Citrus Sinensis ID: 025142

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------
Protein Sequence
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIPSVTMVLH
Secondary Structure (PSIPRED)
cccccccccccEEEEEccccEEEEEccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccEEHHHHHHHHHcEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcEEEEEEEcccHHEEEEcccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccEEEEEHHEHHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEEEEcccccccccEEcc
Coil and Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGytgtilvkdgklPELLRELQSLVERLSksgeqdnfTDAIKDQLNRLKFECqrassgqifvrnensggnatslmIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLdgkidsladkqdiTNIGMYLLCnfvdgkkgrttesMQVGIVGYFlydsneipsvtmvlh
Flexible Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVErlsksgeqdnfTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRiqnlndkvekqneisKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYflydsneiPSVTMVLH
Low Complexity Region (SEG)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIPSVTMVLH
Disordered region (IsUnstruct)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLV***************IKDQLNRLKFECQRASSGQIFVRNE**GGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRI******************KNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIP*******
Disordered Region (DISOPRED)
*******SFQKILMLAGLGYTGTILVKDGKLPELLRE***********************QLNRL********************GNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEI**D****VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVD*********************************
Disordered Region (DISEMBL)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIPSVTMVLH
Disordered Region (DISPRO)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNE*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIPSVTMVLH
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	257
224102025	316	predicted protein [Populus trichocarpa]	0.976	0.794	0.560	4e-71
224108101	316	predicted protein [Populus trichocarpa]	0.914	0.743	0.578	1e-70
359473271	307	PREDICTED: uncharacterized protein LOC10	0.976	0.817	0.538	2e-64
449451443	293	PREDICTED: uncharacterized protein LOC10	0.914	0.802	0.533	2e-64
21537323	304	unknown [Arabidopsis thaliana]	0.918	0.776	0.539	4e-63
18396143	304	uncharacterized protein [Arabidopsis tha	0.918	0.776	0.539	4e-63
8778852	334	T7N9.6 [Arabidopsis thaliana]	0.918	0.706	0.526	5e-61
297850966	304	hypothetical protein ARALYDRAFT_890018 [	0.918	0.776	0.522	7e-61
15227027	276	uncharacterized protein [Arabidopsis tha	0.879	0.818	0.491	3e-55
449496535	212	PREDICTED: uncharacterized LOC101210112	0.770	0.933	0.556	3e-55

>gi|224102025|ref|XP_002312515.1| predicted protein [Populus trichocarpa] gi|222852335|gb|EEE89882.1| predicted protein [Populus trichocarpa]

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 149/266 (56%), Positives = 190/266 (71%), Gaps = 15/266 (5%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQAG+S  +IL+LAG GYTGTI++K+GKL ELL ELQSL + + KSGEQ +    ++D
Sbjct: 1   MAMQAGVSVSRILILAGAGYTGTIMLKNGKLSELLGELQSLTKGMGKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V N NSG  GN T L+ PAATLGALGYGYMWWKGL F
Sbjct: 61  AIAQQVRRLAMEVRQLASARQITVLNGNSGQMGNLTGLIAPAATLGALGYGYMWWKGLKF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +D MYVT++SMA+AVSNL KHLE V+EAL+ AK HLTQRIQ L+DK+E Q EISK I+ +
Sbjct: 121 SDFMYVTKRSMASAVSNLTKHLEQVSEALSTAKTHLTQRIQLLDDKMESQKEISKAIQND 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES 233
           V  A ++L ++   L  LQ ++  LDGKI SL +KQDI N+G+  LCNFV GKK +  ++
Sbjct: 181 VNAASENLTQIGSELWQLQCLVSGLDGKIGSLEEKQDIANMGVMYLCNFVGGKKAKMPKA 240

Query: 234 M--QVGIVGY----FLYDSNEIPSVT 253
           +  Q    G      +Y  +E+PS+T
Sbjct: 241 LEDQFKPSGRTRASLMY--SEVPSLT 264

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108101|ref|XP_002314721.1| predicted protein [Populus trichocarpa] gi|222863761|gb|EEF00892.1| predicted protein [Populus trichocarpa]

 Score =  271 bits (694), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 140/242 (57%), Positives = 181/242 (74%), Gaps = 7/242 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQAG+   +IL+LAG GYTGTI++K+GKL EL+ ELQSLV+ + KSGE+ +    ++D
Sbjct: 1   MAMQAGIGVSRILILAGAGYTGTIMLKNGKLSELIAELQSLVKGMEKSGEKSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V + N G  GN T L+IPAATLGALGYGYMWWKGL F
Sbjct: 61  AIAQQVRRLAMEVRQLASARQITVLSGNPGQMGNLTGLIIPAATLGALGYGYMWWKGLKF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT++SMA+AVSNL KHLE V+EAL+ AK HLTQRIQ+L+DK+E Q EISK I+ +
Sbjct: 121 SDLMYVTKRSMASAVSNLTKHLEQVSEALSTAKTHLTQRIQHLDDKMESQKEISKAIQND 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES 233
           V  A ++L  +   L  LQ ++  LDGKI SL +KQDI N+G+  LCNFV GKK +  ++
Sbjct: 181 VNAASENLTLIGSELWQLQCLVSGLDGKIGSLEEKQDIANMGVMYLCNFVGGKKAKMPKA 240

Query: 234 MQ 235
           ++
Sbjct: 241 LE 242

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473271|ref|XP_002277155.2| PREDICTED: uncharacterized protein LOC100246806 [Vitis vinifera] gi|296086423|emb|CBI32012.3| unnamed protein product [Vitis vinifera]

 Score =  251 bits (642), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 141/262 (53%), Positives = 181/262 (69%), Gaps = 11/262 (4%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQ G+   KIL+L G GYT TIL+K+GKL ++L ELQSLV+ L K G+  N    ++D
Sbjct: 1   MAMQTGVGVSKILILVGAGYTSTILLKNGKLSDILGELQSLVKGLEKKGDSSNGEADYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V N NSG  GN TSL IPAATLGALGYGYMWWKGLS 
Sbjct: 61  AIAAQVRRLAMEVKQLASARQITVLNGNSGQIGNITSLAIPAATLGALGYGYMWWKGLSI 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+K+M TAV+NL KHLE V++AL+  K+HLTQRI+NL+ K+++Q EISK I+  
Sbjct: 121 SDLMYVTKKNMETAVTNLKKHLEHVSDALSATKRHLTQRIENLDGKLDEQKEISKLIKNE 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES 233
           V EA  D+ ++  +L  LQ M+  LDGKI SL  KQ+    G+  LCN V+G+    +E+
Sbjct: 181 VTEARGDISQIGFDLDSLQRMVSGLDGKIGSLEYKQNFAVEGVVYLCNAVNGRSVPMSET 240

Query: 234 M--QVGIVG--YFLYDSNEIPS 251
           M  Q+ + G  + L  S E PS
Sbjct: 241 MLKQLKLPGKSHGLLTSTEAPS 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451443|ref|XP_004143471.1| PREDICTED: uncharacterized protein LOC101210112 [Cucumis sativus]

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 129/242 (53%), Positives = 176/242 (72%), Gaps = 7/242 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAM  G+   KIL+L G GY+ TI++K+GKL ++L ELQSLV+ + KSGEQ +    ++D
Sbjct: 1   MAMHTGVGLSKILILVGAGYSTTIMLKNGKLSDVLGELQSLVKGMEKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q +SS QI + N NSG  GN +SL++PAATLGALGYGYMWWKGLSF
Sbjct: 61  AIAAQVRRLAMEVRQLSSSRQITILNGNSGNIGNLSSLIVPAATLGALGYGYMWWKGLSF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+++MA AVSNL KHLE V+EAL   K+HLTQRI+NL+DK+ KQNE+SK I+++
Sbjct: 121 SDLMYVTKRNMANAVSNLTKHLEHVSEALAATKRHLTQRIENLDDKMVKQNELSKLIKED 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES 233
           V      L  ++ +L +L +M+  LDGK+  L  KQD   +G+  LCN VDGK+ +  ++
Sbjct: 181 VAGVQKSLSDIDFDLGELHNMVSGLDGKLSQLEFKQDFATLGVMYLCNVVDGKQVKMPDT 240

Query: 234 MQ 235
           ++
Sbjct: 241 LK 242

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21537323|gb|AAM61664.1| unknown [Arabidopsis thaliana]

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 130/241 (53%), Positives = 169/241 (70%), Gaps = 5/241 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQ 235
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E  Q
Sbjct: 181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPEMEQ 240

Query: 236 V 236
           +
Sbjct: 241 L 241

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18396143|ref|NP_564269.1| uncharacterized protein [Arabidopsis thaliana] gi|13430462|gb|AAK25853.1|AF360143_1 unknown protein [Arabidopsis thaliana] gi|15810657|gb|AAL07253.1| unknown protein [Arabidopsis thaliana] gi|15982836|gb|AAL09765.1| At1g27000/T7N9_6 [Arabidopsis thaliana] gi|332192646|gb|AEE30767.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 130/241 (53%), Positives = 169/241 (70%), Gaps = 5/241 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQ 235
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E  Q
Sbjct: 181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPEMEQ 240

Query: 236 V 236
           +
Sbjct: 241 L 241

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|8778852|gb|AAF79851.1|AC000348_4 T7N9.6 [Arabidopsis thaliana]

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/247 (52%), Positives = 169/247 (68%), Gaps = 11/247 (4%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG------GNATSLMIPAATLGALGYGYMWWK 109
           AI  Q+ RL  E  Q AS   I V N  SG       N  +L +PAA LGALGYGYMWWK
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGDSLVFSANLQALAVPAAALGALGYGYMWWK 120

Query: 110 GLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKD 169
           GLSF DLMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+
Sbjct: 121 GLSFTDLMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKE 180

Query: 170 IRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGR 229
           I   V  A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +
Sbjct: 181 INSQVISARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTK 240

Query: 230 TTESMQV 236
             E  Q+
Sbjct: 241 LPEMEQL 247

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850966|ref|XP_002893364.1| hypothetical protein ARALYDRAFT_890018 [Arabidopsis lyrata subsp. lyrata] gi|297339206|gb|EFH69623.1| hypothetical protein ARALYDRAFT_890018 [Arabidopsis lyrata subsp. lyrata]

 Score =  239 bits (610), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 126/241 (52%), Positives = 166/241 (68%), Gaps = 5/241 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAM AG+   +I +LAG GYTGTI++K+GKL +LL ELQ LV+ + KSGE      + +D
Sbjct: 1   MAMHAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQGLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGY YMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEVRQLASQQHITVMNGVSGANLQALAVPAAALGALGYSYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQN++DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNVDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQ 235
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E  Q
Sbjct: 181 AARENINSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLHLYNYFGGKSTKLPEMEQ 240

Query: 236 V 236
           +
Sbjct: 241 L 241

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227027|ref|NP_178376.1| uncharacterized protein [Arabidopsis thaliana] gi|42570657|ref|NP_973402.1| uncharacterized protein [Arabidopsis thaliana] gi|20196955|gb|AAC05349.2| expressed protein [Arabidopsis thaliana] gi|21618010|gb|AAM67060.1| unknown [Arabidopsis thaliana] gi|26453164|dbj|BAC43658.1| unknown protein [Arabidopsis thaliana] gi|28950835|gb|AAO63341.1| At2g02730 [Arabidopsis thaliana] gi|330250522|gb|AEC05616.1| uncharacterized protein [Arabidopsis thaliana] gi|330250523|gb|AEC05617.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 112/228 (49%), Positives = 164/228 (71%), Gaps = 2/228 (0%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQ-DNFTDAIK 59
           MAMQ+G+   KIL+LAG GYT TILVK+GK+ ++L ELQ+LV+R  KSG+  D+ +DA+ 
Sbjct: 1   MAMQSGIGLSKILILAGAGYTSTILVKNGKMADILGELQALVKRFEKSGDHVDDDSDAMT 60

Query: 60  DQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMY 118
            Q+ RL  E  Q ASS QI V N   G + T  ++PAATLGALGYGYMW+KG+SF+D+M 
Sbjct: 61  TQMQRLAMEVRQLASSRQITVMNGAQGADFTPFIVPAATLGALGYGYMWFKGISFSDIMC 120

Query: 119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC 178
           VT+++M  AVSNL KHL++V+EA+  AKKHL+QR+Q ++DK++ Q ++ K ++ NV  A 
Sbjct: 121 VTKRNMENAVSNLTKHLDTVSEAILNAKKHLSQRLQKVDDKLDLQKDLLKGVQDNVGLAL 180

Query: 179 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGK 226
           +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+
Sbjct: 181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGE 228

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449496535|ref|XP_004160159.1| PREDICTED: uncharacterized LOC101210112 [Cucumis sativus]

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 114/205 (55%), Positives = 152/205 (74%), Gaps = 7/205 (3%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAM  G+   KIL+L G GY+ TI++K+GKL ++L ELQSLV+ + KSGEQ +    ++D
Sbjct: 1   MAMHTGVGLSKILILVGAGYSTTIMLKNGKLSDVLGELQSLVKGMEKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q +SS QI + N NSG  GN +SL++PAATLGALGYGYMWWKGLSF
Sbjct: 61  AIAAQVRRLAMEVRQLSSSRQITILNGNSGNIGNLSSLIVPAATLGALGYGYMWWKGLSF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+++MA AVSNL KHLE V+EAL   K+HLTQRI+NL+DK+ KQNE+SK I+++
Sbjct: 121 SDLMYVTKRNMANAVSNLTKHLEHVSEALAATKRHLTQRIENLDDKMVKQNELSKLIKED 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCL 198
           V      L  ++ +L +L +M+  L
Sbjct: 181 VAGVQKSLSDIDFDLGELHNMVSGL 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	257
TAIR|locus:2205734	304	AT1G27000 "AT1G27000" [Arabido	0.918	0.776	0.535	3.1e-60
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.879	0.818	0.491	5.5e-54
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.844	0.649	0.384	8.3e-35
TAIR|locus:1005716745	344	AT1G24267 "AT1G24267" [Arabido	0.778	0.581	0.281	2.8e-18
TAIR|locus:2823619	51	AT1G44674 "AT1G44674" [Arabido	0.198	1.0	0.470	5e-08

TAIR|locus:2205734 AT1G27000 "AT1G27000" [Arabidopsis thaliana (taxid:3702)]

 Score = 617 (222.3 bits), Expect = 3.1e-60, P = 3.1e-60
 Identities = 129/241 (53%), Positives = 171/241 (70%)

Query:     1 MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
             MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct:     1 MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query:    57 AIKDQLNRLKFECQRASSGQ-IFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
             AI  Q+ RL  E ++ +S Q I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct:    61 AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query:   116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
             LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct:   121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query:   176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQ 235
              A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E  Q
Sbjct:   181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPEMEQ 240

Query:   236 V 236
             +
Sbjct:   241 L 241

GO:0003677 "DNA binding" evidence=ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

TAIR|locus:2058832 AT2G02730 "AT2G02730" [Arabidopsis thaliana (taxid:3702)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 112/228 (49%), Positives = 164/228 (71%)

Query:     1 MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQ-DNFTDAIK 59
             MAMQ+G+   KIL+LAG GYT TILVK+GK+ ++L ELQ+LV+R  KSG+  D+ +DA+ 
Sbjct:     1 MAMQSGIGLSKILILAGAGYTSTILVKNGKMADILGELQALVKRFEKSGDHVDDDSDAMT 60

