Citrus Sinensis ID: 025130

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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
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLGEKARRLLKAPSPMVSY
Secondary Structure (PSIPRED)
cccccccccHHHHEEEccccEEEEEccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccEEHHHHHEEHHcEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHcHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcEEEEEEEcccHHEEEEcccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccEEEEEHHEEHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHcccccccccccccccccccc
Coil and Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGytgtilvkdgklPELLRELQSLVERLSksgeqdnfTDAIKDQLNRLKFECqrassgqifvrnensggnatslmIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLdgkidsladkqdiTNIGMYLLCnfvdgkkgrttESMQEQLKLGEKARRllkapspmvsy
Flexible Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVErlsksgeqdnfTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRiqnlndkvekqneisKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKlgekarrllkapspmvsy
Low Complexity Region (SEG)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLGEKARRLLKAPSPMVSY
Disordered region (IsUnstruct)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLV***************IKDQLNRLKFECQRASSGQIFVRNE**GGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRI******************KNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDG********************************
Disordered Region (DISOPRED)
*******SFQKILMLAGLGYTGTILVKDGKLPELLRE***********************QLNRLK*******************GNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMA**********ESVTEALTVAKKHLTQRIQNLNDKVEKQNEI**D*****EEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFV**********************************
Disordered Region (DISEMBL)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLGEKARRLLK********
Disordered Region (DISPRO)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLK******************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLGEKARRLLKAPSPMVSY
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]	0.953	0.775	0.575	6e-73
224108101	316	predicted protein [Populus trichocarpa]	0.953	0.775	0.571	8e-73
449451443	293	PREDICTED: uncharacterized protein LOC10	0.984	0.863	0.528	2e-68
359473271	307	PREDICTED: uncharacterized protein LOC10	0.980	0.820	0.549	5e-67
21537323	304	unknown [Arabidopsis thaliana]	0.964	0.815	0.537	2e-66
18396143	304	uncharacterized protein [Arabidopsis tha	0.964	0.815	0.537	2e-66
297850966	304	hypothetical protein ARALYDRAFT_890018 [	0.964	0.815	0.521	3e-64
8778852	334	T7N9.6 [Arabidopsis thaliana]	0.964	0.742	0.525	4e-64
15227027	276	uncharacterized protein [Arabidopsis tha	0.949	0.884	0.477	4e-57
255638231	292	unknown [Glycine max]	0.964	0.849	0.476	6e-56

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

 Score =  279 bits (714), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/252 (57%), Positives = 185/252 (73%), Gaps = 7/252 (2%)

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 MQEQLKLGEKAR 245
           +++Q K   + R
Sbjct: 241 LEDQFKPSGRTR 252

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 =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 144/252 (57%), Positives = 187/252 (74%), Gaps = 7/252 (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 MQEQLKLGEKAR 245
           +++QLK   + R
Sbjct: 241 LEDQLKPSGRTR 252

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  264 bits (675), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 138/261 (52%), Positives = 188/261 (72%), Gaps = 8/261 (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 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES 233
           V      L  ++ +L +L +M+  LDGK+  L  KQD   +G+  LCN VDGK+ +  ++
Sbjct: 181 VAGVQKSLSDIDFDLGELHNMVSGLDGKLSQLEFKQDFATLGVMYLCNVVDGKQVKMPDT 240

Query: 234 MQEQLKLGEKAR-RLLKAPSP 253
           ++EQ KL  KA+ +L+   SP
Sbjct: 241 LKEQFKLSGKAQGQLMHLESP 261

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  260 bits (664), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 144/262 (54%), Positives = 184/262 (70%), Gaps = 10/262 (3%)

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 MQEQLKLGEKARRLL---KAPS 252
           M +QLKL  K+  LL   +APS
Sbjct: 241 MLKQLKLPGKSHGLLTSTEAPS 262

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 136/253 (53%), Positives = 177/253 (69%), Gaps = 5/253 (1%)

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 EQLKLGEKARRLL 248
            QL + ++AR LL
Sbjct: 241 LQLPVNQRARNLL 253

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 =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 136/253 (53%), Positives = 177/253 (69%), Gaps = 5/253 (1%)

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 EQLKLGEKARRLL 248
            QL + ++AR LL
Sbjct: 241 LQLPVNQRARNLL 253

