

 Score =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 69/96 (71%), Positives = 84/96 (87%)

Query: 78  SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTV 137
           SLAS+FHLL+L+ENLA+ +E+G  DQQSDAL+ EL+NHFEKCQQLL+SIS S+ TKAMTV
Sbjct: 101 SLASHFHLLNLVENLAEVVEHGNPDQQSDALITELSNHFEKCQQLLNSISASISTKAMTV 160

Query: 138 EGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP 173
           EGQ++KLEESEQLLNQR++LI  Y  SVEEL+  EP
Sbjct: 161 EGQKKKLEESEQLLNQRRDLIANYTKSVEELVRSEP 196

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22330255|ref|NP_175905.2| uncharacterized protein [Arabidopsis thaliana] gi|75158655|sp|Q8RWA2.1|MED9_ARATH RecName: Full=Mediator of RNA polymerase II transcription subunit 9 gi|20260684|gb|AAM13240.1| unknown protein [Arabidopsis thaliana] gi|30023712|gb|AAP13389.1| At1g55080 [Arabidopsis thaliana] gi|110742509|dbj|BAE99172.1| hypothetical protein [Arabidopsis thaliana] gi|332195062|gb|AEE33183.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  140 bits (353), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 67/99 (67%), Positives = 83/99 (83%)

Query: 74  QHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTK 133
           Q HQSLAS+FHL  ++E LAD IENGTRDQ SDALVNELN+HF+KCQQLL+SIS SL +K
Sbjct: 145 QQHQSLASHFHLYPMVEKLADVIENGTRDQNSDALVNELNSHFDKCQQLLNSISGSLGSK 204

Query: 134 AMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYE 172
            MTV+GQ+R +EESEQLL QR++LI +Y  S+EE++  E
Sbjct: 205 TMTVDGQKRNVEESEQLLQQRRDLIVEYRKSIEEIVTME 243

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255574430|ref|XP_002528128.1| conserved hypothetical protein [Ricinus communis] gi|223532467|gb|EEF34258.1| conserved hypothetical protein [Ricinus communis]

 Score =  136 bits (343), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 64/89 (71%), Positives = 80/89 (89%)

Query: 85  LLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKL 144
           +L L+ENLA+ I+NG+RDQ SDAL+ ELNN FEKCQQLL+SIS S++TKAMTVEGQ+RKL
Sbjct: 1   MLQLVENLAEVIDNGSRDQHSDALITELNNQFEKCQQLLNSISSSINTKAMTVEGQKRKL 60

Query: 145 EESEQLLNQRKELIDKYMNSVEELIEYEP 173
           E+SEQLLNQR++LI KY NSVEEL++ +P
Sbjct: 61  EDSEQLLNQRRDLISKYRNSVEELLKSDP 89

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242074772|ref|XP_002447322.1| hypothetical protein SORBIDRAFT_06g032950 [Sorghum bicolor] gi|241938505|gb|EES11650.1| hypothetical protein SORBIDRAFT_06g032950 [Sorghum bicolor]

 Score =  133 bits (335), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 68/111 (61%), Positives = 85/111 (76%), Gaps = 5/111 (4%)

Query: 65  QPQQQ-----QQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKC 119
           QPQQ      Q Q  HH SLAS+FHLLHL+  LADAI  GTRDQ SDALV EL + F +C
Sbjct: 60  QPQQALMSPPQPQQHHHASLASHFHLLHLVTRLADAIGTGTRDQNSDALVEELTSQFARC 119

Query: 120 QQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170
           QQLL+SIS ++ +K+ TVEGQR+ L+E+ QLL+QRKELI KY +SVE+L++
Sbjct: 120 QQLLNSISGTISSKSTTVEGQRQSLDETRQLLDQRKELITKYRSSVEDLLK 170

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226506690|ref|NP_001143482.1| uncharacterized protein LOC100276155 [Zea mays] gi|195621302|gb|ACG32481.1| hypothetical protein [Zea mays] gi|414584777|tpg|DAA35348.1| TPA: hypothetical protein ZEAMMB73_543940 [Zea mays]

 Score =  132 bits (331), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 68/111 (61%), Positives = 83/111 (74%), Gaps = 5/111 (4%)

Query: 65  QPQQQ-----QQQNQHHQSLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKC 119
           QPQQ      Q Q  HH SLAS+FHLLHL+  LADAI  GTRDQ  DALV EL + F +C
Sbjct: 60  QPQQTLMSPPQPQQHHHASLASHFHLLHLVTRLADAIGTGTRDQNFDALVEELTSQFARC 119