Query:    60 DQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMY 118
              Q+ RL  E  Q ASS QI V N   G + T  ++PAATLGALGYGYMW+KG+SF+D+M 
Sbjct:    61 TQMQRLAMEVRQLASSRQITVMNGAQGADFTPFIVPAATLGALGYGYMWFKGISFSDIMC 120

Query:   119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC 178
             VT+++M  AVSNL KHL++V+EA+  AKKHL+QR+Q ++DK++ Q ++ K ++ NV  A 
Sbjct:   121 VTKRNMENAVSNLTKHLDTVSEAILNAKKHLSQRLQKVDDKLDLQKDLLKGVQDNVGLAL 180

Query:   179 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGK 226
             +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+
Sbjct:   181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGE 228

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2010602 AT1G04960 "AT1G04960" [Arabidopsis thaliana (taxid:3702)]

 Score = 377 (137.8 bits), Expect = 8.3e-35, P = 8.3e-35
 Identities = 87/226 (38%), Positives = 137/226 (60%)

Query:    19 GYTGTILVKDGKLPELLRELQSLVERL----SKSGEQDNFTDA--IKDQLNRLKFECQRA 72
             G +G+I+++ G+L +L+ +LQ L+       S   + D    A  I+   N +K E    
Sbjct:    36 GVSGSIVLRHGRLSDLIAQLQDLLNGAQGVESTPFKYDGALLAAQIRQLANEIK-ELTMT 94

Query:    73 SSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLN 132
             +   IF  + NS G A S ++PAA +GA+GY YMWWKG SF+D M+VT+K+MA AV++++
Sbjct:    95 NPVTIFNGDSNSSGYA-SYLVPAAAVGAMGYCYMWWKGWSFSDAMFVTKKNMADAVASVS 153

Query:   133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQ 192
             K L+ +++ L   +KHL+Q++  L+ KVE+QNE SK I  +V E    + ++  + K L 
Sbjct:   154 KQLDDLSDTLASTRKHLSQKLATLDWKVEEQNETSKMILSDVTEMRSSISQIGFDFKQLN 213

Query:   193 SMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQ-VG 237
              MI  ++GKI+SL  KQD+T  G++ LC     K   +T+  Q VG
Sbjct:   214 EMISGIEGKIESLESKQDVTLSGLWHLCQVAGVKDSTSTKVFQDVG 259

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1005716745 AT1G24267 "AT1G24267" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 62/220 (28%), Positives = 107/220 (48%)

Query:    11 KILMLAGLGYTGTILVKDGKLPEL-----------LRELQSLVERLSKSGEQDNFTDAIK 59
             K+ +L G G  G++L K+G LP++            R+L+   E  +KS  +    D + 
Sbjct:     7 KLTILIGAGLVGSVLAKEGSLPDVSSFVSGALKMVFRQLKQ--EEPAKSASKPR-NDTLM 63

Query:    60 DQLNRLKFECQRASSGQ--IFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLM 117
              Q+N L+ E    SS +    V    SGG     +I    +G +GYGY+WWKG    DLM
Sbjct:    64 AQVNSLRHELSLLSSNRPITIVTTAGSGGKKYGYII---IIGVIGYGYVWWKGWKLPDLM 120

Query:   118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA 177
             + TR+S++ A +++   ++    +L+  KK L+ +I  +   ++   EI +D  + V E 
Sbjct:   121 FATRRSLSDACNSVGSQIDGFYTSLSGTKKELSSKIDGMGRSLDANTEIIQDTGREVMEL 180

Query:   178 CDDLFKVEHNLKDLQSMIYCLDGK-IDSLADKQDITNIGM 216
                   ++ ++K +   +  L  K I  +   QDIT  G+
Sbjct:   181 QRGTENIKDDVKFVFDAVENLVRKLIYRIEGNQDITLKGV 220

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0031307 "integral to mitochondrial outer membrane" evidence=IDA

TAIR|locus:2823619 AT1G44674 "AT1G44674" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 5.0e-08, P = 5.0e-08
 Identities = 24/51 (47%), Positives = 39/51 (76%)

Query:   124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV 174
             MAT V+NL K+LE V++ L  A +HL Q+IQ+++DKV+KQ +++++I   V
Sbjct:     1 MATVVANLTKNLEQVSKILAAANRHLMQKIQSVDDKVKKQIDLNEEINSQV 51


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        0.317   0.133   0.375    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      257       257   0.00086  114 3  11 22  0.47    33
                                                     32  0.48    36


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:  5
  No. of states in DFA:  578 (61 KB)
  Total size of DFA:  170 KB (2101 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:  30.56u 0.10s 30.66t   Elapsed:  00:00:02
  Total cpu time:  30.56u 0.10s 30.66t   Elapsed:  00:00:02
  Start:  Mon May 20 19:44:10 2013   End:  Mon May 20 19:44:12 2013

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: grail3.0009004702 hypothetical protein (316 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	257
pfam07889	125	pfam07889, DUF1664, Protein of unknown function (D	5e-49

>gnl|CDD|203795 pfam07889, DUF1664, Protein of unknown function (DUF1664)

 Score =  157 bits (399), Expect = 5e-49
 Identities = 62/125 (49%), Positives = 91/125 (72%)

Query: 85  GGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTV 144
           G     L++PAA LGALGYGYMWWKG SF+DLM+VT+++M+ AV+++ K LE V+E++  
Sbjct: 1   GSGRKYLIVPAAALGALGYGYMWWKGWSFSDLMFVTKRNMSDAVASVGKQLEKVSESIAA 60

Query: 145 AKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS 204
           AKKHL+QRI NL+DK+++Q EIS+  R  V E  +DL  +  ++K +   +  L+GK+DS
Sbjct: 61  AKKHLSQRIDNLDDKLDEQKEISESTRDEVTEIREDLSNIGEDVKSVHQAVEGLEGKLDS 120

Query: 205 LADKQ 209
           +  KQ
Sbjct: 121 IEYKQ 125

The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long. Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	257
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	100.0
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	96.4
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.84
PRK10884	206	SH3 domain-containing protein; Provisional	95.72
PRK11637	428	AmiB activator; Provisional	95.32
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	95.31
PRK03947	140	prefoldin subunit alpha; Reviewed	93.98
PHA02562	562	46 endonuclease subunit; Provisional	93.9
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	93.55
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.46
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	93.4
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	93.1
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	93.05
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	93.03
PRK11637	428	AmiB activator; Provisional	92.96
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.95
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	92.95
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	92.8
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	92.08
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	91.63
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	91.07
COG4942	420	Membrane-bound metallopeptidase [Cell division and	90.85
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	90.77
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	90.73
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	90.11
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	89.76
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	89.09
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	88.71
PHA02562	562	46 endonuclease subunit; Provisional	88.42
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	88.33
PF05597	132	Phasin: Poly(hydroxyalcanoate) granule associated	87.94
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	87.82
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	87.79
PRK04406	75	hypothetical protein; Provisional	87.66
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	87.4
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	87.22
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	87.16
PRK10884	206	SH3 domain-containing protein; Provisional	87.03
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	86.89
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	86.66
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	86.27
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	86.16
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	85.89
PRK09039	343	hypothetical protein; Validated	85.81
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	85.78
COG2959	391	HemX Uncharacterized enzyme of heme biosynthesis [	85.48
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	85.29
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	85.23
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	85.23
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	85.18
PRK04778	569	septation ring formation regulator EzrA; Provision	85.09
PF12732	74	YtxH: YtxH-like protein; InterPro: IPR024623 This	85.05
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	85.04
PF05739	63	SNARE: SNARE domain; InterPro: IPR000727 The proce	84.64
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	84.44
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	84.41
KOG3433	203	consensus Protein involved in meiotic recombinatio	84.34
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	84.09
PF09602	165	PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion prot	83.7
PRK13182	175	racA polar chromosome segregation protein; Reviewe	83.68
PRK14011	144	prefoldin subunit alpha; Provisional	83.36
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	83.21
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	83.21
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	83.07
TIGR01837	118	PHA_granule_1 poly(hydroxyalkanoate) granule-assoc	82.95
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	82.83
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	82.32
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	82.28
PF02996	120	Prefoldin: Prefoldin subunit; InterPro: IPR004127	81.53
PF04380	79	BMFP: Membrane fusogenic activity; InterPro: IPR00	81.23
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	80.97
KOG1161	310	consensus Protein involved in vacuolar polyphospha	80.92
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	80.68
PF04799	171	Fzo_mitofusin: fzo-like conserved region; InterPro	80.49
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	80.48
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	80.33
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	80.19

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=100.00  E-value=7.8e-62  Score=401.74  Aligned_cols=126  Identities=50%  Similarity=0.903  Sum_probs=123.5

Q ss_pred             CCCCcceeehhhhhHhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 025142           83 NSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (257)
Q Consensus        83 ~sGg~~s~~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~  162 (257)
                      +|| ++++||+|||++||+|||||||||||||||||||||||+|||++|+|||||||++|++|||||+||||+||+|||+
T Consensus         1 ~sg-~~~~~i~paa~~gavGY~Y~wwKGws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe   79 (126)
T PF07889_consen    1 GSG-GWSSLIVPAAAIGAVGYGYMWWKGWSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDE   79 (126)
T ss_pred             CCC-CccchhhHHHHHHHHHheeeeecCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            356 5889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025142          163 QNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       163 ~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      |.|++++|++||+++++|+++|++|+++||++|++||+||++||+||
T Consensus        80 ~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~~Q  126 (126)
T PF07889_consen   80 QKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIEEKQ  126 (126)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999999998

The region featured in this family is approximately 100 amino acids long.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=96.40  E-value=0.01  Score=47.87  Aligned_cols=52  Identities=25%  Similarity=0.378  Sum_probs=27.9

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      ...|++.++.+++.+     =++++|..++..++++.+|++.+...+++++-..+.+
T Consensus        47 ~~~Rl~~lE~~l~~L-----Pt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   47 HDRRLQALETKLEHL-----PTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             HHHHHHHHHHHHHhC-----CCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            455555555555543     1155566666666666666666655555555444433

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=95.84  E-value=0.078  Score=50.84  Aligned_cols=10  Identities=50%  Similarity=0.876  Sum_probs=6.8

Q ss_pred             hhhheeeeEe
Q 025142           99 GALGYGYMWW  108 (257)
Q Consensus        99 GavGYgYmwW  108 (257)
                      .++|+||.||
T Consensus        41 ~alg~~~~~~   50 (372)
T PF04375_consen   41 LALGAGGWYW   50 (372)
T ss_pred             HHHHHHHHHH
Confidence            5667777666

1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.72  E-value=0.4  Score=43.11  Aligned_cols=98  Identities=15%  Similarity=0.235  Sum_probs=71.0

Q ss_pred             heeeeEe----ecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025142          102 GYGYMWW----KGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus       102 GYgYmwW----KGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (257)
                      ||.++.-    .|| +++=+-.+..++..-+..+-++|+.+.+.|+.+...+.+|-..+..++++....+..++++-.++
T Consensus        66 ~w~~Vr~~~G~~GW-V~~~~Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L  144 (206)
T PRK10884         66 NYAQIRDSKGRTAW-IPLKQLSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKL  144 (206)
T ss_pred             CEEEEEeCCCCEEe-EEHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5777763    378 45445556678999999999999999999999999999999999888888766655555555555


Q ss_pred             hhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025142          178 CDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       178 ~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                             ...+..++.-++.|+.+++.+..
T Consensus       145 -------~~~l~~~~~~~~~l~~~~~~~~~  167 (206)
T PRK10884        145 -------KNQLIVAQKKVDAANLQLDDKQR  167 (206)
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHH
Confidence                   44444555555555666665553

>PRK11637 AmiB activator; Provisional

Probab=95.32  E-value=0.23  Score=48.02  Aligned_cols=76  Identities=3%  Similarity=0.197  Sum_probs=36.0

Q ss_pred             HHHHHHhhHHHHHHHH---HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 025142          128 VSNLNKHLESVTEALT---VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       128 v~sv~kqLeqVsesL~---~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (257)
                      ...+-+++++....+.   ..++++.+.|+.++.++++..+-...++.++.++..+++....++...+.-+..+...+.
T Consensus        49 l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~  127 (428)
T PRK11637         49 LKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444443   333334455555555555555555555555555555555555555554444444444443

>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function

Probab=95.31  E-value=0.15  Score=41.69  Aligned_cols=81  Identities=21%  Similarity=0.348  Sum_probs=46.8

Q ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025142          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (257)
                      |||+|-+...=.+--.-|..+-..+...  -...+|+.|..+.+.|-|-++..+.++.       ..+.-++.|-....+
T Consensus        22 YVT~kef~efKd~~~q~L~kiE~~~~~l--~qgeqI~kL~e~V~~QGEqIkel~~e~k-------~qgktL~~I~~~L~~   92 (102)
T PF01519_consen   22 YVTHKEFDEFKDSNNQRLTKIENKLDQL--AQGEQINKLTEKVDKQGEQIKELQVEQK-------AQGKTLQLILKTLQS   92 (102)
T ss_dssp             B-BHHHHHHH---HTTB-BHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhccHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            8999999866655555555555554433  3445555555555555544444444443       445666667777777


Q ss_pred             hhhhhhhhhh
Q 025142          198 LDGKIDSLAD  207 (257)
Q Consensus       198 Le~Ki~~ie~  207 (257)
                      +..|||+||.
T Consensus        93 inkRLD~~E~  102 (102)
T PF01519_consen   93 INKRLDKMES  102 (102)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHhhccC
Confidence            7889988874

It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.98  E-value=1.8  Score=35.62  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhh
Q 025142          143 TVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACD  179 (257)
Q Consensus       143 ~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~  179 (257)
                      ..|++.|..|++.++..+++..+-...+++++..++.
T Consensus        93 ~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~  129 (140)
T PRK03947         93 DEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQ  129 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555566666666666655554444444444444433

>PHA02562 46 endonuclease subunit; Provisional

Probab=93.90  E-value=0.93  Score=44.37  Aligned_cols=90  Identities=14%  Similarity=0.268  Sum_probs=65.3

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025142          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       130 sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      .+..++++....+...++.+...|+.+..++++...-...++.++..++..+.+++.+++.+...+..++.++..++.+-
T Consensus       192 ~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l  271 (562)
T PHA02562        192 HIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKI  271 (562)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHH
Confidence            33334444444555566666677888888888888888889999999999999999998888888888888888777665


Q ss_pred             hhHhHHHHHH
Q 025142          210 DITNIGMYLL  219 (257)
Q Consensus       210 d~tn~GV~~L  219 (257)
                      ........++
T Consensus       272 ~~~~~~~~~~  281 (562)
T PHA02562        272 EQFQKVIKMY  281 (562)
T ss_pred             HHHHHHHHHh
Confidence            5544444433

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=93.55  E-value=1.7  Score=33.31  Aligned_cols=72  Identities=21%  Similarity=0.332  Sum_probs=56.1