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 =  251 bits (640), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 132/253 (52%), Positives = 174/253 (68%), Gaps = 5/253 (1%)

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 EQLKLGEKARRLL 248
            QL + ++AR LL
Sbjct: 241 LQLPVNQRARNLL 253

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  250 bits (639), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 136/259 (52%), Positives = 177/259 (68%), Gaps = 11/259 (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 TTESMQEQLKLGEKARRLL 248
             E  Q QL + ++AR LL
Sbjct: 241 LPEMEQLQLPVNQRARNLL 259

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

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 =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 118/247 (47%), Positives = 175/247 (70%), Gaps = 3/247 (1%)

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 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES-MQEQ 237
           +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+  +  +  MQE+
Sbjct: 181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGENHKMPDILMQEK 240

Query: 238 LKLGEKA 244
           L+L  K+
Sbjct: 241 LRLSGKS 247

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638231|gb|ACU19429.1| unknown [Glycine max]

 Score =  223 bits (568), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 121/254 (47%), Positives = 166/254 (65%), Gaps = 6/254 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQ+G+   KIL++AG GYTGT+L+K+GKL +L+ ELQ LV+ L KSGE    +  + D
Sbjct: 3   MAMQSGIGVSKILIIAGAGYTGTVLIKNGKLSDLIGELQLLVKGLEKSGEHAEGEGEYAD 62

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENS-GGNATSLMIPAATLGALGYGYMWWKGLSFA 114
           AI  Q+ RL  E  Q AS+  I V N  S   N +SL++PAA LGALGYGYMWWKG+SF+
Sbjct: 63  AIAAQVRRLANEVRQLASNRPITVLNGGSEQSNLSSLVVPAAALGALGYGYMWWKGISFS 122

Query: 115 DLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV 174
           DLMYVTR++M  AV++L K L+  ++ +   KKHLTQRIQNLNDK+ K NE+ +  +  V
Sbjct: 123 DLMYVTRRNMEKAVADLTKKLQHASDVIADTKKHLTQRIQNLNDKMLKLNELQRSTKDEV 182

Query: 175 EEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESM 234
                 +  +  +L  LQ  +  LD ++  L+ KQD  N G+  L ++V GK  +  E +
Sbjct: 183 AGVRSTITNIHEDLGYLQQTVETLDYRLAELSSKQDYANYGLSYLIDYVHGKSQKKPELL 242

Query: 235 QEQLKLGEKARRLL 248
           QEQLKL  K+  L+
Sbjct: 243 QEQLKLSGKSPNLI 256

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	0.964	0.815	0.533	5.4e-63
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.949	0.884	0.477	5.3e-56
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.856	0.658	0.376	5.1e-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 = 643 (231.4 bits), Expect = 5.4e-63, P = 5.4e-63
 Identities = 135/253 (53%), Positives = 179/253 (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 EQLKLGEKARRLL 248
              QL + ++AR LL
Sbjct:   241 LQLPVNQRARNLL 253

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 = 577 (208.2 bits), Expect = 5.3e-56, P = 5.3e-56
 Identities = 118/247 (47%), Positives = 175/247 (70%)

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 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTES-MQEQ 237
             +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+  +  +  MQE+
Sbjct:   181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGENHKMPDILMQEK 240

Query:   238 LKLGEKA 244
             L+L  K+
Sbjct:   241 LRLSGKS 247

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 = 379 (138.5 bits), Expect = 5.1e-35, P = 5.1e-35
 Identities = 87/231 (37%), Positives = 140/231 (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 SMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLGEK 243
              MI  ++GKI+SL  KQD+T  G++ LC     K   +T+  Q+   +GE+
Sbjct:   214 EMISGIEGKIESLESKQDVTLSGLWHLCQVAGVKDSTSTKVFQD---VGER 261

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        0.316   0.132   0.368    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  0.48    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:  585 (62 KB)
  Total size of DFA:  168 KB (2100 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:  30.24u 0.12s 30.36t   Elapsed:  00:00:02
  Total cpu time:  30.24u 0.12s 30.36t   Elapsed:  00:00:02
  Start:  Thu May  9 17:19:19 2013   End:  Thu May  9 17:19:21 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	6e-49