Query: 120 QQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170
           QQLL+SIS ++ +K+ TVEGQR+ L+E+ QLL+QRKELI KY  SVEEL++
Sbjct: 120 QQLLNSISGTISSKSTTVEGQRQSLDETRQLLDQRKELITKYRGSVEELLK 170

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	173
TAIR|locus:2205662	244	MED9 "AT1G55080" [Arabidopsis	0.549	0.389	0.673	3.1e-35
TAIR|locus:2013768	89	AT1G29580 "AT1G29580" [Arabido	0.404	0.786	0.4	2.6e-08

TAIR|locus:2205662 MED9 "AT1G55080" [Arabidopsis thaliana (taxid:3702)]

 Score = 330 (121.2 bits), Expect = 3.1e-35, Sum P(2) = 3.1e-35
 Identities = 64/95 (67%), Positives = 80/95 (84%)

Query:    78 SLASNFHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLSSISESLDTKAMTV 137
             SLAS+FHL  ++E LAD IENGTRDQ SDALVNELN+HF+KCQQLL+SIS SL +K MTV
Sbjct:   149 SLASHFHLYPMVEKLADVIENGTRDQNSDALVNELNSHFDKCQQLLNSISGSLGSKTMTV 208

Query:   138 EGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYE 172
             +GQ+R +EESEQLL QR++LI +Y  S+EE++  E
Sbjct:   209 DGQKRNVEESEQLLQQRRDLIVEYRKSIEEIVTME 243

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016592 "mediator complex" evidence=IDA

TAIR|locus:2013768 AT1G29580 "AT1G29580" [Arabidopsis thaliana (taxid:3702)]

 Score = 127 (49.8 bits), Expect = 2.6e-08, P = 2.6e-08
 Identities = 28/70 (40%), Positives = 43/70 (61%)

Query:   104 QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN 163
             Q   L + L    E  + +  S +   ++ A+ V+ Q++ LEESEQLL QR ELI++Y  
Sbjct:    20 QHQTLASHLYPLVENLKDVTESRARDQNSDALYVDVQKQNLEESEQLLQQRMELIEEYKK 79

Query:   164 SVEELIEYEP 173
             SVEE+++ EP
Sbjct:    80 SVEEIVKKEP 89

GO:0003674 "molecular_function" evidence=ND

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: estExt_fgenesh4_pm.C_440033 hypothetical protein (191 aa) (Populus trichocarpa)

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

ID	Length	Definition	E-value
Query	173
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	9e-05
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	1e-04
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	8e-04
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	0.001
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	0.002
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	0.002
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	0.002
COG1395	313	COG1395, COG1395, Predicted transcriptional regula	0.003

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 41.4 bits (98), Expect = 9e-05
 Identities = 18/45 (40%), Positives = 21/45 (46%)

Query: 36  QHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQSLA 80
           + +QQ  Q      Q Q  QQG+  Q QQQ QQ Q       SLA
Sbjct: 619 RGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQGGQGGQGSLA 663

Length = 820

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 41.0 bits (97), Expect = 1e-04
 Identities = 18/48 (37%), Positives = 19/48 (39%), Gaps = 2/48 (4%)

Query: 36  QHQQQFYQQ--PTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQSLAS 81
             Q+QF  Q    Q  Q Q  Q    P QQ Q  Q QQQ Q  Q    
Sbjct: 610 DLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQGGQG 657

Length = 820

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 38.7 bits (91), Expect = 8e-04
 Identities = 12/43 (27%), Positives = 16/43 (37%)

Query: 36  QHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQHHQS 78
           + QQ    +  +  Q+QF  Q    Q QQ    Q Q     Q 
Sbjct: 598 REQQGLSDETFRDLQEQFNAQRGEQQGQQGQGGQGQGQPGQQG 640

Length = 820

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 38.5 bits (89), Expect = 0.001
 Identities = 24/64 (37%), Positives = 26/64 (40%), Gaps = 11/64 (17%)

Query: 23  PAASNQDNLFLSPQHQQQFYQQPTQ--FPQQQFQQ---------QGRTPQQQQQPQQQQQ 71
            A   Q      P   Q  YQQP Q   PQ Q+QQ         Q + PQQ   PQ Q Q
Sbjct: 759 VAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQ 818