Q ss_pred             hhHHHHHH---HHHHHHHHHHHHHhhHHhHHHHHHHHHHH--HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025142          134 HLESVTEA---LTVAKKHLTQRIQNLNDKVEKQNEISKDI--RKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       134 qLeqVses---L~~tKkhLsqRI~~vd~kld~~~eis~~i--~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (257)
                      .|+++.+.   +......|..+|+.+..+|+++.++....  -+.+. -...+.+|..+|.+++..+..|..|+..|+
T Consensus        15 ~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~-y~~KL~~ikkrm~~l~~~l~~lk~R~~~L~   91 (92)
T PF14712_consen   15 DLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDP-YVKKLVNIKKRMSNLHERLQKLKKRADKLQ   91 (92)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34444444   44556789999999999999998866544  23444 778899999999999999999999998774

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=93.46  E-value=3.2  Score=37.93  Aligned_cols=93  Identities=13%  Similarity=0.251  Sum_probs=77.2

Q ss_pred             hHHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025142          123 SMATAVSNLNKHLES-VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       123 ~ms~Av~sv~kqLeq-VsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      .|++|...+-.+-+. +...-..+......+++.+........+-....++++.+++..+.....++.+++.....||..
T Consensus       166 dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~  245 (312)
T PF00038_consen  166 DLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQ  245 (312)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhh
Confidence            388888888888774 4455567888889999999999999899999999999999999999999999999999999999


Q ss_pred             hhhhhhhhhhHhHH
Q 025142          202 IDSLADKQDITNIG  215 (257)
Q Consensus       202 i~~ie~kQd~tn~G  215 (257)
                      |..++..-......
T Consensus       246 l~~le~~~~~~~~~  259 (312)
T PF00038_consen  246 LRELEQRLDEEREE  259 (312)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99888655544433

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=93.40  E-value=0.28  Score=46.69  Aligned_cols=87  Identities=11%  Similarity=0.260  Sum_probs=50.7

Q ss_pred             cceeehhhhhHhhhhhee-eeEeecCCcchhHHHh--------hhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 025142           87 NATSLMIPAATLGALGYG-YMWWKGLSFADLMYVT--------RKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (257)
Q Consensus        87 ~~s~~ivpaA~vGavGYg-YmwWKGws~sDlMfVT--------kr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd  157 (257)
                      .|--|++-|++.+++.|+ |-.||-|=+| +||.-        |+.|.+=...+.|-+.++-+.++++++.++..-+.++
T Consensus        82 rwrdy~vmAvi~aGi~y~~y~~~K~YV~P-~~l~~~~~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v~q~~~~qq~Els  160 (300)
T KOG2629|consen   82 RWRDYFVMAVILAGIAYAAYRFVKSYVLP-RFLGESKDKLEADKRQLDDQFDKAAKSLNALMDEVAQVSQLLATQQSELS  160 (300)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHHH-HhhCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566667777788885 8889998444 44443        4445555555555566666666666555555555555


Q ss_pred             HhHHHHHHHHHHHHHHH
Q 025142          158 DKVEKQNEISKDIRKNV  174 (257)
Q Consensus       158 ~kld~~~eis~~i~~eV  174 (257)
                      ..|+...+..-++....
T Consensus       161 ~~L~~l~~~~~~~s~~~  177 (300)
T KOG2629|consen  161 RALASLKNTLVQLSRNI  177 (300)
T ss_pred             HHHHHHHHHHHHhhhhH
Confidence            55554444433333333

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=93.10  E-value=1.6  Score=36.73  Aligned_cols=33  Identities=21%  Similarity=0.386  Sum_probs=16.0

Q ss_pred             HHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025142          168 KDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       168 ~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      ..+++++..+++|+..+..-|..+...+..||+
T Consensus        92 ~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~  124 (126)
T PF07889_consen   92 TEVREDVSQIGDDVDSVQQMVEGLEGKIDEIEE  124 (126)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            334444444555555555555555555444444

The region featured in this family is approximately 100 amino acids long.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=93.05  E-value=2.2  Score=38.51  Aligned_cols=91  Identities=13%  Similarity=0.186  Sum_probs=61.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHh
Q 025142          134 HLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITN  213 (257)
Q Consensus       134 qLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn  213 (257)
                      ++.++......+..+..+||+..+++-++..+-.++.++++..++.-.++...-+++.+..+..|+.+++.++..+.--.
T Consensus        25 ~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~  104 (251)
T PF11932_consen   25 QAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELV  104 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555566667788888888887777777777777777777777777777777777777777777777775544333


Q ss_pred             H----HHHHHHHHhh
Q 025142          214 I----GMYLLCNFVD  224 (257)
Q Consensus       214 ~----GV~~Lc~f~~  224 (257)
                      -    =+..|-+|++
T Consensus       105 p~m~~m~~~L~~~v~  119 (251)
T PF11932_consen  105 PLMEQMIDELEQFVE  119 (251)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            3    3444455554

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=93.03  E-value=5.5  Score=38.84  Aligned_cols=50  Identities=20%  Similarity=0.148  Sum_probs=29.5

Q ss_pred             ccccceeeeccCCCc---hhHH-----HHHHHHHHHhhhcCCCCCchHHHHHHHHHHHHHh-hhh
Q 025142           17 GLGYTGTILVKDGKL---PELL-----RELQSLVERLSKSGEQDNFTDAIKDQLNRLKFEC-QRA   72 (257)
Q Consensus        17 GAG~~GSvl~k~GkL---sd~~-----g~lq~~lk~~~k~gd~~~~~d~L~aQV~~L~~El-~La   72 (257)
                      -+|++..|.+++|..   .|++     ..++.-+..++.      ....+.+++.||..|+ .+.
T Consensus        66 ~~G~v~~i~V~eG~~V~~G~~L~~ld~~~~~~~~~~~~~------~~~~~~~~~~rL~a~~~~~~  124 (457)
T TIGR01000        66 SNNAIKENYLKENKFVKKGDLLVVYDNGNEENQKQLLEQ------QLDNLKDQKKSLDTLKQSIE  124 (457)
T ss_pred             CCcEEEEEEcCCCCEecCCCEEEEECchHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHh
Confidence            348888888998864   3332     233333333332      2566777788887777 443

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PRK11637 AmiB activator; Provisional

Probab=92.96  E-value=1.6  Score=42.16  Aligned_cols=78  Identities=18%  Similarity=0.299  Sum_probs=48.3

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHH---HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          129 SNLNKHLESVTEALTVAKKHLT---QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       129 ~sv~kqLeqVsesL~~tKkhLs---qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      +..-++|+++-..|...++.+.   +++..+..++++...=...+.+++.+++.+++.+..+++.++.-+..++.+|+..
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677788888887777776666   5566666665555555555555566666666666666666555555555555544


Q ss_pred             h
Q 025142          206 A  206 (257)
Q Consensus       206 e  206 (257)
                      +
T Consensus       123 ~  123 (428)
T PRK11637        123 E  123 (428)
T ss_pred             H
Confidence            3

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=92.95  E-value=0.13  Score=49.47  Aligned_cols=86  Identities=14%  Similarity=0.323  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHH---HHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhh
Q 025142          123 SMATAVSNLNKHLESVTEALTVAK---KHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLD  199 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVsesL~~tK---khLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le  199 (257)
                      +|+.++.++...|..++..|+.-+   .+|+..|..+...+.+.......++..|..+..|+++.+.||-..--.|..||
T Consensus        67 ~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe  146 (326)
T PF04582_consen   67 DLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLE  146 (326)
T ss_dssp             ---------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHH
Confidence            444455555555555544444333   34556666666667777777777788888888888888888888888888888


Q ss_pred             hhhhhhhhh
Q 025142          200 GKIDSLADK  208 (257)
Q Consensus       200 ~Ki~~ie~k  208 (257)
                      .|+..+|..
T Consensus       147 ~RV~~LEs~  155 (326)
T PF04582_consen  147 SRVKALESG  155 (326)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhcC
Confidence            888877754

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=92.95  E-value=2.2  Score=36.17  Aligned_cols=62  Identities=24%  Similarity=0.296  Sum_probs=49.5

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025142          148 HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      .|+.||+-|...|++...--+.+.+.+.++....+++..-++.+..--..+|.|++.++.+-
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~  138 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY  138 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            36778888888888888888888888888878888888888888888888888888877653

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=92.80  E-value=1.5  Score=34.57  Aligned_cols=82  Identities=15%  Similarity=0.208  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHH
Q 025142          138 VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMY  217 (257)
Q Consensus       138 VsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~  217 (257)
                      |..+|.++-++|.+.|++|+..++.-.+.....    .++...+..++.|-..+-+-..+.+.+..++|..|.-....+.
T Consensus         2 ~~~~le~al~rL~~aid~LE~~v~~r~~~~~~~----~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~   77 (89)
T PF13747_consen    2 VTYSLEAALTRLEAAIDRLEKAVDRRLERDRKR----DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLD   77 (89)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            456677777777788888888777666544433    5555666667777777777777778888888877776666666


Q ss_pred             HHHHHh
Q 025142          218 LLCNFV  223 (257)
Q Consensus       218 ~Lc~f~  223 (257)
                      ...+-+
T Consensus        78 ~a~e~I   83 (89)
T PF13747_consen   78 SAIETI   83 (89)
T ss_pred             HHHHHH
Confidence            555433

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=92.08  E-value=1.7  Score=33.27  Aligned_cols=28  Identities=14%  Similarity=0.298  Sum_probs=13.3

Q ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHH
Q 025142          118 YVTRKSMATAVSNLNKHLESVTEALTVA  145 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVsesL~~t  145 (257)
                      +.+-+++....+.+.+.++.+.+.+...
T Consensus        18 ~~~l~~l~~~l~~~~~ti~~l~~~~~~i   45 (90)
T PF06103_consen   18 IKVLKKLKKTLDEVNKTIDTLQEQVDPI   45 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            4455555555444444444444444333

>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []

Probab=91.63  E-value=5.1  Score=33.83  Aligned_cols=51  Identities=18%  Similarity=0.336  Sum_probs=42.8

Q ss_pred             hhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHH
Q 025142          121 RKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIR  171 (257)
Q Consensus       121 kr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~  171 (257)
                      =|.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+...+-+
T Consensus        26 s~~~l~Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~erq   76 (131)
T PF10158_consen   26 SRPVLRLCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQEIAKLLQQMVERQ   76 (131)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            367888999999999999999999999999999999998776554444333

The exact function of these proteins is not known.

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=91.07  E-value=1.1  Score=44.10  Aligned_cols=56  Identities=16%  Similarity=0.255  Sum_probs=27.6

Q ss_pred             hhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 025142           99 GALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (257)
Q Consensus        99 GavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~  162 (257)
                      -++|+||-|| |.       --.......-+.+..+|+.......+.+..|.+.+..++.++.+
T Consensus        48 la~g~g~y~~-~~-------qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~~~~~~l~~  103 (390)
T PRK10920         48 LAAGAGLYYH-GK-------QQAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAKALDQ  103 (390)
T ss_pred             HHHhhHHHHH-HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3666766666 22       12222344555555566555555555555555444444444433

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=90.85  E-value=4.1  Score=40.65  Aligned_cols=94  Identities=16%  Similarity=0.248  Sum_probs=66.8

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhH
Q 025142          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       133 kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (257)
                      ++|+|....|++..    ++|....++..+...-.+..++++..+..-+.++..|++.++..+..++.++.-++..+ ..
T Consensus        38 ~~l~q~q~ei~~~~----~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~-r~  112 (420)
T COG4942          38 KQLKQIQKEIAALE----KKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE-RE  112 (420)
T ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH-HH
Confidence            77877777776654    44555566666666667777788888888888888888888888888899988887655 77


Q ss_pred             hHHHHHHHHHhhcccCCcc
Q 025142          213 NIGMYLLCNFVDGKKGRTT  231 (257)
Q Consensus       213 n~GV~~Lc~f~~~~~~~~~  231 (257)
                      ..++....--+-...++.|
T Consensus       113 qr~~La~~L~A~~r~g~~p  131 (420)
T COG4942         113 QRRRLAEQLAALQRSGRNP  131 (420)
T ss_pred             HHHHHHHHHHHHHhccCCC
Confidence            7777665444433333333

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=90.77  E-value=8.9  Score=32.13  Aligned_cols=21  Identities=14%  Similarity=0.007  Sum_probs=14.6

Q ss_pred             chHHHHHHHHHHHHHh-hhhcC
Q 025142           54 FTDAIKDQLNRLKFEC-QRASS   74 (257)
Q Consensus        54 ~~d~L~aQV~~L~~El-~La~s   74 (257)
                      +...+...++.++.+. .|+-+
T Consensus        41 ~i~~~~~~i~~ia~qt~lLalN   62 (213)
T PF00015_consen   41 DISEILSLINEIAEQTNLLALN   62 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHhhhh
Confidence            4566667788888888 66654

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=90.73  E-value=2.7  Score=33.85  Aligned_cols=37  Identities=22%  Similarity=0.296  Sum_probs=18.7

Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHHHH
Q 025142          185 EHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (257)
                      ..|+..++-.+..++++++.+++.=+.-++-+.+|.+
T Consensus        64 ~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lLlE  100 (106)
T PF10805_consen   64 RDDVHDLQLELAELRGELKELSARLQGVSHQLDLLLE  100 (106)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555554444444444443

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=90.11  E-value=5.2  Score=38.89  Aligned_cols=82  Identities=15%  Similarity=0.304  Sum_probs=46.8

Q ss_pred             hhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHH--------------HHHhhhh
Q 025142          115 DLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN--------------VEEACDD  180 (257)
Q Consensus       115 DlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~e--------------V~~v~~d  180 (257)
                      |=|=-=+.+++++...+..+|+.+++.+..+...+..|=..+..+++....-=+..+++              |++....
T Consensus       223 eqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~  302 (359)
T PF10498_consen  223 EQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRE  302 (359)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34555566777777777777777777777776666666555555544444333333333              4444444


Q ss_pred             HHHhhhhHHHHHHHHH
Q 025142          181 LFKVEHNLKDLQSMIY  196 (257)
Q Consensus       181 ~~~i~~dv~~v~~~V~  196 (257)
                      +.+|..+++.+++-+.
T Consensus       303 L~~IseeLe~vK~eme  318 (359)
T PF10498_consen  303 LAEISEELEQVKQEME  318 (359)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5555555555544433

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.76  E-value=3.6  Score=38.74  Aligned_cols=68  Identities=16%  Similarity=0.347  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 025142          136 ESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       136 eqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (257)
                      |.-+..+...++.+...|+.+|.++++...=....++++++.+.++.....+|+.+..-+......+.
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~  104 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLK  104 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556677778888899999999999988888888888888888888888888877766665555444

>PF04513 Baculo_PEP_C: Baculovirus polyhedron envelope protein, PEP, C terminus ; InterPro: IPR007601 Polyhedra are large crystalline occlusion bodies containing nucleopolyhedrovirus virions, and surrounded by an electron-dense structure called the polyhedron envelope or polyhedron calyx

Probab=89.09  E-value=8.5  Score=33.17  Aligned_cols=83  Identities=14%  Similarity=0.295  Sum_probs=57.6

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH-HHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025142          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK-QNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~-~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      .++..+..+-.||..+.+.|......+..|++.+-.++++ ...+++.++.|++.+..++...-+.|-.+......|=..
T Consensus        35 ql~~~~d~i~~~L~~l~~~l~~ll~~l~~~l~~l~~~L~~aln~Lq~~~rneLtnlnsil~nL~ssvTNin~tLnnLl~a  114 (140)
T PF04513_consen   35 QLTTILDAIQTQLNALSTDLTNLLADLDTRLDTLLTNLNDALNQLQDTLRNELTNLNSILNNLTSSVTNINATLNNLLQA  114 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4566777777788888888888777777777777666654 345667777888777777777776666666665555554


Q ss_pred             hhhh
Q 025142          202 IDSL  205 (257)
Q Consensus       202 i~~i  205 (257)
                      +.-+
T Consensus       115 ln~l  118 (140)
T PF04513_consen  115 LNNL  118 (140)
T ss_pred             HHHh
Confidence            4433

The polyhedron envelope (associated) protein PEP is thought to be an integral part of the polyhedron envelope. PEP is concentrated at the surface of polyhedra, and is thought to be important for the proper formation of the periphery of polyhedra. It is thought that PEP may stabilise polyhedra and protect them from fusion or aggregation [].; GO: 0005198 structural molecule activity, 0019028 viral capsid, 0019031 viral envelope

>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene

Probab=88.71  E-value=10  Score=30.89  Aligned_cols=15  Identities=13%  Similarity=0.271  Sum_probs=5.9

Q ss_pred             HHHHHHHHHhhHHHH
Q 025142          125 ATAVSNLNKHLESVT  139 (257)
Q Consensus       125 s~Av~sv~kqLeqVs  139 (257)
                      .+.+.++..+++.+.
T Consensus         4 ~~~~~~l~~~~~~l~   18 (202)
T PF01442_consen    4 DDRLDSLSSRTEELE   18 (202)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333444444333333

This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....