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

 Score =  157 bits (398), Expect = 6e-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	96.87
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.73
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	95.56
PRK10884	206	SH3 domain-containing protein; Provisional	95.55
PRK03947	140	prefoldin subunit alpha; Reviewed	95.34
PRK11637	428	AmiB activator; Provisional	95.28
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	95.06
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.92
PF00038	312	Filament: Intermediate filament protein; InterPro:	94.72
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	93.99
PHA02562	562	46 endonuclease subunit; Provisional	93.85
PRK14011	144	prefoldin subunit alpha; Provisional	93.69
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	93.67
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	93.5
PF02996	120	Prefoldin: Prefoldin subunit; InterPro: IPR004127	93.11
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	93.0
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	92.9
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	92.87
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.86
PRK11637	428	AmiB activator; Provisional	92.77
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	92.45
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	91.89
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	91.6
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	90.92
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	90.36
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	90.19
COG4942	420	Membrane-bound metallopeptidase [Cell division and	89.45
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	88.98
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	88.94
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	88.78
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	88.67
PHA02562	562	46 endonuclease subunit; Provisional	88.21
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	87.9
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	87.54
PF05597	132	Phasin: Poly(hydroxyalcanoate) granule associated	87.41
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	87.29
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	87.24
PRK04406	75	hypothetical protein; Provisional	86.64
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	86.61
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	86.47
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	86.47
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	86.42
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	86.33
PRK10884	206	SH3 domain-containing protein; Provisional	86.31
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	86.25
PRK04778	569	septation ring formation regulator EzrA; Provision	86.0
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	85.9
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	85.84
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	85.79
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	85.78
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	85.71
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	85.4
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	85.37
PRK09039	343	hypothetical protein; Validated	85.18
PF05739	63	SNARE: SNARE domain; InterPro: IPR000727 The proce	85.0
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	84.6
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	84.56
PRK04778	569	septation ring formation regulator EzrA; Provision	84.42
PRK13182	175	racA polar chromosome segregation protein; Reviewe	84.2
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	84.11
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	83.71
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	83.14
PF09602	165	PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion prot	83.03
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	82.94
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	82.81
COG2959	391	HemX Uncharacterized enzyme of heme biosynthesis [	82.74
PF12732	74	YtxH: YtxH-like protein; InterPro: IPR024623 This	82.56
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	82.5
TIGR01837	118	PHA_granule_1 poly(hydroxyalkanoate) granule-assoc	82.35
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	81.77
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	81.1
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	80.99
KOG1161	310	consensus Protein involved in vacuolar polyphospha	80.8
PF04380	79	BMFP: Membrane fusogenic activity; InterPro: IPR00	80.77
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	80.49
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	80.32
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	80.1

>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=6.9e-62  Score=402.05  Aligned_cols=126  Identities=50%  Similarity=0.903  Sum_probs=123.5

Q ss_pred             CCCCcceeehhhhhHhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 025130           83 NSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (257)
Q Consensus        83 ~sGg~~s~~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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 025130          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=96.87  E-value=0.0031  Score=50.84  Aligned_cols=85  Identities=21%  Similarity=0.358  Sum_probs=42.3

Q ss_pred             HhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 025130           97 TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEE  176 (257)
Q Consensus        97 ~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~  176 (257)
                      ++.+++|++.||+   ++. =||+|..+..               |++.-.+...|++.|+.+++.+     =++++|..
T Consensus        14 a~~~~~~~~~~~~---l~~-~~a~~~~~~~---------------l~~~~~~~~~Rl~~lE~~l~~L-----Pt~~dv~~   69 (106)
T PF10805_consen   14 AVFGIAGGIFWLW---LRR-TYAKREDIEK---------------LEERLDEHDRRLQALETKLEHL-----PTRDDVHD   69 (106)
T ss_pred             HHHHHHHHHHHHH---HHH-hhccHHHHHH---------------HHHHHHHHHHHHHHHHHHHHhC-----CCHHHHHH
Confidence            3446667777775   222 3666554433               1111122344444444444433     11556666


Q ss_pred             hhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025130          177 ACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       177 v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      ++..++++.+|++.+...+++++-..+.+
T Consensus        70 L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   70 LQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666655555554444433

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=95.73  E-value=0.1  Score=50.01  Aligned_cols=10  Identities=50%  Similarity=0.876  Sum_probs=6.8

Q ss_pred             hhhheeeeee
Q 025130           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 [].