Query: 72  QNQH 75
           Q Q 
Sbjct: 819 QPQQ 822

Length = 1355

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 14/43 (32%), Positives = 15/43 (34%)

Query: 32  FLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQQQQNQ 74
            L  Q   Q  +Q  Q  Q    Q     Q QQ   QQQ Q  
Sbjct: 610 DLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQG 652

Length = 820

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 37.5 bits (88), Expect = 0.002
 Identities = 20/64 (31%), Positives = 37/64 (57%)

Query: 109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL 168
           + E  N  +K ++ L    E+LD K   +E +  +LE+ E+ L Q+++ ++K    +EEL
Sbjct: 77  LRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEEL 136

Query: 169 IEYE 172
           IE +
Sbjct: 137 IEEQ 140

Length = 520

>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 16/68 (23%), Positives = 37/68 (54%)

Query: 103 QQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYM 162
            + +  + E  N  ++ ++ L    E+LD K  +++ +   LE+ E+ L+ +++ +D+  
Sbjct: 65  AELERELKERRNELQRLERRLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKE 124

Query: 163 NSVEELIE 170
             +EELI 
Sbjct: 125 EELEELIA 132

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|224313 COG1395, COG1395, Predicted transcriptional regulator [Transcription]

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 22/94 (23%), Positives = 42/94 (44%), Gaps = 13/94 (13%)

Query: 83  FHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQ------LLSSISESLDTKAMT 136
           F +L   +   DA+    +D       N L    E+ +       LLS ISE ++++++ 
Sbjct: 218 FKVLPTKQAPFDAV---AKD---SEDNNLLLTGIEERKDKEKRARLLSKISEVVESESVL 271

Query: 137 VEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE 170
           +  +    E  E +     E ++K ++  +ELIE
Sbjct: 272 IIKEPAVRESVEGVPIVSIEELEK-ISDADELIE 304

Length = 313

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	173
PF07544	83	Med9: RNA polymerase II transcription mediator com	98.15
PF00804	103	Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins	88.39
PF00435	105	Spectrin: Spectrin repeat; InterPro: IPR002017 Spe	85.36
PF10186	302	Atg14: UV radiation resistance protein and autopha	85.0
smart00150	101	SPEC Spectrin repeats.	83.53
PF09177	97	Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IP	81.18

>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=98.15  E-value=9.3e-06  Score=58.39  Aligned_cols=77  Identities=21%  Similarity=0.406  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHhhh-CCcc-ccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHH
Q 030692           86 LHLMENLADAIEN-GTRD-QQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMN  163 (173)
Q Consensus        86 ~~Lve~LaDaie~-GtRD-Q~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~  163 (173)
                      +|.|-++-..+.+ +..| +..+.-+.+|..+|.+|..++.++.| |+   .+|+-|...+++.|..+...+++|.+||+
T Consensus         5 lP~i~~~l~~~~~d~~~~~kd~~~~~~~lk~Klq~ar~~i~~lpg-i~---~s~eeq~~~i~~Le~~i~~k~~~L~~~~~   80 (83)
T PF07544_consen    5 LPLIFDILHQISKDPPLSSKDLDTATGSLKHKLQKARAAIRELPG-ID---RSVEEQEEEIEELEEQIRKKREVLQKFKE   80 (83)
T ss_pred             cchHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCC-cc---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444 5554 34567788899999999999999998 55   79999999999999999999999999999


Q ss_pred             HHH
Q 030692          164 SVE  166 (173)
Q Consensus       164 sVE  166 (173)
                      .|+
T Consensus        81 ~~~   83 (83)
T PF07544_consen   81 RVM   83 (83)
T ss_pred             hhC
Confidence            885

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane

Probab=88.39  E-value=2.8  Score=28.34  Aligned_cols=58  Identities=24%  Similarity=0.359  Sum_probs=43.8

Q ss_pred             ccchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHH
Q 030692          103 QQSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNS  164 (173)
Q Consensus       103 Q~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~s  164 (173)
                      ...|+|+.+++..|.+|..-|..|+....    +-++....-.+.+-+-|+...|..++++.
T Consensus        45 ~el~~l~~~i~~~~~~~~~~lk~l~~~~~----~~~~~~~~~~~~ri~~nq~~~L~~kf~~~  102 (103)
T PF00804_consen   45 RELDELTDEIKQLFQKIKKRLKQLSKDNE----DSEGEEPSSNEVRIRKNQVQALSKKFQEV  102 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHCTT--SHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hhcccCCCcHHHHHHHHHHHHHHHHHHHH
Confidence            34588999999999999999999998743    44555556667777778888888887764

Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.