>PHA02562 46 endonuclease subunit; Provisional

Probab=88.42  E-value=9.7  Score=37.35  Aligned_cols=48  Identities=13%  Similarity=0.124  Sum_probs=20.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025142          157 NDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       157 d~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      ..++.+........++++.........+..++.+++..+..++.++.+
T Consensus       336 ~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~  383 (562)
T PHA02562        336 SKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAK  383 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHH
Confidence            333333333333333444444444444445555554444444444443

>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins

Probab=88.33  E-value=8.1  Score=36.59  Aligned_cols=100  Identities=15%  Similarity=0.231  Sum_probs=74.6

Q ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh--------------
Q 025142          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE--------------  185 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~--------------  185 (257)
                      .-+.+-.=-.++..|+|.++..|...+.+|...+..+|.--++..+..+++..-+...+..+..+.              
T Consensus        85 ~~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~ag~~~~~~l~~~~~~~~~~~~~~d  164 (333)
T PF05816_consen   85 SLERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAAGELKLEELEAELLPALQADAEGD  164 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhccccC
Confidence            334444456899999999999999999999999999998877777766666655444333333332              


Q ss_pred             ----hhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHH
Q 025142          186 ----HNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLL  219 (257)
Q Consensus       186 ----~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~L  219 (257)
                          .....+.+.+..||.|+..++-.+..+..+.--+
T Consensus       165 ~~~~q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pqi  202 (333)
T PF05816_consen  165 QMDAQELADLEQALFRLEQRIQDLQLSRQVAIQTAPQI  202 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence                2346678889999999999998888888776543

TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].

>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material

Probab=87.94  E-value=4.4  Score=34.31  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.5

Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhh
Q 025142          185 EHNLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      ..||+.++..|..|+.+|+++..+
T Consensus       108 ~~dv~~L~~rId~L~~~v~~l~~~  131 (132)
T PF05597_consen  108 RKDVEALSARIDQLTAQVERLANK  131 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC
Confidence            589999999999999999888765

PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=87.82  E-value=15  Score=30.75  Aligned_cols=72  Identities=13%  Similarity=0.264  Sum_probs=26.0

Q ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 025142          131 LNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       131 v~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (257)
                      ++.+-.+....+...-+++.+.++.+-..+++..+......+.+.+....+..|...++.+...+..+...+
T Consensus        87 LA~~t~~~~~~I~~~i~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~  158 (213)
T PF00015_consen   87 LAEQTSESAKEISEIIEEIQEQISQVVESMEESREQIEEGSESVEETSESLEEIAESVEEISDSIEEISESA  158 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHhhhhhhhhhhhhhhhcchhhhhhhcccchhcchhhhhhhhhhhHHhhhhHHHHhhH
Confidence            333333333333333333433433333333333333333333333333333333333333333333333333

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=87.79  E-value=12  Score=33.82  Aligned_cols=65  Identities=11%  Similarity=0.254  Sum_probs=44.8

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHH
Q 025142          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSM  194 (257)
Q Consensus       130 sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~  194 (257)
                      ...++..+--+.+...|..|.++++.+..+++....-.+..++.|...+..+..+..+++++..+
T Consensus        35 ~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~   99 (251)
T PF11932_consen   35 QAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEET   99 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555566677777788888877777777777777777777777777777777666666543

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PRK04406 hypothetical protein; Provisional

Probab=87.66  E-value=4  Score=31.35  Aligned_cols=50  Identities=14%  Similarity=0.225  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHH
Q 025142          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQS  193 (257)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~  193 (257)
                      +|...+.+||+.|..++--|...+....+.|++-+..+......++.+.+
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~   53 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVG   53 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567889999999999888888888888887776666665555554433

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=87.40  E-value=1.8  Score=34.79  Aligned_cols=53  Identities=23%  Similarity=0.314  Sum_probs=44.4

Q ss_pred             hhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh
Q 025142           99 GALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC  178 (257)
Q Consensus        99 GavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~  178 (257)
                      .-+|.||+-.+-                               +..|+++|..|++.++..+++..+..+..+++++.+.
T Consensus        72 v~iG~g~~vE~~-------------------------------~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~  120 (126)
T TIGR00293        72 VSIGSGYYVEKD-------------------------------AEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLE  120 (126)
T ss_pred             EEcCCCEEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478999998875                               5789999999999999999999888888888888776


Q ss_pred             hhHH
Q 025142          179 DDLF  182 (257)
Q Consensus       179 ~d~~  182 (257)
                      ..+.
T Consensus       121 ~~l~  124 (126)
T TIGR00293       121 QEAQ  124 (126)
T ss_pred             HHHh
Confidence            6543

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=87.22  E-value=8.5  Score=29.40  Aligned_cols=57  Identities=16%  Similarity=0.260  Sum_probs=27.8

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      +++.++.+.+++|....=...+-++++++.+|+...-..++.+-+.|..++..+.++
T Consensus        31 ~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   31 VNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            333344444444444433344444445555555555555555555556555555544

>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation

Probab=87.16  E-value=6.8  Score=40.28  Aligned_cols=89  Identities=12%  Similarity=0.287  Sum_probs=65.8

Q ss_pred             cchhHHH----hhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhH
Q 025142          113 FADLMYV----TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNL  188 (257)
Q Consensus       113 ~sDlMfV----Tkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv  188 (257)
                      ++++.|.    |||||...++   +.+=..+..+-+.=..+..+|+++...++++++....+++.+...+.+...+-.++
T Consensus         6 L~~~~~~nt~~aRr~LR~~iE---~~~l~~~~~~L~~f~~v~~~l~~~~~~v~~l~~~~~~~~~~l~~~~~~t~~ll~~~   82 (618)
T PF06419_consen    6 LSEFGFENTLEARRNLRSDIE---KRLLKINQEFLKEFSPVNRQLKRLQSDVDKLNSSCDQMQDRLSAAKSETSDLLEEA   82 (618)
T ss_pred             hcccccCCcHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555665    8999986554   55555666666667788889999999999999999999999988877777766666


Q ss_pred             HHHHHHHHhhhhhhhhhhhhhhh
Q 025142          189 KDLQSMIYCLDGKIDSLADKQDI  211 (257)
Q Consensus       189 ~~v~~~V~~Le~Ki~~ie~kQd~  211 (257)
                      ..+       -.+...++.||..
T Consensus        83 ~~L-------~~~~~~~~~k~~l   98 (618)
T PF06419_consen   83 SEL-------REQKEELELKKKL   98 (618)
T ss_pred             HHH-------HHHHHHHHHHHHH
Confidence            666       4455555555544

>PRK10884 SH3 domain-containing protein; Provisional

Probab=87.03  E-value=8.8  Score=34.57  Aligned_cols=114  Identities=10%  Similarity=0.128  Sum_probs=66.9

Q ss_pred             hhcCCCeEEEeCCCCCcceeehhhhhHhhhhheeeeEeecCCcchhHHH--hhhhHHHHHHHHHHhhHHHHHHHHHHHHH
Q 025142           71 RASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYV--TRKSMATAVSNLNKHLESVTEALTVAKKH  148 (257)
Q Consensus        71 La~sr~iTVvn~~sGg~~s~~ivpaA~vGavGYgYmwWKGws~sDlMfV--Tkr~ms~Av~sv~kqLeqVsesL~~tKkh  148 (257)
                      +-+.-++||+....+++|+=.--+   =|-.||.+-|-    +++-.=+  -=..+.+-++.+..+|++........+.+
T Consensus        50 l~~G~~v~vl~~~~~~~w~~Vr~~---~G~~GWV~~~~----Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~  122 (206)
T PRK10884         50 LNAGEEVTLLQVNANTNYAQIRDS---KGRTAWIPLKQ----LSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAE  122 (206)
T ss_pred             EcCCCEEEEEEEcCCCCEEEEEeC---CCCEEeEEHHH----hcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            344557777764433334222111   14455444432    2222111  11346677777777888887777777778


Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025142          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      +.++++..+....+.++=-++.++++..++.++....-+.+.+
T Consensus       123 l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~  165 (206)
T PRK10884        123 MQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK  165 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888887777777777777777777777666555544444444

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=86.89  E-value=2.8  Score=37.71  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=9.1

Q ss_pred             hhhhHHHHHHHHHhhhhhhhh
Q 025142          184 VEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       184 i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      .+.|+..+.+-+..||.|++.
T Consensus       112 ~~~~v~~~~q~~~~l~~K~D~  132 (189)
T TIGR02132       112 LKKDVTKLKQDIKSLDKKLDK  132 (189)
T ss_pred             HHhHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444443

This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.

>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology

Probab=86.66  E-value=9.5  Score=40.34  Aligned_cols=34  Identities=9%  Similarity=0.286  Sum_probs=24.3

Q ss_pred             HHHHHHHhhHHHHHH-HHHHHHHHHHHHHhhHHhH
Q 025142          127 AVSNLNKHLESVTEA-LTVAKKHLTQRIQNLNDKV  160 (257)
Q Consensus       127 Av~sv~kqLeqVses-L~~tKkhLsqRI~~vd~kl  160 (257)
                      ..+++.+|++++-.. ...++.|+...|++.+..+
T Consensus       188 ~l~~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l  222 (806)
T PF05478_consen  188 FLNDTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL  222 (806)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence            345666777777777 7778888888887777654

Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane

>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

Probab=86.27  E-value=2.3  Score=44.03  Aligned_cols=33  Identities=9%  Similarity=0.251  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025142          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV  174 (257)
                      ...+.+.+++|+..++.++.+...-..+++..+
T Consensus       376 ~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~  408 (656)
T PRK06975        376 AQASVHQLDSQFAQLDGKLADAQSAQQALEQQY  408 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555444444444433

>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins

Probab=86.16  E-value=9.4  Score=29.80  Aligned_cols=61  Identities=16%  Similarity=0.259  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHH----HHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025142          144 VAKKHLTQRIQNLNDKVEKQNEISKD----IRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~----i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      .+.+++++|++.=...|.++++.++.    ++++...=...+.++..|++.++..++.|..|+..
T Consensus        18 ~~Q~~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~kl~~   82 (88)
T PF10241_consen   18 ALQAQTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKAKLAK   82 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666666666666555543    34455555566777899999999999999998863

There is a characteristic KxDL motif towards the C terminus. The function is unknown.

>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra []

Probab=85.89  E-value=3.8  Score=31.91  Aligned_cols=22  Identities=14%  Similarity=0.365  Sum_probs=9.4

Q ss_pred             hhhhHHHHHHHHHhhhhhhhhh
Q 025142          184 VEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       184 i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      +..-++.+-..+.+|+.++..|
T Consensus        40 l~~klDa~~~~l~~l~~~V~~I   61 (75)
T PF05531_consen   40 LNKKLDAQSAQLTTLNTKVNEI   61 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444433

; GO: 0019028 viral capsid

>PRK09039 hypothetical protein; Validated

Probab=85.81  E-value=13  Score=35.71  Aligned_cols=81  Identities=16%  Similarity=0.223  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh-------hhhhhhhhhhhhhhHhH
Q 025142          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC-------LDGKIDSLADKQDITNI  214 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~-------Le~Ki~~ie~kQd~tn~  214 (257)
                      .......+..|+..+.++|++.+..+...+-+|..++..++.++.-+..++..+..       ...+|++++..=+.+..
T Consensus       107 ~~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~  186 (343)
T PRK09039        107 LAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALA  186 (343)
T ss_pred             hhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344477888888888888888887776666655555555555554444444444       44455555444444433


Q ss_pred             H-HHHHHHH
Q 025142          215 G-MYLLCNF  222 (257)
Q Consensus       215 G-V~~Lc~f  222 (257)
                      - +.-|-.|
T Consensus       187 ~~~~~l~~~  195 (343)
T PRK09039        187 QRVQELNRY  195 (343)
T ss_pred             HHHHHHHHh
Confidence            3 4444444

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=85.78  E-value=22  Score=30.65  Aligned_cols=31  Identities=13%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHHHHH
Q 025142          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKH  148 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVsesL~~tKkh  148 (257)
                      +|||..+.+..-..-..+.++-..+....|+
T Consensus        43 ~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~   73 (177)
T PF07798_consen   43 LVTKSDLENQEYLFKAAIAELRSELQNSRKS   73 (177)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788888877766666666666666555444

>COG2959 HemX Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=85.48  E-value=6.9  Score=38.72  Aligned_cols=61  Identities=20%  Similarity=0.274  Sum_probs=32.0

Q ss_pred             ehhhhhHhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHH--HHHHHHHHhhHHhHHH
Q 025142           91 LMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAK--KHLTQRIQNLNDKVEK  162 (257)
Q Consensus        91 ~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tK--khLsqRI~~vd~kld~  162 (257)
                      +++-|+.+|+.||  -||++-         .-..+.-...+.+|++....+.+..+  +.|..+|.....+++.
T Consensus        39 all~aLgLGagg~--~f~QqQ---------~~~~~~~l~a~~~q~~~~~~aqe~q~l~~ql~~~~~~~q~el~~  101 (391)
T COG2959          39 ALLLALGLGAGGY--YFGQQQ---------NVLQTQELQALQQQLKALQLAQENQKLLAQLESLIAQQQAELDR  101 (391)
T ss_pred             HHHHHHHhchhHH--HHHHHH---------HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555  477763         33334444555556665555555555  5555555555444444

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=85.29  E-value=13  Score=41.03  Aligned_cols=92  Identities=12%  Similarity=0.182  Sum_probs=71.7

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhH
Q 025142          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       133 kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (257)
                      +..++.-..+...-+...+++...+.++-+..+-.+.++++++.-.+.+..+..|++..+..+..++.++.+.+..-+-.
T Consensus       291 ~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~  370 (1074)
T KOG0250|consen  291 KKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKL  370 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555555666666676777777777778888888888889999999999999999999999999888888