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=95.56  E-value=0.23  Score=40.05  Aligned_cols=76  Identities=18%  Similarity=0.225  Sum_probs=54.1

Q ss_pred             CeEEEeCCCCCcceeehhhh-hHhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 025130           76 QIFVRNENSGGNATSLMIPA-ATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQ  154 (257)
Q Consensus        76 ~iTVvn~~sGg~~s~~ivpa-A~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~  154 (257)
                      .-+.|.-|+|.-..+-+.+. =++.-+|.||+-.+-                               +..|+++|..||+
T Consensus        48 ~~~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~vE~~-------------------------------~~eA~~~l~~~~~   96 (126)
T TIGR00293        48 KETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVEKD-------------------------------AEEAIEFLKKRIE   96 (126)
T ss_pred             CeEEEEcCCCeEEEEEeCCCCEEEEEcCCCEEEEec-------------------------------HHHHHHHHHHHHH
Confidence            34456656652111222111 123478999999984                               6899999999999


Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHhhhhHH
Q 025130          155 NLNDKVEKQNEISKDIRKNVEEACDDLF  182 (257)
Q Consensus       155 ~vd~kld~~~eis~~i~~eV~~v~~d~~  182 (257)
                      .++..+++..+..+..+++++.+...+.
T Consensus        97 ~l~~~~~~l~~~l~~l~~~~~~i~~~l~  124 (126)
T TIGR00293        97 ELEKAIEKLQEALAELASRAQQLEQEAQ  124 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998888888888775543

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.55  E-value=0.47  Score=42.67  Aligned_cols=98  Identities=15%  Similarity=0.225  Sum_probs=71.1

Q ss_pred             heeeeee----eccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025130          102 GYGYMWW----KGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus       102 GYgYmwW----KGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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 44445556678999999999999999999999999999999999998888766666555555555


Q ss_pred             hhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025130          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 KN-------QLIVAQKKVDAANLQLDDKQR  167 (206)
T ss_pred             HH-------HHHHHHHHHHHHHHHHHHHHH
Confidence            54       444455555555666655554

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=95.34  E-value=0.5  Score=38.91  Aligned_cols=55  Identities=25%  Similarity=0.355  Sum_probs=39.6

Q ss_pred             hhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025130           98 LGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus        98 vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (257)
                      +.-+|.||+-.+-                               +..|++.|..|++.++..+++..+-...+++++..+
T Consensus        79 ~v~lG~g~~vE~~-------------------------------~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~  127 (140)
T PRK03947         79 IVSLGAGYSAEKD-------------------------------LDEAIEILDKRKEELEKALEKLEEALQKLASRIAQL  127 (140)
T ss_pred             EEEcCCCEEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3469999999984                               577888888888888888777766666666666555


Q ss_pred             hhhHHH
Q 025130          178 CDDLFK  183 (257)
Q Consensus       178 ~~d~~~  183 (257)
                      ...+.+
T Consensus       128 ~~~l~~  133 (140)
T PRK03947        128 AQELQQ  133 (140)
T ss_pred             HHHHHH
Confidence            544433

>PRK11637 AmiB activator; Provisional

Probab=95.28  E-value=0.24  Score=47.87  Aligned_cols=80  Identities=3%  Similarity=0.175  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHhhHHHHHHHH---HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025130          124 MATAVSNLNKHLESVTEALT---VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       124 ms~Av~sv~kqLeqVs~sL~---~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      ..+-...+-+++++....+.   .-++++.+.|+.++.++++..+-...++.++.++..+++....++...+.-+..+..
T Consensus        45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444   333344455566666666555555555555555555555555555555555555444


Q ss_pred             hhh
Q 025130          201 KID  203 (257)
Q Consensus       201 Ki~  203 (257)
                      .+.
T Consensus       125 ~l~  127 (428)
T PRK11637        125 LLA  127 (428)
T ss_pred             HHH
Confidence            443

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

Probab=95.06  E-value=0.18  Score=41.30  Aligned_cols=81  Identities=21%  Similarity=0.330  Sum_probs=46.0

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025130          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVs~sL~~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--AQGEQINKLTEKVDKQGEQIKELQVEQ-------KAQGKTLQLILKTLQS   92 (102)
T ss_dssp             B-BHHHHHHH---HTTB-BHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhccHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
Confidence            7899999876655555555555555433  344455555555555544444444444       3555666667777777