>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure

Probab=85.36  E-value=4.2  Score=26.38  Aligned_cols=35  Identities=23%  Similarity=0.406  Sum_probs=22.8

Q ss_pred             chhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692          136 TVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE  170 (173)
Q Consensus       136 tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~  170 (173)
                      .|+-+.+++++.+..+..+++-|..-......|+.
T Consensus        35 ~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~   69 (105)
T PF00435_consen   35 ELEEQLKKHKELQEEIESRQERLESLNEQAQQLID   69 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            56666666666666666666666666666666544

These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=85.00  E-value=6.1  Score=31.64  Aligned_cols=59  Identities=24%  Similarity=0.406  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHH
Q 030692          109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEE  167 (173)
Q Consensus       109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEe  167 (173)
                      +.++..+.++++.=++.|...|......++.-|+++++.+..|..|+..++.+...+++
T Consensus        58 ~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~  116 (302)
T PF10186_consen   58 IQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVES  116 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555566665555555677777788888888888888777755444443

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>smart00150 SPEC Spectrin repeats

Probab=83.53  E-value=9.7  Score=24.67  Aligned_cols=63  Identities=27%  Similarity=0.266  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692          107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY  171 (173)
Q Consensus       107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~  171 (173)
                      .-+++|.+-++.....|++..  +++..-.|+.+.+++++.+.-+..+++-|..-....++|+..
T Consensus         5 ~~~~~l~~Wl~~~e~~l~~~~--~~~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~~~~L~~~   67 (101)
T smart00150        5 RDADELEAWLSEKEALLASED--LGKDLESVEALLKKHEALEAELEAHEERVEALNELGEQLIEE   67 (101)
T ss_pred             HHHHHHHHHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence            334555555555556665433  334455777777777777777777777777776666666654

>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle

Probab=81.18  E-value=9.1  Score=27.59  Aligned_cols=60  Identities=22%  Similarity=0.350  Sum_probs=44.4

Q ss_pred             chHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 030692          105 SDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEEL  168 (173)
Q Consensus       105 sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel  168 (173)
                      .+.+.+||.+-+..+.--|.-+..+|.    .|+.--.+--=++..|..||..|+..+.-|.+|
T Consensus        37 ~~~~~~eL~~~l~~ie~~L~DL~~aV~----ive~np~kF~l~~~Ei~~Rr~fv~~~~~~i~~~   96 (97)
T PF09177_consen   37 LKWLKRELRNALQSIEWDLEDLEEAVR----IVEKNPSKFNLSEEEISRRRQFVSAIRNQIKQM   96 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHCCHHHHT-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhCccccCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            466778888888888888888887766    444433333334567999999999999998875

Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.

---

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	173
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.5 bits (91), Expect = 3e-04
 Identities = 22/154 (14%), Positives = 45/154 (29%), Gaps = 40/154 (25%)

Query: 27  NQDNLFLSPQHQQQFYQQPTQFPQQQFQQQGRTPQQQQQPQQQ----QQQNQHHQSLASN 82
           N     L  +  Q+   Q       +         +    Q +     +   +   L   
Sbjct: 193 NSPETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL--- 247

Query: 83  FHLLHLMENLADAIENGTRDQQSDALVNELNNHFEKCQQLLS----SISESLD---TKAM 135
              L L             + Q+    N  N     C+ LL+     +++ L    T  +
Sbjct: 248 ---LVL------------LNVQNAKAWNAFNL---SCKILLTTRFKQVTDFLSAATTTHI 289

Query: 136 TVEGQRRKLEESEQLLNQRKELIDKYMN-SVEEL 168
           +++     L   E        L+ KY++   ++L
Sbjct: 290 SLDHHSMTLTPDEVK-----SLLLKYLDCRPQDL 318

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	173
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	95.5
3uun_A	119	Dystrophin; triple helical, cell structure and sta	88.11
4abx_A	175	DNA repair protein RECN; DNA binding protein, ATP	85.48
3uul_A	118	Utrophin; spectrin repeat, structural protein, cyt	84.84

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=95.50  E-value=0.0034  Score=56.10  Aligned_cols=12  Identities=25%  Similarity=0.504  Sum_probs=0.0