Q ss_pred             hHHHHHHHHHhh
Q 025142          213 NIGMYLLCNFVD  224 (257)
Q Consensus       213 n~GV~~Lc~f~~  224 (257)
                      -.-+.+||.-++
T Consensus       371 k~~~d~l~k~I~  382 (1074)
T KOG0250|consen  371 KKEVDRLEKQIA  382 (1074)
T ss_pred             HHHHHHHHHHHH
Confidence            888999998775

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=85.23  E-value=9.2  Score=37.20  Aligned_cols=91  Identities=16%  Similarity=0.353  Sum_probs=51.3

Q ss_pred             CcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH-----------hhHHhHHHHHHHHHHHH---HHHHHh
Q 025142          112 SFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQ-----------NLNDKVEKQNEISKDIR---KNVEEA  177 (257)
Q Consensus       112 s~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~-----------~vd~kld~~~eis~~i~---~eV~~v  177 (257)
                      ++...+-.||.-|..--+.+++.||.+.+    =-+||.++++           ++..-.++.++.++.+.   .+..++
T Consensus       231 ~I~~~~~~~~~~L~kl~~~i~~~lekI~s----REk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~I  306 (359)
T PF10498_consen  231 SIESALPETKSQLDKLQQDISKTLEKIES----REKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEI  306 (359)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            46777788999988888888877776543    2222222222           22222233333333332   445566


Q ss_pred             hhhHHHhhhhHH-------------HHHHHHHhhhhhhhhhh
Q 025142          178 CDDLFKVEHNLK-------------DLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       178 ~~d~~~i~~dv~-------------~v~~~V~~Le~Ki~~ie  206 (257)
                      .+.++++..+|+             .|++++..|..-|..|+
T Consensus       307 seeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMd  348 (359)
T PF10498_consen  307 SEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMD  348 (359)
T ss_pred             HHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            666666655554             56777777766665554

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=85.23  E-value=16  Score=32.93  Aligned_cols=70  Identities=17%  Similarity=0.275  Sum_probs=49.4

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHH
Q 025142          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLL  219 (257)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~L  219 (257)
                      ..||+.|..++.+...+.........++...+..+..|+......+..+|.|+..++..-.....-+.-|
T Consensus        91 eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~l  160 (237)
T PF00261_consen   91 EERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSL  160 (237)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHh
Confidence            4456666666666777777777777788888888888888888888888888887776555554444433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>smart00502 BBC B-Box C-terminal domain

Probab=85.18  E-value=15  Score=28.14  Aligned_cols=15  Identities=13%  Similarity=0.102  Sum_probs=9.5

Q ss_pred             hHhHHHHHHHHHhhc
Q 025142          211 ITNIGMYLLCNFVDG  225 (257)
Q Consensus       211 ~tn~GV~~Lc~f~~~  225 (257)
                      .....+..+|.|+..
T Consensus        86 ~~l~~l~~~~~~~e~  100 (127)
T smart00502       86 QKQEKLSHAINFTEE  100 (127)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            345566677777763

Coiled coil region C-terminal to (some) B-Box domains

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.09  E-value=24  Score=35.81  Aligned_cols=12  Identities=25%  Similarity=0.404  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHh
Q 025142           58 IKDQLNRLKFEC   69 (257)
Q Consensus        58 L~aQV~~L~~El   69 (257)
                      +..+++.|+++|
T Consensus       254 i~~~i~~l~~~i  265 (569)
T PRK04778        254 IEKEIQDLKEQI  265 (569)
T ss_pred             hHHHHHHHHHHH
Confidence            444555555555

>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria

Probab=85.05  E-value=2.6  Score=31.40  Aligned_cols=47  Identities=19%  Similarity=0.185  Sum_probs=29.0

Q ss_pred             ehhhhhHhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHH
Q 025142           91 LMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTV  144 (257)
Q Consensus        91 ~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~  144 (257)
                      +++=+++-+++||.|-==+|-       =||+.+.+....+..++++.++....
T Consensus         5 ~l~Ga~~Ga~~glL~aP~sG~-------e~R~~l~~~~~~~~~~~~~~~~~~~~   51 (74)
T PF12732_consen    5 FLAGAAAGAAAGLLFAPKSGK-------ETREKLKDKAEDLKDKAKDLYEEAKE   51 (74)
T ss_pred             HHHHHHHHHHHHHHhCCCCcH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334344445666666555664       37778888887777777666655444

Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=85.04  E-value=8.1  Score=32.20  Aligned_cols=65  Identities=17%  Similarity=0.256  Sum_probs=53.3

Q ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh
Q 025142          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE  185 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~  185 (257)
                      +|..+++-+-.+++..|.+.+... ...+|...++.+..+.+..-++-+.--++|.+++.|+..+.
T Consensus        45 ~r~~l~~Eiv~l~~~~e~~~~~~~-~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK  109 (120)
T PF12325_consen   45 ERDELREEIVKLMEENEELRALKK-EVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLK  109 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHH
Confidence            899999999999998888855444 44589999999999999999999998899988877666533

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]

Probab=84.64  E-value=9.4  Score=26.83  Aligned_cols=53  Identities=19%  Similarity=0.332  Sum_probs=31.0

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 025142          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (257)
                      +.|+.+..++.+.+++...|.++|.+=..-+.+|..+++.....+..=-.+|.
T Consensus         4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~   56 (63)
T PF05739_consen    4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLK   56 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666666666666655556665555555555444444444

Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....

>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer)

Probab=84.44  E-value=24  Score=29.98  Aligned_cols=20  Identities=10%  Similarity=0.036  Sum_probs=11.6

Q ss_pred             hHHHHHHHHHHHHHh-hhhcC
Q 025142           55 TDAIKDQLNRLKFEC-QRASS   74 (257)
Q Consensus        55 ~d~L~aQV~~L~~El-~La~s   74 (257)
                      ......+++.+.+++ .|+.+
T Consensus        93 i~~~~~~i~~~a~~~~~la~n  113 (262)
T smart00283       93 IGEIVSVIDDIADQTNLLALN  113 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344555666666777 55544

Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=84.41  E-value=18  Score=31.60  Aligned_cols=89  Identities=17%  Similarity=0.339  Sum_probs=50.9

Q ss_pred             hhhhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh----hhHHHhhhhHHHHHHH
Q 025142          120 TRKSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC----DDLFKVEHNLKDLQSM  194 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVsesL-~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~----~d~~~i~~dv~~v~~~  194 (257)
                      |-.++.+-++.....-+.+.+.+ ..+|..|.+.|..|-.++.+..+=++.+.+++...+    .|...+..|+..++..
T Consensus        78 ~~~~I~~Y~~~f~syY~~L~~~id~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~D~~~l~~~~~~l~~~  157 (184)
T PF05791_consen   78 LNQDIINYNTTFQSYYDTLVEAIDQKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDKLQKDSRNLKTDVDELQSI  157 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            44555555544444334444443 456888888888887776666555555555554443    3555566667777777


Q ss_pred             HHhhhhhhhhhhhh
Q 025142          195 IYCLDGKIDSLADK  208 (257)
Q Consensus       195 V~~Le~Ki~~ie~k  208 (257)
                      +.+-.+.|..++..
T Consensus       158 l~~~~g~I~~L~~~  171 (184)
T PF05791_consen  158 LAGENGDIPQLQKQ  171 (184)
T ss_dssp             HHHTT--HHHHHHH
T ss_pred             HhcccCCHHHHHHH
Confidence            76666666665543

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=84.34  E-value=20  Score=32.64  Aligned_cols=130  Identities=18%  Similarity=0.250  Sum_probs=68.1

Q ss_pred             HhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 025142           97 TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEE  176 (257)
Q Consensus        97 ~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~  176 (257)
                      =||..-|-      ||||.=--..|   ..-|..+-++|+.-+..    +..|.+.|++...-.++..|.+.++.++.+.
T Consensus        61 KIgtSnyy------wsfps~a~~~~---ks~~qeLe~~L~~~~qk----~~tl~e~~en~K~~~e~tEer~~el~kklns  127 (203)
T KOG3433|consen   61 KIGTSNYY------WSFPSEAICDR---KSVLQELESQLATGSQK----KATLGESIENRKAGREETEERTDELTKKLNS  127 (203)
T ss_pred             Hhcccccc------cccchHHHHHH---HHHHHHHHHHHHHhhhh----HhHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            34555553      78886433333   33344444444443332    2234445666666666667777666666666


Q ss_pred             hhhhHHHhhhhHHHHHHH-------HHhhhhhhhhhhhhhhhHhHHHHHHHHHhhcccCCcccchhccccccccccC
Q 025142          177 ACDDLFKVEHNLKDLQSM-------IYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDS  246 (257)
Q Consensus       177 v~~d~~~i~~dv~~v~~~-------V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~~~~~~~~~~~~~~~i~~~~~~~~  246 (257)
                      ++.+++.++-|+..+++.       ...++.++.   +.-++-..-|..|..|+-.+-+--|+.    |.-+|..|.
T Consensus       128 lkk~~e~lr~el~k~~e~dpqv~~k~~~~~K~~~---eaanrwtDnI~il~dy~~rkf~~e~nq----i~~~fgIPe  197 (203)
T KOG3433|consen  128 LKKILESLRWELAKIQETDPQVFEKKVHLEKTMA---EAANRWTDNIFILIDYLYRKFGLEPNQ----IRKEFGIPE  197 (203)
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH---HHHhhhhhhHHHHHHHHHHhcCCCHHH----HhHhcCCCc
Confidence            666666666666655543       233333322   112222344556666665444444555    777777653

>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]

Probab=84.09  E-value=15  Score=35.86  Aligned_cols=99  Identities=13%  Similarity=0.225  Sum_probs=68.9

Q ss_pred             ecCCc-chhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhh
Q 025142          109 KGLSF-ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHN  187 (257)
Q Consensus       109 KGws~-sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~d  187 (257)
                      |-|.+ -|=|---|+|...++..++-+|+.++..+..+-.++.+|=..+...|.-+..--+...++..++|+.-.+...+
T Consensus       223 kDWR~H~~QM~s~~~nIe~~~~~~~~~Ldklh~eit~~LEkI~SREK~lNnqL~~l~q~fr~a~~~lse~~e~y~q~~~g  302 (384)
T KOG0972|consen  223 KDWRLHLEQMNSMHKNIEQKVGNVGPYLDKLHKEITKALEKIASREKSLNNQLASLMQKFRRATDTLSELREKYKQASVG  302 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            45544 36788899999999999999999999999999999888888777777655444444455566666655555555


Q ss_pred             HHH----HHHHHHhhhhhhhhhhh
Q 025142          188 LKD----LQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       188 v~~----v~~~V~~Le~Ki~~ie~  207 (257)
                      +.+    +.+++..+|.+=.+||.
T Consensus       303 v~~rT~~L~eVm~e~E~~KqemEe  326 (384)
T KOG0972|consen  303 VSSRTETLDEVMDEIEQLKQEMEE  326 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            432    44445555554444443

>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium

Probab=83.70  E-value=16  Score=32.29  Aligned_cols=92  Identities=15%  Similarity=0.251  Sum_probs=56.1

Q ss_pred             eecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHH-HHHh-hhhHHHh
Q 025142          108 WKGLSFADLMYVTRKSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKN-VEEA-CDDLFKV  184 (257)
Q Consensus       108 WKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL-~~tKkhLsqRI~~vd~kld~~~eis~~i~~e-V~~v-~~d~~~i  184 (257)
                      |++|         +.+|+ +|++-+|++++.+... ...+.-++.-++.+...+.+...-...+..+ |..+ ..+...+
T Consensus        14 w~~~---------~~sls-~~~~~~kqve~~~l~~lkqqqd~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l   83 (165)
T PF09602_consen   14 WKQW---------SQSLS-LFASFMKQVEQQTLKKLKQQQDWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSL   83 (165)
T ss_pred             HHHH---------HHHHH-HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7887         34554 6888899998877544 3334456666666666666555554444444 5555 2344455


Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhhh
Q 025142          185 EHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      .+.+.....-.+.|..+|..+--++
T Consensus        84 ~d~inE~t~k~~El~~~i~el~~~~  108 (165)
T PF09602_consen   84 NDSINEWTDKLNELSAKIQELLLSP  108 (165)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcch
Confidence            6666667777777777776554333

The role of the protein may include amino acid storage [].

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=83.68  E-value=5.9  Score=34.86  Aligned_cols=62  Identities=10%  Similarity=0.267  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025142          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      .-..-|..+.+.|..++++..+.-+...++|--  =.|=+=+.+++.+...+..||.+|..+|.
T Consensus        85 ~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvs--Yqll~hr~e~ee~~~~l~~le~~~~~~e~  146 (175)
T PRK13182         85 VDFEQLEAQLNTITRRLDELERQLQQKADDVVS--YQLLQHRREMEEMLERLQKLEARLKKLEP  146 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444556666666777777777777777888743  35567789999999999999999999764

>PRK14011 prefoldin subunit alpha; Provisional

Probab=83.36  E-value=3.8  Score=35.09  Aligned_cols=41  Identities=10%  Similarity=0.298  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 025142          141 ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDL  181 (257)
Q Consensus       141 sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~  181 (257)
                      ++.+|+++|..||+.|++.+++..+..+.+.+++.+++..+
T Consensus        85 ~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L  125 (144)
T PRK14011         85 DVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKEL  125 (144)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677888888899888888888888888888887776543

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=83.21  E-value=5.7  Score=34.65  Aligned_cols=96  Identities=20%  Similarity=0.326  Sum_probs=45.3

Q ss_pred             CcchhHHHhhhhHHH---HHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh
Q 025142          112 SFADLMYVTRKSMAT---AVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE  185 (257)
Q Consensus       112 s~sDlMfVTkr~ms~---Av~sv~kqLeqVsesL~~tKkhLsq---RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~  185 (257)
                      ++.+..+..+..|+.   .+..+..+|-..+..+..-++.+..   +|..+...+....+=.+...+++.+....++.+.
T Consensus        71 ~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~  150 (194)
T PF08614_consen   71 SLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQ  150 (194)
T ss_dssp             -------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456667777766664   4677788888888888777766654   5555566666666666666788888888999999


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhh
Q 025142          186 HNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      +++..++--...+|.|+..++.
T Consensus       151 DE~~~L~l~~~~~e~k~~~l~~  172 (194)
T PF08614_consen  151 DELQALQLQLNMLEEKLRKLEE  172 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998873

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=83.21  E-value=4.4  Score=32.12  Aligned_cols=38  Identities=18%  Similarity=0.406  Sum_probs=25.0

Q ss_pred             HHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025142          146 KKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (257)
Q Consensus       146 KkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (257)
                      .+.|..|++.+..++++..+-...++++.+.++..+.+
T Consensus        89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~  126 (129)
T cd00890          89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ  126 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777777777777766666666666666555443

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=83.07  E-value=4.5  Score=32.67  Aligned_cols=42  Identities=19%  Similarity=0.332  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025142          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (257)
                      +..|++.+..||+.+...+++..+....++++++.+...+++
T Consensus        85 ~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~  126 (129)
T cd00584          85 LEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE  126 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345557777788888777777777777777777666655544