Q ss_pred             hhhhhhhhhh
Q 025130          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            7888888874

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

>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=94.92  E-value=0.52  Score=42.48  Aligned_cols=92  Identities=13%  Similarity=0.186  Sum_probs=66.5

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 025130          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       133 kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (257)
                      .++.++......+..+.++||++.++.-++..+-.++.++++..++.-.++...-+++.+.-+..|+.+++.++..+.--
T Consensus        24 ~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l  103 (251)
T PF11932_consen   24 DQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQEL  103 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555666677788888888888888888888888888888888888888888888888888888888877655444


Q ss_pred             hH----HHHHHHHHhh
Q 025130          213 NI----GMYLLCNFVD  224 (257)
Q Consensus       213 n~----GV~~Lc~f~~  224 (257)
                      .-    =+..|-+|++
T Consensus       104 ~p~m~~m~~~L~~~v~  119 (251)
T PF11932_consen  104 VPLMEQMIDELEQFVE  119 (251)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            43    3334444444

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.

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

Probab=94.72  E-value=1.1  Score=40.98  Aligned_cols=99  Identities=12%  Similarity=0.211  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025130          123 SMATAVSNLNKHLES-VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       123 ~ms~Av~sv~kqLeq-Vs~sL~~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            388999999888774 4455668888999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhhhhHHHhHHHHHHHH
Q 025130          202 IDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       202 i~~ie~kQd~tn~GV~~Lc~  221 (257)
                      |..++..-.........-+.
T Consensus       246 l~~le~~~~~~~~~~~~~i~  265 (312)
T PF00038_consen  246 LRELEQRLDEEREEYQAEIA  265 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhh
Confidence            99988766655554444333

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 ....

>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=93.99  E-value=1.3  Score=35.79  Aligned_cols=43  Identities=19%  Similarity=0.322  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025130          141 ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (257)
Q Consensus       141 sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (257)
                      ++..|++.+..||+.+...+++..+....++++++.+...+++
T Consensus        84 ~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~  126 (129)
T cd00584          84 DLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE  126 (129)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4577788999999999999888888888888888777765554

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.

>PHA02562 46 endonuclease subunit; Provisional

Probab=93.85  E-value=1  Score=44.09  Aligned_cols=104  Identities=13%  Similarity=0.264  Sum_probs=73.8

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhh
Q 025130          129 SNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADK  208 (257)
Q Consensus       129 ~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~k  208 (257)
                      +.+..++++....+...++.+...|+.+..++++...-...++.++..++.++.+++.+++.+...+..++.++..++.+
T Consensus       191 ~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~  270 (562)
T PHA02562        191 DHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSK  270 (562)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHH
Confidence            33344444444555566666677788888888888888999999999999999999999888888888888888877776


Q ss_pred             hHHHhHHHHHH-----HHHhhcccCCChH
Q 025130          209 QDITNIGMYLL-----CNFVDGKKGRTTE  232 (257)
Q Consensus       209 Qd~tn~GV~~L-----c~f~~~~~~~~~~  232 (257)
                      -......+.++     |..|+..-...|.
T Consensus       271 l~~~~~~~~~~~~~~~Cp~C~~~~~~~~~  299 (562)
T PHA02562        271 IEQFQKVIKMYEKGGVCPTCTQQISEGPD  299 (562)
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCcCCCcHH
Confidence            55555444443     5666543333354

>PRK14011 prefoldin subunit alpha; Provisional

Probab=93.69  E-value=0.83  Score=39.06  Aligned_cols=41  Identities=10%  Similarity=0.298  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 025130          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            46788999999999999999999999999988887777543

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=93.67  E-value=1.6  Score=33.46  Aligned_cols=72  Identities=21%  Similarity=0.332  Sum_probs=56.3

Q ss_pred             hhHHHHHHH---HHHHHHHHHHHHhhHHhHHHHHHHHHHH--HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025130          134 HLESVTEAL---TVAKKHLTQRIQNLNDKVEKQNEISKDI--RKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       134 qLeqVs~sL---~~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            444444444   4556789999999999999998866544  23444 778899999999999999999999998774

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

Probab=93.50  E-value=0.3  Score=46.47  Aligned_cols=79  Identities=11%  Similarity=0.247  Sum_probs=46.9