Q ss_pred             CcceeccCCCCC
Q 030692            8 GSWNMMPSIPSH   19 (173)
Q Consensus         8 GSwtMiPs~~~~   19 (173)
                      .+..|+|..+.+
T Consensus         9 ~~~~~~~~~~~~   20 (727)
T 4b8c_D            9 NSIGMVPTVGTP   20 (727)
T ss_dssp             ------------
T ss_pred             cccCCCcccCCc
Confidence            456677744433

>3uun_A Dystrophin; triple helical, cell structure and stability, cytoskeletal, structural protein; 2.30A {Homo sapiens}

Probab=88.11  E-value=2.5  Score=27.99  Aligned_cols=64  Identities=13%  Similarity=0.103  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692          107 ALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY  171 (173)
Q Consensus       107 aLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~  171 (173)
                      .-+++|.+=+..+...|.+. ..++...-+|+.+.++.++.+.-+..++..|..-.+..++|+..
T Consensus         9 ~~l~el~~WL~~~e~~l~~~-~~~~~d~~~v~~~l~~h~~l~~ei~~~~~~v~~~~~~g~~L~~~   72 (119)
T 3uun_A            9 TALEEVLSWLLSAEDTLQAQ-GEISNDVEVVKDQFHTHEGYMMDLTAHQGRVGNILQLGSKLIGT   72 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-CSCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCC-CCCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence            34556666666666666553 23445556888899999999999999988888888888887753

>4abx_A DNA repair protein RECN; DNA binding protein, ATP binding protein, double break repair, coiled-coil; HET: DNA; 2.04A {Deinococcus radiodurans}

Probab=85.48  E-value=0.69  Score=35.13  Aligned_cols=60  Identities=22%  Similarity=0.350  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHhhhhhccccc--ccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030692          109 VNELNNHFEKCQQLLSSISESLDTK--AMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIE  170 (173)
Q Consensus       109 v~ELts~F~kcQQlLnSiS~Si~sk--~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~  170 (173)
                      +.++...++.|.-.|.-++..|+.-  .+..+-  ..|++.+..|+.=+.|-.||..+|++|+.
T Consensus        89 l~~~~e~l~~a~~~l~d~~~~L~~y~~~le~DP--~rL~~ie~RL~~l~~L~RKyg~~~eell~  150 (175)
T 4abx_A           89 VMQLQNELRAALESVQAIAGELRDVAEGSAADP--EALDRVEARLSALSKLKNKYGPTLEDVVE  150 (175)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCH--HHHHHHHHHHHHHHHHHHHHCSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCH--HHHHHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence            3444444455555555555444321  233343  45999999999999999999999999975

>3uul_A Utrophin; spectrin repeat, structural protein, cytoskeletal, helical bundle; 1.95A {Rattus norvegicus} PDB: 3uum_A

Probab=84.84  E-value=4.4  Score=26.94  Aligned_cols=63  Identities=10%  Similarity=0.118  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692          108 LVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY  171 (173)
Q Consensus       108 Lv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~  171 (173)
                      -+++|.+=+..+...|.+. ..++...-+|+.|.++.++.+.-+..++..|..-....+.|+..
T Consensus        10 ~l~el~~WL~e~e~~l~~~-~~~~~d~~~v~~~l~~h~~l~~ei~~~~~~v~~v~~~g~~L~~~   72 (118)
T 3uul_A           10 ALEEVLTWLLSAEDTFQEQ-DDISDDVEDVKEQFATHETFMMELSAHQSSVGSVLQAGNQLMTQ   72 (118)
T ss_dssp             HHHHHHHHHHHHHHHHHTS-CCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHcC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3455555566666555542 33455556888888888888888888888888888888887753

---

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	Length	Definition	Probability
Query	173
d1u5pa1	110	Spectrin alpha chain {Chicken (Gallus gallus) [Tax	90.27
d1cuna2	104	Spectrin alpha chain {Chicken (Gallus gallus) [Tax	87.53
d2spca_	107	Spectrin alpha chain {Drosophila sp. [TaxId: 7242]	83.03
d1u5pa2	101	Spectrin alpha chain {Chicken (Gallus gallus) [Tax	82.41

>d1u5pa1 a.7.1.1 (A:1662-1771) Spectrin alpha chain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Spectrin repeat
family: Spectrin repeat
domain: Spectrin alpha chain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=90.27  E-value=0.52  Score=29.89  Aligned_cols=68  Identities=10%  Similarity=0.174  Sum_probs=49.4