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein

Probab=82.95  E-value=9.7  Score=31.26  Aligned_cols=44  Identities=20%  Similarity=0.305  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHhhhhHHH-hhhhHHHHHHHHHhhhhhhhhhhh
Q 025142          164 NEISKDIRKNVEEACDDLFK-VEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       164 ~eis~~i~~eV~~v~~d~~~-i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      .++.+.+.+.|..+-.++.- ...|++.++..|..|+.+|..++.
T Consensus        73 ~~le~~~~~~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l~~  117 (118)
T TIGR01837        73 DKLEKAFDERVEQALNRLNIPSREEIEALSAKIEQLAVQVEELRR  117 (118)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45666777777766555432 458999999999999999988764

This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=82.83  E-value=5.7  Score=29.68  Aligned_cols=51  Identities=24%  Similarity=0.355  Sum_probs=32.6

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025142          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (257)
                      +..||..|..|+--+.+..+...+.|++-+..+       +.++..+..|..||.+++
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I-------~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQI-------DRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhc
Confidence            567888888888888777777777776665544       445555556666766655

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=82.32  E-value=30  Score=29.35  Aligned_cols=89  Identities=21%  Similarity=0.246  Sum_probs=53.0

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          126 TAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       126 ~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      +++..=-|+|++=...+..-=+.|+.|++.+...+|+..+-....++.+.+.    +.-....++++..|..||..++..
T Consensus        17 e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~----~~~~~~~E~l~rriq~LEeele~a   92 (143)
T PF12718_consen   17 EELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEES----EKRKSNAEQLNRRIQLLEEELEEA   92 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH----HHHHHhHHHHHhhHHHHHHHHHHH
Confidence            4455556667776766666667777777777777776644444444444333    222233446777777777777776


Q ss_pred             hhhhhhHhHHHHH
Q 025142          206 ADKQDITNIGMYL  218 (257)
Q Consensus       206 e~kQd~tn~GV~~  218 (257)
                      +.+=.-|+.-+..
T Consensus        93 e~~L~e~~ekl~e  105 (143)
T PF12718_consen   93 EKKLKETTEKLRE  105 (143)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666555443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=82.28  E-value=25  Score=38.62  Aligned_cols=68  Identities=21%  Similarity=0.400  Sum_probs=42.9

Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHHHHHh
Q 025142          155 NLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFV  223 (257)
Q Consensus       155 ~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~  223 (257)
                      .+..+++.+.+--+..++++.++..++..+...+..+..-+..++.++++++..+.. ..|+...-.+.
T Consensus       443 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~-~~~~~~~~~~~  510 (1163)
T COG1196         443 ELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRA-SQGVRAVLEAL  510 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhhHHHHHHHH
Confidence            333334444444455555666666666677777777777777778888888877776 66666544443

>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits

Probab=81.53  E-value=3.7  Score=32.38  Aligned_cols=76  Identities=22%  Similarity=0.263  Sum_probs=42.1

Q ss_pred             CeEEEeCCCCCcceeehh-hhhHhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 025142           76 QIFVRNENSGGNATSLMI-PAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQ  154 (257)
Q Consensus        76 ~iTVvn~~sGg~~s~~iv-paA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~  154 (257)
                      .-+.|+-|+|.-+.+-|. |-=++.-+|.||+-++-                               +..|++.|..||+
T Consensus        39 ~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s-------------------------------~~eA~~~l~~r~~   87 (120)
T PF02996_consen   39 HEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMS-------------------------------LEEAIEFLKKRIK   87 (120)
T ss_dssp             -EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEE-------------------------------HHHHHHHHHHHHH
T ss_pred             ceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEec-------------------------------HHHHHHHHHHHHH
Confidence            445566666622222221 12234578999988874                               3556666777777


Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHhhhhHH
Q 025142          155 NLNDKVEKQNEISKDIRKNVEEACDDLF  182 (257)
Q Consensus       155 ~vd~kld~~~eis~~i~~eV~~v~~d~~  182 (257)
                      .+.+++++..+-.+.+++++..++..++
T Consensus        88 ~l~~~~~~l~~~~~~~~~~~~~~~~~l~  115 (120)
T PF02996_consen   88 ELEEQLEKLEKELAELQAQIEQLEQTLQ  115 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7776666665555555555554444433

Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.

>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS

Probab=81.23  E-value=7  Score=30.03  Aligned_cols=77  Identities=13%  Similarity=0.184  Sum_probs=40.8

Q ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025142          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (257)
                      +-+++-+.+...-++..+......-....+.+.+++++.=.+||=.      +++|....+.=+.       ..+..+..
T Consensus         2 ~~~~~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~kldlV------tREEFd~q~~~L~-------~~r~kl~~   68 (79)
T PF04380_consen    2 QDPNKIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSKLDLV------TREEFDAQKAVLA-------RTREKLEA   68 (79)
T ss_pred             CCchhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHCCCC------cHHHHHHHHHHHH-------HHHHHHHH
Confidence            3344555565555555555555555556666666666655555532      2444433333333       34444555


Q ss_pred             hhhhhhhhhh
Q 025142          198 LDGKIDSLAD  207 (257)
Q Consensus       198 Le~Ki~~ie~  207 (257)
                      ||.||..+|.
T Consensus        69 LEarl~~LE~   78 (79)
T PF04380_consen   69 LEARLAALEA   78 (79)
T ss_pred             HHHHHHHHhc
Confidence            5666666654

BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.

>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system []

Probab=80.97  E-value=26  Score=27.77  Aligned_cols=68  Identities=19%  Similarity=0.285  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhh---hHHHHHHHHHhhhhhhhhhhhh
Q 025142          141 ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEH---NLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       141 sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~---dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      -|...-+..+.|...+++.......-.+.......+++.-+.+|..   .|..+..+|..|+.-..++|.|
T Consensus        25 LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k   95 (99)
T PF10046_consen   25 LLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEYSKELESK   95 (99)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555666666666555555555555555555544444443   6666777777776666666654

>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]

Probab=80.92  E-value=6.1  Score=38.05  Aligned_cols=70  Identities=17%  Similarity=0.247  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHH
Q 025142          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQS  193 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~  193 (257)
                      ..++.|..+-++||.|+.=--+--..|..|++.|..+.|+ -..-+--+++..++++++..++.|+..+-.
T Consensus        45 ~e~dFv~~Ld~ELEKv~~F~lek~~el~~Rl~~L~e~~~~-~~~~~~~~~~~~~lr~~l~~~~~em~~L~~  114 (310)
T KOG1161|consen   45 DESDFVRLLDAELEKVNGFQLEKESELIIRLKELEEKIDA-LSLEPPSAEEMKELREELVDFHGEMVLLEN  114 (310)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-cccCCcchhHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999999999999999998874 111122234566677777777777766543

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=80.68  E-value=52  Score=31.07  Aligned_cols=47  Identities=26%  Similarity=0.347  Sum_probs=26.0

Q ss_pred             hhHHHhhhhHHHHHHHHHHhhHHHHHHHHHH---HHHHHHHHHhhHHhHH
Q 025142          115 DLMYVTRKSMATAVSNLNKHLESVTEALTVA---KKHLTQRIQNLNDKVE  161 (257)
Q Consensus       115 DlMfVTkr~ms~Av~sv~kqLeqVsesL~~t---KkhLsqRI~~vd~kld  161 (257)
                      +-+--....|.+-.+.+.++++.+.+.+...   +..|..++.++....+
T Consensus       152 ~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~  201 (325)
T PF08317_consen  152 EGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVE  201 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455555566666666776666665544433   4445555555554433

>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases

Probab=80.49  E-value=9.7  Score=33.83  Aligned_cols=82  Identities=18%  Similarity=0.317  Sum_probs=34.6

Q ss_pred             HHhhhhHHHHHHHHHHhhH-HHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHH
Q 025142          118 YVTRKSMATAVSNLNKHLE-SVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIY  196 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLe-qVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~  196 (257)
                      |+|+| |.--|+.-+.+-. ||...|+.+-.+|.+.+|.....|++.   +++..+++.    -++.+....+.++....
T Consensus        83 hAt~K-Lr~iv~~tsancs~QVqqeL~~tf~rL~~~Vd~~~~eL~~e---I~~L~~~i~----~le~~~~~~k~LrnKa~  154 (171)
T PF04799_consen   83 HATEK-LRLIVSFTSANCSHQVQQELSSTFARLCQQVDQTKNELEDE---IKQLEKEIQ----RLEEIQSKSKTLRNKAN  154 (171)
T ss_dssp             ----------------------------HHHHHHHHHHHHHHHHHHH---HHHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            44443 3333333333333 777777888777777766655554422   223333332    23566777777888888


Q ss_pred             hhhhhhhhhhh
Q 025142          197 CLDGKIDSLAD  207 (257)
Q Consensus       197 ~Le~Ki~~ie~  207 (257)
                      -|+..|++.+.
T Consensus       155 ~L~~eL~~F~~  165 (171)
T PF04799_consen  155 WLESELERFQE  165 (171)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888886553

Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=80.48  E-value=13  Score=37.10  Aligned_cols=84  Identities=20%  Similarity=0.395  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------HhhhhHHHhhhhHHHHHHHHHh--------h
Q 025142          139 TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EACDDLFKVEHNLKDLQSMIYC--------L  198 (257)
Q Consensus       139 sesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~------------~v~~d~~~i~~dv~~v~~~V~~--------L  198 (257)
                      -.-+..-|++|+.+-++|-.++|+.+.+.+.++++|.            .+..|++....+++.+..-+..        +
T Consensus       201 R~~~~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~kp~WkKiW  280 (424)
T PF03915_consen  201 RAYMESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTEKPIWKKIW  280 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence            4457788999999999999999999999999998864            3445555555555555555543        4


Q ss_pred             hhhhhhhhhhhhhHhHHHHHHHHH
Q 025142          199 DGKIDSLADKQDITNIGMYLLCNF  222 (257)
Q Consensus       199 e~Ki~~ie~kQd~tn~GV~~Lc~f  222 (257)
                      |.-|+.|..-|+|=+.=-.++-..
T Consensus       281 E~EL~~V~eEQqfL~~QedL~~DL  304 (424)
T PF03915_consen  281 ESELQKVCEEQQFLKLQEDLLSDL  304 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677777778888877775544443

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

>smart00806 AIP3 Actin interacting protein 3

Probab=80.33  E-value=17  Score=36.54  Aligned_cols=101  Identities=17%  Similarity=0.360  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHHhhHHHHHH------------HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------Hhh
Q 025142          123 SMATAVSNLNKHLESVTEA------------LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EAC  178 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVses------------L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~------------~v~  178 (257)
                      .+..-++++-.++.+|.++            +.+.|++|+.+-|+|-.|.|+.+.+.+.+|++|.            .+.
T Consensus       177 ~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v~  256 (426)
T smart00806      177 EIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQRGVRPSKKQLETVQ  256 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3445555666666666554            5677999999999999999999999999999874            334


Q ss_pred             hhHHHhhhhHHHHHHHHH--------hhhhhhhhhhhhhhhHhHHHHHHHHHh
Q 025142          179 DDLFKVEHNLKDLQSMIY--------CLDGKIDSLADKQDITNIGMYLLCNFV  223 (257)
Q Consensus       179 ~d~~~i~~dv~~v~~~V~--------~Le~Ki~~ie~kQd~tn~GV~~Lc~f~  223 (257)
                      .|++....|++.++.-+.        .+|..|+.|..-|+|-|.==.++...-
T Consensus       257 kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEEqqfL~lQedL~~DL~  309 (426)
T smart00806      257 KELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEEQQFLTLQEDLIADLK  309 (426)
T ss_pred             HHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444432        356778888888888776655555543

Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=80.19  E-value=10  Score=35.20  Aligned_cols=56  Identities=23%  Similarity=0.332  Sum_probs=31.4

Q ss_pred             HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025142          152 RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       152 RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      +|+.+|.+++....-.+.+++++..++..++.+..++..++..+..|+..+..++.
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~   66 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLES   66 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555555555555555555555555555555555555555555555554443

---

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	257
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-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 = 42.9 bits (100), Expect = 6e-05
 Identities = 50/305 (16%), Positives = 106/305 (34%), Gaps = 82/305 (26%)

Query: 10  QKILMLAGLGYTG-TILV----KDGKL------------------PE-LLRELQSLVERL 45
            K +++ G+  +G T +        K+                  PE +L  LQ L+ ++
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 46  SKSGEQ-DNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYG 104
             +     + +  IK +++ ++ E +R    + +            L++    L  +   
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN---------CLLV----LLNV--- 253

Query: 105 YMW----WKGLSF-ADLMYVTR-KSMATAVSN-------LNKHLESVT--EALTVAKKHL 149
                  W   +    ++  TR K +   +S        L+ H  ++T  E  ++  K+L
Sbjct: 254 --QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 150 TQRIQNLNDKVEKQNE-----ISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS 204
             R Q+L  +V   N      I++ IR  +     D +K   N   L ++I   +  ++ 
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATW--DNWK-HVNCDKLTTII---ESSLNV 365

Query: 205 L--ADKQDI----------TNIGMYLLCNFVDGKKGRTTESMQVGIVGYFLYDSNEIPSV 252
           L  A+ + +           +I   LL              +   +  Y L +     S 
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES- 424

Query: 253 TMVLH 257
           T+ + 
Sbjct: 425 TISIP 429

>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 = 41.4 bits (96), Expect = 2e-04
 Identities = 32/212 (15%), Positives = 73/212 (34%), Gaps = 57/212 (26%)

Query: 34  LLRELQSLVERLSKSGEQDNF---TDAIKDQ-----LNRLKFECQRA---SSGQIFV--- 79
           LL + + +V++  +   + N+      IK +     +    +  QR    +  Q+F    
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 80  --RNE--NSGGNATSLMIPAATL---GALGYGYMWWKGLSFADLMYVTRKS-MATAVSNL 131
             R +       A   + PA  +   G LG G                 K+ +A  V   
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSG-----------------KTWVALDVCL- 172

Query: 132 NKHLESVTEA----LTVAKKH----LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK 183
           +  ++   +     L +   +    + + +Q L  +++       D   N++     +  
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI-- 230

Query: 184 VEHNLKDL-QSMIY--CLDGKI-DSLADKQDI 211
            +  L+ L +S  Y  CL   +  ++ + +  
Sbjct: 231 -QAELRRLLKSKPYENCLL--VLLNVQNAKAW 259

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	257
2ba2_A	85	D12_ORF131, hypothetical UPF0134 protein MPN010; D	94.81
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	93.17
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	91.2
2zdi_C	151	Prefoldin subunit alpha; chaperone, cytoplasm; 3.0	90.66
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	90.37
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	89.81
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.62
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	89.5
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	89.42
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	89.12
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	88.86
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.24
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	86.94
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	86.46
2yo3_A	268	General control protein GCN4, putative inner MEMB	84.98
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	84.79
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	84.65
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	84.34
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	84.06
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	84.04
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	83.91
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	83.6
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	83.32
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	83.17
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	83.12
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	82.39
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	82.13
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	82.07
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	82.05
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	82.03
2qyw_A	102	Vesicle transport through interaction with T-SNAR	81.89
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	81.76
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	81.68
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	81.67
1gl2_D	65	Syntaxin 8, vesicle transport V-snare protein VTI1	80.71
3htk_A	60	Structural maintenance of chromosomes protein 5; S	80.56
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	80.53
2l5g_B	42	Putative uncharacterized protein NCOR2, G protein	80.46
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	80.1