Q ss_pred             cceeehhhhhHhhhhhee-eeeeeccCcchhHHHh--------HhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 025130           87 NATSLMIPAATLGALGYG-YMWWKGLSFADLMYVT--------RKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (257)
Q Consensus        87 ~~s~~ivpaA~vGavGYg-YmwWKGws~sDlMfVT--------kr~ms~Av~sv~kqLeqVs~sL~~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            455567767788888885 8889998444 44433        4445555555555555555555555555555555444


Q ss_pred             HhHHHHHHH
Q 025130          158 DKVEKQNEI  166 (257)
Q Consensus       158 ~kld~~~ei  166 (257)
                      ..|+...+.
T Consensus       161 ~~L~~l~~~  169 (300)
T KOG2629|consen  161 RALASLKNT  169 (300)
T ss_pred             HHHHHHHHH
Confidence            444444333

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

Probab=93.11  E-value=0.66  Score=36.66  Aligned_cols=77  Identities=22%  Similarity=0.266  Sum_probs=49.9

Q ss_pred             CeEEEeCCCCCcceeehh-hhhHhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 025130           76 QIFVRNENSGGNATSLMI-PAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQ  154 (257)
Q Consensus        76 ~iTVvn~~sGg~~s~~iv-paA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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            444566666622222221 22234578999999984                               5788888889999


Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025130          155 NLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (257)
Q Consensus       155 ~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (257)
                      .+.+++++..+-.+.+++++..+...+++
T Consensus        88 ~l~~~~~~l~~~~~~~~~~~~~~~~~l~~  116 (120)
T PF02996_consen   88 ELEEQLEKLEKELAELQAQIEQLEQTLQQ  116 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888877777777776666554444

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.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=93.00  E-value=6.2  Score=38.50  Aligned_cols=50  Identities=20%  Similarity=0.323  Sum_probs=27.5

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHH
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRK  172 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~  172 (257)
                      .+....+...+.++.-.+.+.+.+..+.++|+.++.++.......+.+++
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~  200 (457)
T TIGR01000       151 SLTSETQQQNDKSQTQNEAAEKTKAQLDQQISKTDQKLQDYQALKNAISN  200 (457)
T ss_pred             HHHHHHhhhhhhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            33444444444444445566666666666666666666665555554443

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

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

Probab=92.90  E-value=1.9  Score=36.36  Aligned_cols=32  Identities=22%  Similarity=0.397  Sum_probs=15.3

Q ss_pred             HHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025130          169 DIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       169 ~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      .+++++..++.|+..++.-|..+...+..||+
T Consensus        93 ~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~  124 (126)
T PF07889_consen   93 EVREDVSQIGDDVDSVQQMVEGLEGKIDEIEE  124 (126)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444444444444444444444444444444

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

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

Probab=92.87  E-value=2.4  Score=35.95  Aligned_cols=61  Identities=25%  Similarity=0.294  Sum_probs=46.8

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025130          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      |+.||+-|...||+...--+.+.+.+.++....+++..-+..+..--..+|.|++.++.+-
T Consensus        78 l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~  138 (143)
T PF12718_consen   78 LNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY  138 (143)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            6677777777787777777777777777777777777788888777777788877777653

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 [].

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

Probab=92.86  E-value=0.14  Score=49.24  Aligned_cols=86  Identities=14%  Similarity=0.323  Sum_probs=30.7

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHH---HHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhh
Q 025130          123 SMATAVSNLNKHLESVTEALTVAK---KHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLD  199 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~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            344444445555555444443333   34556666666666667777777777888888888888888888888888888


Q ss_pred             hhhhhhhhh
Q 025130          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            888877764

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.

>PRK11637 AmiB activator; Provisional

Probab=92.77  E-value=1.9  Score=41.74  Aligned_cols=79  Identities=18%  Similarity=0.294  Sum_probs=52.8

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHH---HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025130          129 SNLNKHLESVTEALTVAKKHLT---QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       129 ~sv~kqLeqVs~sL~~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            5677788888888777777666   6666666666666555556666666666666666666666666666666666655


Q ss_pred             hh
Q 025130          206 AD  207 (257)
Q Consensus       206 e~  207 (257)
                      +.
T Consensus       123 ~~  124 (428)
T PRK11637        123 ER  124 (428)
T ss_pred             HH
Confidence            44