Q ss_pred             cchHHHHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030692          104 QSDALVNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP  173 (173)
Q Consensus       104 ~sDaLv~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~~p  173 (173)
                      .+..=+++|.+-++....+|.+-  .+++..-+|+.+.++.++.+..++.+++-|.+-....+.|+...|
T Consensus         6 ~F~~~~~el~~Wl~e~e~~l~~~--~~g~d~~~~~~~~~~h~~~~~ei~~~~~~i~~l~~~~~~L~~~~~   73 (110)
T d1u5pa1           6 NFNTGIKDFDFWLSEVEALLASE--DYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNSQADSLMTSSA   73 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCC--CCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCC--CCCCCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCC
Confidence            34445666666666667777653  344555578888888888888899999888888888888887543

>d1cuna2 a.7.1.1 (A:116-219) Spectrin alpha chain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Spectrin repeat
family: Spectrin repeat
domain: Spectrin alpha chain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=87.53  E-value=1.2  Score=28.08  Aligned_cols=62  Identities=21%  Similarity=0.265  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030692          109 VNELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYE  172 (173)
Q Consensus       109 v~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~~  172 (173)
                      ++++.+=+.....+|++  ..++...-.|+...++.++.+..+..|++-+..-....++|+...
T Consensus         6 ~~e~~~Wl~e~~~~l~~--~~~g~d~~~v~~ll~~h~~~~~ei~~~~~~~~~l~~~g~~L~~~~   67 (104)
T d1cuna2           6 VEEEEAWINEKMTLVAS--EDYGDTLAAIQGLLKKHEAFETDFTVHKDRVNDVCANGEDLIKKN   67 (104)
T ss_dssp             HHHHHHHHHHHHHHHTC--CCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhC--CCCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcC
Confidence            45566666666666654  456666668999999999999999999998888888888887654

>d2spca_ a.7.1.1 (A:) Spectrin alpha chain {Drosophila sp. [TaxId: 7242]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Spectrin repeat
family: Spectrin repeat
domain: Spectrin alpha chain
species: Drosophila sp. [TaxId: 7242]

Probab=83.03  E-value=1.8  Score=26.91  Aligned_cols=60  Identities=15%  Similarity=0.170  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030692          110 NELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEY  171 (173)
Q Consensus       110 ~ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~  171 (173)
                      +++.+-......+|++.  .++...-.|+...++.++.+..+..+.+-|..-...-+.|+..
T Consensus        13 ~~~~~Wl~e~e~~l~~~--~~g~d~~~~~~l~~~h~~~~~ei~~~~~~~~~l~~~~~~L~~~   72 (107)
T d2spca_          13 ELAESWMSAREAFLNAD--DDANAGGNVEALIKKHEDFDKAINGHEQKIAALQTVADQLIAQ   72 (107)
T ss_dssp             HHHHHHHHHHHHHHHHH--HHHCCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCC--CCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence            33444444455555553  2344555888888999999988888888888887777777754

>d1u5pa2 a.7.1.1 (A:1772-1872) Spectrin alpha chain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Spectrin repeat
family: Spectrin repeat
domain: Spectrin alpha chain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=82.41  E-value=3  Score=25.61  Aligned_cols=61  Identities=18%  Similarity=0.225  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHhhhhhcccccccchhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030692          111 ELNNHFEKCQQLLSSISESLDTKAMTVEGQRRKLEESEQLLNQRKELIDKYMNSVEELIEYEP  173 (173)
Q Consensus       111 ELts~F~kcQQlLnSiS~Si~sk~~tV~gQk~~LeEseqlL~qRrdli~kYr~sVEel~~~~p  173 (173)
                      ++.+-......+|.|  ..++...-.|+...++.++.+.-+..|.+-|..-.++.++|+...|
T Consensus         9 el~~Wl~e~~~~l~s--~~~g~d~~~~~~ll~~h~~~~~~i~~~~~~~~~l~~~~~~l~~~~~   69 (101)
T d1u5pa2           9 DEESWIKEKKLLVSS--EDYGRDLTGVQNLRKKHKRLEAELAAHEPAIQGVLDTGKKLSDDNT   69 (101)
T ss_dssp             HHHHHHHHHHHHHTC--CCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCC
Confidence            333333334444433  2233333478889999999999999999999988888888887643