>2ba2_A D12_ORF131, hypothetical UPF0134 protein MPN010; DUF16, hypothetical protein, coiled-coil, stutter, structural genomics, PSI; 1.80A {Mycoplasma pneumoniae} SCOP: h.1.30.1

Probab=94.81  E-value=0.065  Score=41.40  Aligned_cols=77  Identities=17%  Similarity=0.232  Sum_probs=49.7

Q ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025142          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (257)
                      |||+|-+..-....            .++..|.+|...+...+.-|-|-+..=-+++.+++-....-|.-++.|-....+
T Consensus         8 YVT~Kqf~e~l~~F------------k~~~~~~~~~~kie~~~~~QgEqI~~qGeqIkeLq~eqkaQg~tl~lil~tL~~   75 (85)
T 2ba2_A            8 YVTHKQLDEKLKNF------------VTKTEFKEFQTVVMESFAVQNQNIDAQGEQIKELQVEQKAQGKTLQLILEALQG   75 (85)
T ss_dssp             BCBHHHHHHHHTTB------------CBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceeHHHHHHHHHhh------------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            78988877642221            345555556555555555555554444455666665556667777788888888


Q ss_pred             hhhhhhhhh
Q 025142          198 LDGKIDSLA  206 (257)
Q Consensus       198 Le~Ki~~ie  206 (257)
                      +..+++.||
T Consensus        76 ~nkRLDkle   84 (85)
T 2ba2_A           76 INKRLDNLE   84 (85)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHhhccC
Confidence            888998886

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=93.17  E-value=1.4  Score=34.88  Aligned_cols=79  Identities=14%  Similarity=0.243  Sum_probs=61.8

Q ss_pred             HHHHHhh---HHHHHHHHHHHHHHHHHHHhhH----HhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025142          129 SNLNKHL---ESVTEALTVAKKHLTQRIQNLN----DKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       129 ~sv~kqL---eqVsesL~~tKkhLsqRI~~vd----~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      +.++|||   .+..+.+..+|+.|..+|+.+.    .|++++.+....++.++..=..++..+..+++.....=..|..+
T Consensus        11 aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~~~~~~k~~eq~~~le~lk~eL~~~~~el~~lq~~l~~~~~~~~~l~~~   90 (107)
T 2no2_A           11 AEVTKQVSMARQAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQVLQGSLETSAQSEANWAAE   90 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456665   4667788999999999999865    56778888888888888888888888888888887777777777


Q ss_pred             hhhhhh
Q 025142          202 IDSLAD  207 (257)
Q Consensus       202 i~~ie~  207 (257)
                      ++.++.
T Consensus        91 ~~~l~~   96 (107)
T 2no2_A           91 FAELEK   96 (107)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            766554

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=91.20  E-value=2.5  Score=41.09  Aligned_cols=96  Identities=13%  Similarity=0.252  Sum_probs=60.0

Q ss_pred             cchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHH-----Hh
Q 025142          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKK---HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLF-----KV  184 (257)
Q Consensus       113 ~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKk---hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~-----~i  184 (257)
                      +.|++=-+.++....+..+...|++++..-++++.   +|+..+...+.++.++.+..+.-.+++.+.+.-+.     .+
T Consensus        87 l~D~L~k~q~~V~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~  166 (464)
T 1m1j_B           87 LQTTLLKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNI  166 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccc
Confidence            48999999999999999999999999876666552   35555555555555544444444444433333222     23


Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhh
Q 025142          185 EHNLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      ...+..++..++.|..||..+|.+
T Consensus       167 ~~~i~~L~~~~~~l~~ki~~l~~~  190 (464)
T 1m1j_B          167 PSSLRVLRAVIDSLHKKIQKLENA  190 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555666666666666666554

>2zdi_C Prefoldin subunit alpha; chaperone, cytoplasm; 3.00A {Pyrococcus horikoshii}

Probab=90.66  E-value=4.9  Score=32.47  Aligned_cols=117  Identities=15%  Similarity=0.214  Sum_probs=63.0

Q ss_pred             CchhHHHHHHHHHHHhhhcCCCCCchHHHHHHHHHH---HHHh-hhhc----------CCCeEEEeCCCCCcceeehhhh
Q 025142           30 KLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRL---KFEC-QRAS----------SGQIFVRNENSGGNATSLMIPA   95 (257)
Q Consensus        30 kLsd~~g~lq~~lk~~~k~gd~~~~~d~L~aQV~~L---~~El-~La~----------sr~iTVvn~~sGg~~s~~ivpa   95 (257)
                      .++.=+..|...+..++.      ....|..+.++|   ...+ +...          ...-|-|.-|++.-..+-|.|+
T Consensus         6 ~~~~~l~ql~~~~qql~~------~~~~l~~~~~~L~~a~~~~~e~~~~l~~l~~l~~~~~~ilvplg~~~yv~g~i~~~   79 (151)
T 2zdi_C            6 QNNKELEKLAYEYQVLQA------QAQILAQNLELLNLAKAEVQTVRETLENLKKIEEEKPEILVPIGAGSFLKGVIVDK   79 (151)
T ss_dssp             SSTTHHHHHHHHHHHHTT------TTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSSCEEEEECSSSCEEEEECSCT
T ss_pred             hhHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCeEEEEEECCC
Confidence            444445556666655553      355666666666   4433 2111          2234445655552111111111


Q ss_pred             h-HhhhhheeeeEeecCCcchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025142           96 A-TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus        96 A-~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV  174 (257)
                      = ++.-+|.||+-.+-                               +..|++.|..||+.++..+++..+..+.+++++
T Consensus        80 ~~V~v~lG~g~~vE~~-------------------------------~~eA~~~l~~ri~~l~~~l~~l~~~l~~l~~~i  128 (151)
T 2zdi_C           80 NNAIVSVGSGYAVERS-------------------------------IDEAISFLEKRLKEYDEAIKKTQGALAELEKRI  128 (151)
T ss_dssp             TEEEEEEETTEEEEEE-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCeEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            0 12347888887764                               356677777777777777777766666666666


Q ss_pred             HHhhhhHHH
Q 025142          175 EEACDDLFK  183 (257)
Q Consensus       175 ~~v~~d~~~  183 (257)
                      +.+...+.+
T Consensus       129 ~~~~~~l~~  137 (151)
T 2zdi_C          129 GEVARKAQE  137 (151)
T ss_dssp             HTHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555444433

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=90.37  E-value=3.1  Score=36.13  Aligned_cols=39  Identities=18%  Similarity=0.315  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 025142          124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (257)
Q Consensus       124 ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~  162 (257)
                      ++.|+..++..+..+.+.++..-.++...++.+....++
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~   43 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISEN   43 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555444444444444444433333333

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=89.62  E-value=4  Score=40.59  Aligned_cols=96  Identities=14%  Similarity=0.154  Sum_probs=68.3

Q ss_pred             cchhHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHh-------HHHHHHHHHHHHHHHHHhhhhHHHhh
Q 025142          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDK-------VEKQNEISKDIRKNVEEACDDLFKVE  185 (257)
Q Consensus       113 ~sDlMfVTkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~k-------ld~~~eis~~i~~eV~~v~~d~~~i~  185 (257)
                      +-++|-=+-|++.+-++.|-.+|++++..=..+-....+..+.|..+       -+-..|++.+.+..+..+++.|.+--
T Consensus        51 LQglLdkqErDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQl  130 (562)
T 3ghg_A           51 MKGLIDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKV  130 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44677788899999999999999998766555544444444444333       34445566667777777777776655


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhhh
Q 025142          186 HNLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      .-++.||..|+.+-.||.+||--
T Consensus       131 snIrvLQsnLedq~~kIQRLEvD  153 (562)
T 3ghg_A          131 QHIQLLQKNVRAQLVDMKRLEVD  153 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            77788888888888888888844

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=89.50  E-value=3.1  Score=34.75  Aligned_cols=76  Identities=18%  Similarity=0.312  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------HhhhhHHHhhhhHHHHHHHHH--------hhh
Q 025142          140 EALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EACDDLFKVEHNLKDLQSMIY--------CLD  199 (257)
Q Consensus       140 esL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~------------~v~~d~~~i~~dv~~v~~~V~--------~Le  199 (257)
                      .-+.+-|++|+.+.|+|-.|+|+.+.+.+..|++|.            .+..|+.....|++.+...+.        .+|
T Consensus        10 ~y~~~~k~kL~~~sd~LvtkVDDLQD~VE~LRkDV~~RgvrP~~~ql~~v~kdi~~a~~eL~~m~~~i~~ekP~WKKiWE   89 (141)
T 3okq_A           10 MYMEKSQTELGDLSDTLLSKVDDLQDVIEIMRKDVAERRSQPAKKKLETVSKDLENAQADVLKLQEFIDTEKPHWKKTWE   89 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHH
Confidence            346778999999999999999999999999998864            455666666666666666554        356


Q ss_pred             hhhhhhhhhhhhHhHH
Q 025142          200 GKIDSLADKQDITNIG  215 (257)
Q Consensus       200 ~Ki~~ie~kQd~tn~G  215 (257)
                      ..|..|..-|+|-|.=
T Consensus        90 ~EL~~VceEQqfl~~Q  105 (141)
T 3okq_A           90 AELDKVCEEQQFLTLQ  105 (141)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7777777777776643

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=89.42  E-value=6.8  Score=33.99  Aligned_cols=74  Identities=11%  Similarity=0.178  Sum_probs=39.5

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 025142          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       130 sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (257)
                      .+...+++++..+...-..+....+.+....+++.+.++.+.+.+......+.++...+..+...+..+..++.
T Consensus         4 qva~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (213)
T 3g67_A            4 EVKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKEASSQIGETLENIR   77 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555555555555555555555555555554444444444444443333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=89.12  E-value=5.8  Score=36.63  Aligned_cols=77  Identities=21%  Similarity=0.233  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025142          124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       124 ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      |.+++..+-..=..+-++|..+.+.+.+-|++.-.. .++......+|+++++++..+.+++-.-..-++.|.+|-..
T Consensus       357 ~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~~-~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  433 (471)
T 3mq9_A          357 VRTAVINAASGRQTVDEALKDAQTRITAARDGLRAV-MEARNVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMAS  433 (471)
T ss_dssp             HHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHHH-HHhhhHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHH
Confidence            444444444333356677777777777777776433 47778888899999999999998888877777777666443

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=88.86  E-value=2.8  Score=36.64  Aligned_cols=57  Identities=14%  Similarity=0.159  Sum_probs=22.3

Q ss_pred             HHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 025142          146 KKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       146 KkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (257)
                      +++|-..|+.+.+.+.....-...++.++.++...+.++..|++.++..+...+.++
T Consensus        27 ~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l   83 (256)
T 3na7_A           27 IREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKM   83 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344444443333333333334444444444444444444433333333333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.24  E-value=3.1  Score=38.65  Aligned_cols=66  Identities=15%  Similarity=0.016  Sum_probs=51.0

Q ss_pred             hHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHHHH
Q 025142          156 LNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       156 vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (257)
                      +....+++.++.++.+.+-..++.|.+.++.+++.+++.-..++..+.+++..=.-++.-...+|.
T Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (487)
T 3oja_A          412 LRAIVKRYEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVV  477 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHH
Confidence            334555666777888888888888888888888888888888888888887777777777777665

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=86.94  E-value=6.9  Score=28.17  Aligned_cols=69  Identities=14%  Similarity=0.299  Sum_probs=42.4

Q ss_pred             hHHHHHHHHHHhhHHHHH-HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025142          123 SMATAVSNLNKHLESVTE-ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVse-sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      .|+.+.+.|=.|-|.+-. .-+.+..-...+++.+........+-...++.|+++++..+..+..+++++
T Consensus         6 DL~~il~eiRaQYE~ia~knr~EaE~~y~~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~sl   75 (77)
T 3trt_A            6 DCTAAMRDVRQQYESVAAKNLQEAEEWYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDAL   75 (77)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            456666777666655433 234455556677777666666666666666677666666666655555554

>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A

Probab=86.46  E-value=9.5  Score=37.38  Aligned_cols=100  Identities=13%  Similarity=0.190  Sum_probs=83.4

Q ss_pred             ecCCcchhHHHhhhhHHHHHHHHHHhhHHH-------HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 025142          109 KGLSFADLMYVTRKSMATAVSNLNKHLESV-------TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDL  181 (257)
Q Consensus       109 KGws~sDlMfVTkr~ms~Av~sv~kqLeqV-------sesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~  181 (257)
                      -|--+-++|-=+.|+..+.++.+.+.|+.+       +.-+..++.-|.+|.....+.=+-..|.+..++.....+++.+
T Consensus        48 SGCrLqglL~kqerdv~~rI~kLkn~L~~~s~s~~~s~~y~~~~~~~lk~~~~q~~dndn~~~e~S~eLe~ri~yIK~kV  127 (491)
T 1m1j_A           48 SGCRMQGIIDDTDQNYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDENYGHVSTELRRRIVTLKQRV  127 (491)
T ss_dssp             CSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccchhhHHHHhhhhHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHH
Confidence            456677888889999999999999988877       4557777888888888888888888899999999999999988


Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhh
Q 025142          182 FKVEHNLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       182 ~~i~~dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      ..--..+..||..|+.+-.||.+||.-
T Consensus       128 d~qi~~IrvLq~~l~~q~skIQRLE~d  154 (491)
T 1m1j_A          128 ATQVNRIKALQNSIQEQVVEMKRLEVD  154 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            764488889999999999999998843

>2yo3_A General control protein GCN4, putative inner MEMB protein, general control protein...; HANS motif, YADA-like head, ylhead; 2.00A {Saccharomyces cerevisiae}

Probab=84.98  E-value=2.4  Score=38.73  Aligned_cols=57  Identities=16%  Similarity=0.366  Sum_probs=35.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025142          135 LESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       135 LeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      ..|+++++..++....+|+..|+.++++...=..++.+.|.++-..+-.|..+++.+
T Consensus       200 v~QL~~s~~~an~yTd~k~~~l~n~I~~V~n~~~q~~~~~~~~~~~~~~~~~~~~~~  256 (268)
T 2yo3_A          200 YAQLKRSVEEANTYTDQKMGEMNSKIKGVENKMKQIEDKIEEILSKIYHIENEIARI  256 (268)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777899999988888888877766654444444444444444444444444333

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=84.79  E-value=9.5  Score=31.11  Aligned_cols=64  Identities=16%  Similarity=0.151  Sum_probs=48.4

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhh
Q 025142          148 HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDI  211 (257)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~  211 (257)
                      .+.++++.+...+++...=....+.++...+..++....++..++.-+..|+.++.++|.+.+.
T Consensus        72 k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~~~  135 (138)
T 3hnw_A           72 KAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELND  135 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4445566677777776666677777888888888888888888888888888888888877654

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=84.65  E-value=2  Score=34.24  Aligned_cols=70  Identities=16%  Similarity=0.269  Sum_probs=34.4

Q ss_pred             HhhHHHHHHHHHHHHH---HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          133 KHLESVTEALTVAKKH---LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       133 kqLeqVsesL~~tKkh---LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      ++...-++.+..+|.+   +..+|+.|..+++.+...-......+.++..   +...+++.++..+..||.-+..+
T Consensus        22 ~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   94 (129)
T 3tnu_B           22 QTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQ---RGELALKDARNKLAELEEALQKA   94 (129)
T ss_dssp             ------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhHHHH
Confidence            3333344455555543   3446777777777666666666665555543   33445666666666666666544

>2akf_A Coronin-1A; coiled coil, protein binding; 1.20A {Synthetic}

Probab=84.34  E-value=0.74  Score=29.34  Aligned_cols=28  Identities=18%  Similarity=0.488  Sum_probs=24.6

Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025142          182 FKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       182 ~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      +++..|+.+++.+|..|..+++++|+.-
T Consensus         2 srlee~~r~l~~ivq~lq~r~drle~tv   29 (32)
T 2akf_A            2 SRLEEDVRNLNAIVQKLQERLDRLEETV   29 (32)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678899999999999999999999764

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=84.06  E-value=15  Score=29.46  Aligned_cols=36  Identities=17%  Similarity=0.235  Sum_probs=14.8

Q ss_pred             HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025142          171 RKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       171 ~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (257)
                      +.++..+...+..+..++..+...+..++..+..++
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (284)
T 1c1g_A           68 QEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQ  103 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444444333

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=84.04  E-value=12  Score=34.55  Aligned_cols=42  Identities=7%  Similarity=0.189  Sum_probs=27.2

Q ss_pred             hhHHHHHHHHHHhhHHHHHH------HHHHHHHHHHHHHhhHHhHHHH
Q 025142          122 KSMATAVSNLNKHLESVTEA------LTVAKKHLTQRIQNLNDKVEKQ  163 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVses------L~~tKkhLsqRI~~vd~kld~~  163 (257)
                      .+...|++.+.+++++.-+.      .+.+.++|.++|+++.+++-+.
T Consensus       369 ~t~eeal~~~~~~i~~~l~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~  416 (471)
T 3mq9_A          369 QTVDEALKDAQTRITAARDGLRAVMEARNVTHLLQQELTEAQKGFQDV  416 (471)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHhhhHHHH
Confidence            45566666666666555443      3345667888898888887654

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=83.91  E-value=15  Score=29.30  Aligned_cols=72  Identities=15%  Similarity=0.402  Sum_probs=44.8

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHH
Q 025142          123 SMATAVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSM  194 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVsesL~~tKkhLsq---RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~  194 (257)
                      ....++++=++.++.-|-+|++--|.|.|   |++....+++|..+=-+++.+++.++-.+.-.+..++..++..
T Consensus        31 ~~d~ri~~NtqaI~~NS~aiaanTr~lQqh~aRlnsqQrQI~ENhkEMKq~aaqsaaLlsk~yh~ene~ar~kkl  105 (114)
T 2xzr_A           31 AIDGRVTRNTQSIEKNSKAIAANTRTLQQHSARLDSQQRQINENHKEMKQIEDKIEEILSKIYHIENEIARIKKL  105 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHhhHHHHHhchHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            45667788888888888888755555544   5555555555555555555566666666666666666555443

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=83.60  E-value=16  Score=31.12  Aligned_cols=78  Identities=18%  Similarity=0.288  Sum_probs=42.7

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhh
Q 025142          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCL  198 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVsesL~~tKkhLsq---RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~L  198 (257)
                      +.+.++...+-+.+-++...|..=|+--++   +|.-+..++       .....|+..++...++...|...++..+..|
T Consensus        58 ~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri-------~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~l  130 (168)
T 3o0z_A           58 RILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARI-------TSLQEEVKHLKHNLEKVEGERKEAQDMLNHS  130 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555544432222   222222222       2234555556666666677788888888888


Q ss_pred             hhhhhhhh
Q 025142          199 DGKIDSLA  206 (257)
Q Consensus       199 e~Ki~~ie  206 (257)
                      |..-.+++
T Consensus       131 EKe~a~~e  138 (168)
T 3o0z_A          131 EKEKNNLE  138 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhhh
Confidence            87777666

>4dnd_A Syntaxin-10, SYN10; structural genomics, protein structure initiative, nysgrc, P biology, NEW YORK structural genomics research consortium; HET: MSE; 1.40A {Homo sapiens} PDB: 1lvf_A

Probab=83.32  E-value=3.3  Score=33.53  Aligned_cols=27  Identities=15%  Similarity=0.368  Sum_probs=13.6

Q ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHH
Q 025142          120 TRKSMATAVSNLNKHLESVTEALTVAK  146 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVsesL~~tK  146 (257)
                      |++.|.++|.++..+|+.+.+++..+.
T Consensus        68 ~~~EL~~~l~sie~dLeDLe~sI~ivE   94 (130)
T 4dnd_A           68 TTNELRNGLRSIEWDLEDLEETIGIVE   94 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555443

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=83.17  E-value=11  Score=35.50  Aligned_cols=36  Identities=8%  Similarity=0.157  Sum_probs=28.6

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 025142          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd  157 (257)
                      ..+.+.+..+...+++....++..++++..|.+...
T Consensus       459 ~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~  494 (597)
T 3oja_B          459 NELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYR  494 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcC
Confidence            346678888888888888888888888888877665

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=82.39  E-value=2.9  Score=31.68  Aligned_cols=28  Identities=14%  Similarity=0.318  Sum_probs=15.8

Q ss_pred             HHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025142          147 KHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus       147 khLsqRI~~vd~kld~~~eis~~i~~eV  174 (257)
                      ..|..||..+...|++...=....+.|+
T Consensus        23 ~~Le~~v~~le~~Le~s~~~q~~~~~El   50 (79)
T 3cvf_A           23 AELEHQLRAMERSLEEARAERERARAEV   50 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666666555555555554

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=82.13  E-value=20  Score=30.17  Aligned_cols=69  Identities=17%  Similarity=0.154  Sum_probs=41.3

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025142          127 AVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       127 Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (257)
                      +|+.. +.+.+.-..|+.-..+|..||..++..+.+-....+.+++|.              ..++--..-+|.|+..++
T Consensus        59 ~vs~~-~~~~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl--------------~aLqlq~n~lE~kl~kLq  123 (152)
T 3a7p_A           59 IVSHD-DALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAAL--------------ISGTIENNVLQQKLSDLK  123 (152)
T ss_dssp             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH
T ss_pred             cccch-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH
Confidence            44444 334445566777777777777777766666555544444444              455555666677777666


Q ss_pred             h-hhh
Q 025142          207 D-KQD  210 (257)
Q Consensus       207 ~-kQd  210 (257)
                      . ++.
T Consensus       124 ~EN~~  128 (152)
T 3a7p_A          124 KEHSQ  128 (152)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            5 443

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=82.07  E-value=2.1  Score=34.27  Aligned_cols=73  Identities=22%  Similarity=0.370  Sum_probs=36.0

Q ss_pred             HHHHhhHHHHHHHHHHHHH---HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025142          130 NLNKHLESVTEALTVAKKH---LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       130 sv~kqLeqVsesL~~tKkh---LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      .+.++...-++.+..+|.+   +..+|+.|...++.+...-......+.++..   +...+++.++..+..||.-+..+
T Consensus        21 el~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           21 ELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKG---RYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             --------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444445666666653   4567788888887776666666666665543   34456667777777777777654

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=82.05  E-value=11  Score=28.61  Aligned_cols=67  Identities=15%  Similarity=0.162  Sum_probs=34.8

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHHHHH
Q 025142          153 IQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLL  219 (257)
Q Consensus       153 I~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~L  219 (257)
                      ++.|..|+++..+.+...+-+|.++++.-.....+.+.++.-...|+....++..-|..-...|..|
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555555555555555555544444444444333

>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C

Probab=82.03  E-value=6.3  Score=30.09  Aligned_cols=53  Identities=6%  Similarity=0.184  Sum_probs=39.6

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025142          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (257)
                      ..+...+++++..|+++...=...|+.+   |..++..+|+..|+..++.-||..+
T Consensus         8 ~df~~~~~~i~~~l~~~~~~~ge~Rk~~---i~~ie~~ldEA~ell~qMelE~~~~   60 (97)
T 3onj_A            8 SDFKTTLEQAKASLAEAPSQPLSQRNTT---LKHVEQQQDELFDLLDQMDVEVNNS   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHGGGSCHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccChHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            4456777888888887763333344444   6677789999999999999999888

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=81.89  E-value=5.6  Score=30.69  Aligned_cols=60  Identities=15%  Similarity=0.232  Sum_probs=41.3

Q ss_pred             hhHHHhhhhHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025142          115 DLMYVTRKSMATAVSNLNKHLESVTEALT-VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus       115 DlMfVTkr~ms~Av~sv~kqLeqVsesL~-~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (257)
                      +++----+.+...++++++.++++..... ..|+..   |..++..|||..|+..++.-||..+
T Consensus        15 elFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~~---i~~ie~~ldEA~eLl~qMelE~r~~   75 (102)
T 2qyw_A           15 EHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKKL---VRDFDEKQQEANETLAEMEEELRYA   75 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            44444456667777788887777643322 444433   6677788999999999998888765

>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1

Probab=81.76  E-value=3.8  Score=32.17  Aligned_cols=42  Identities=12%  Similarity=0.124  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025142          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (257)
                      +..|++.|..|++.++..+++..+....++++++.+...+.+
T Consensus        86 ~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~i~~~~~~l~~  127 (133)
T 1fxk_C           86 FEDAMESIKSQKNELESTLQKMGENLRAITDIMMKLSPQAEE  127 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356777777788877777777777777777777666555444

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=81.68  E-value=9.6  Score=33.22  Aligned_cols=64  Identities=11%  Similarity=0.099  Sum_probs=31.0

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHhh--hhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhhhHhHHH
Q 025142          153 IQNLNDKVEKQNEISKDIRKNVEEAC--DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGM  216 (257)
Q Consensus       153 I~~vd~kld~~~eis~~i~~eV~~v~--~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV  216 (257)
                      +.++...+++..+-.+..++....++  .++..+..+++....-...||.++-++...-+....-+
T Consensus        62 ~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l  127 (256)
T 3na7_A           62 VSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQ  127 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444432  23444555555555555556665555555554444433

>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus, protein transport, ER-golgi transport, ARF, GTPase, effector, myristate; HET: GTP; 1.93A {Homo sapiens}

Probab=81.67  E-value=10  Score=28.74  Aligned_cols=65  Identities=22%  Similarity=0.315  Sum_probs=40.7

Q ss_pred             hhHHHHHHHHH---HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhh
Q 025142          122 KSMATAVSNLN---KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCL  198 (257)
Q Consensus       122 r~ms~Av~sv~---kqLeqVsesL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~L  198 (257)
                      ++|.+-+.++=   ++|-..-.+|.-+|+.|..|+|.|.+..+                     .+..++.+++++-..+
T Consensus         5 ~gmgkevEnLi~EN~eLl~TKNaLnvvk~DLI~rvdELt~E~e---------------------~l~~El~s~~~~~~r~   63 (77)
T 2w83_C            5 EFMGREVENLILENTQLLETKNALNIVKNDLIAKVDELTCEKD---------------------VLQGELEAVKQAKLKL   63 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH---------------------HHHHHHHHHHHHHHHH
Confidence            45555555553   34444556788888999888887766543                     3456677777888888


Q ss_pred             hhhhhhhhh
Q 025142          199 DGKIDSLAD  207 (257)
Q Consensus       199 e~Ki~~ie~  207 (257)
                      +.|+.++|.
T Consensus        64 ~~ri~elEe   72 (77)
T 2w83_C           64 EEKNRELEE   72 (77)
T ss_dssp             HHHC-----
T ss_pred             HHHHHHHHH
Confidence            888877764

>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1

Probab=80.71  E-value=6.9  Score=27.44  Aligned_cols=51  Identities=8%  Similarity=0.231  Sum_probs=27.4

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025142          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      +.++.|..++..++.++..|.+||.+=-.=+.++..+++.....+..--.|
T Consensus         9 ~~Ld~L~~~v~~lk~~a~~Ig~El~~Qn~lLd~l~~~~d~~~~~l~~~~~r   59 (65)
T 1gl2_D            9 AGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARR   59 (65)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666666666666555444455555555554444433333

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=80.56  E-value=7.4  Score=26.69  Aligned_cols=44  Identities=11%  Similarity=0.132  Sum_probs=16.7

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025142          157 NDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       157 d~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      ..+++++.+.-..++.+..+.+..+.+.-.++..++.-+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~   54 (60)
T 3htk_A           11 ENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKN   54 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333333

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=80.53  E-value=30  Score=32.52  Aligned_cols=14  Identities=29%  Similarity=0.444  Sum_probs=5.4

Q ss_pred             hhhhhhhhhhhhhh
Q 025142          197 CLDGKIDSLADKQD  210 (257)
Q Consensus       197 ~Le~Ki~~ie~kQd  210 (257)
                      .||.+++....++.
T Consensus       548 ~le~~~~~~~~~~~  561 (597)
T 3oja_B          548 ALEKQLDNKRAKQA  561 (597)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhHHH
Confidence            34444433333333

>2l5g_B Putative uncharacterized protein NCOR2, G protein pathway suppressor 2; GPS2, SMRT, TBL1, CO-repressor, transcription regulator; NMR {Homo sapiens}

Probab=80.46  E-value=1.6  Score=29.64  Aligned_cols=22  Identities=14%  Similarity=0.330  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHhhHHhHHHHHHH
Q 025142          145 AKKHLTQRIQNLNDKVEKQNEI  166 (257)
Q Consensus       145 tKkhLsqRI~~vd~kld~~~ei  166 (257)
                      +|.+|-|+|++||..++...+=
T Consensus         3 tk~~l~qkI~kVdrEI~Kte~k   24 (42)
T 2l5g_B            3 SKEELIQNMDRVDREITMVEQQ   24 (42)
T ss_dssp             SSSHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHH
Confidence            5788999999999988876433

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=80.10  E-value=14  Score=27.17  Aligned_cols=55  Identities=15%  Similarity=0.163  Sum_probs=28.4

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025142          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      ..|.+.+..++.+...-.....++|..++..+..+..|++....-+.....|+..
T Consensus        19 ~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLee   73 (81)
T 1ic2_A           19 LDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLEL   73 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444554444444555555555555555555555555555544444443

---

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	257
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	86.18

>d1lvfa_ a.47.2.1 (A:) Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 6, SNAP-25 homolog
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.18  E-value=0.58  Score=34.55  Aligned_cols=61  Identities=15%  Similarity=0.306  Sum_probs=39.4

Q ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh-HHhHHHHHHHHHHHHHHHHHhhhhHH
Q 025142          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNL-NDKVEKQNEISKDIRKNVEEACDDLF  182 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVsesL~~tKkhLsqRI~~v-d~kld~~~eis~~i~~eV~~v~~d~~  182 (257)
                      +++-|.++|.++-.+|+.+.+++..+.++-. |- ++ +..++.=...++.++++|..++..+.
T Consensus        43 ~~~eL~~~l~siewdL~dLe~av~~ve~np~-kf-~l~~~ei~~Rr~fi~~~~~~I~~~~~~l~  104 (106)
T d1lvfa_          43 TTNELRNNLRSIEWDLEDLDETISIVEANPR-KF-NLDATELSIRKAFITSTRQIVRDMKDQMS  104 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSSGG-GG-TCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhCHH-hc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6788999999999999999999888765422 11 12 22244445555666666666655543