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=92.45  E-value=1.9  Score=34.04  Aligned_cols=82  Identities=15%  Similarity=0.208  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHH
Q 025130          138 VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMY  217 (257)
Q Consensus       138 Vs~sL~~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            456677777777777888887777666544433    5555666667777777777777778888888877776666665


Q ss_pred             HHHHHh
Q 025130          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            554433

>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=91.89  E-value=4.6  Score=34.11  Aligned_cols=48  Identities=19%  Similarity=0.365  Sum_probs=41.7

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHH
Q 025130          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKD  169 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~  169 (257)
                      |.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+....
T Consensus        27 ~~~l~Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~e   74 (131)
T PF10158_consen   27 RPVLRLCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQEIAKLLQQMVE   74 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677889999999999999999999999999999999987765544443

The exact function of these proteins is not known.

>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=91.60  E-value=2.1  Score=32.77  Aligned_cols=29  Identities=14%  Similarity=0.320  Sum_probs=13.7

Q ss_pred             HHHhHhhHHHHHHHHHHhhHHHHHHHHHH
Q 025130          117 MYVTRKSMATAVSNLNKHLESVTEALTVA  145 (257)
Q Consensus       117 MfVTkr~ms~Av~sv~kqLeqVs~sL~~t  145 (257)
                      ++.+-+++......+.+.++.+.+.+...
T Consensus        17 l~~~l~~l~~~l~~~~~ti~~l~~~~~~i   45 (90)
T PF06103_consen   17 LIKVLKKLKKTLDEVNKTIDTLQEQVDPI   45 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            34455555555555444444444444333

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=90.92  E-value=1.3  Score=43.59  Aligned_cols=55  Identities=16%  Similarity=0.250  Sum_probs=25.6

Q ss_pred             hhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHH
Q 025130           99 GALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVE  161 (257)
Q Consensus        99 GavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld  161 (257)
                      -++|+||-|| |.       --.......-+.+..+|+.......+.+..|.+.+..++.++.
T Consensus        48 la~g~g~y~~-~~-------qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~~~~~~l~  102 (390)
T PRK10920         48 LAAGAGLYYH-GK-------QQAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAKALD  102 (390)
T ss_pred             HHHhhHHHHH-HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3667766666 21       1122234444555555555555444444444444444433333

>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=90.36  E-value=9.7  Score=31.91  Aligned_cols=22  Identities=14%  Similarity=0.021  Sum_probs=15.2

Q ss_pred             cchHHHHHHHHHHHHHh-hhhcC
Q 025130           53 NFTDAIKDQLNRLKFEC-QRASS   74 (257)
Q Consensus        53 ~~~d~L~aQV~~L~~El-~Lass   74 (257)
                      .+...+...++.++.+. .|+-+
T Consensus        40 ~~i~~~~~~i~~ia~qt~lLalN   62 (213)
T PF00015_consen   40 EDISEILSLINEIAEQTNLLALN   62 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHhhhh
Confidence            34566777788888888 66655

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=90.19  E-value=3.3  Score=33.33  Aligned_cols=65  Identities=17%  Similarity=0.305  Sum_probs=46.3

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh--hhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHH
Q 025130          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV--EHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i--~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (257)
                      ..+++.+++++++       ..+.++.+..++.+.  ..|+..++-.+..++++++.+++.=+.-++-+.+|.+
T Consensus        34 ~~~~~~l~~~~~~-------~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lLlE  100 (106)
T PF10805_consen   34 REDIEKLEERLDE-------HDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLLLE  100 (106)
T ss_pred             HHHHHHHHHHHHH-------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555444443       355566777777777  8888888888888888888888887777777777765

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

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

Probab=89.45  E-value=6.4  Score=39.34  Aligned_cols=86  Identities=15%  Similarity=0.234  Sum_probs=63.5

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 025130          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       133 kqLeqVs~sL~~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            77777777776554    44555566666666667777788888888888888888888888888899988887655 77


Q ss_pred             hHHHHHHHHHh
Q 025130          213 NIGMYLLCNFV  223 (257)
Q Consensus       213 n~GV~~Lc~f~  223 (257)
                      ..++....--+
T Consensus       113 qr~~La~~L~A  123 (420)
T COG4942         113 QRRRLAEQLAA  123 (420)
T ss_pred             HHHHHHHHHHH
Confidence            77776554433

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.98  E-value=4.6  Score=38.03  Aligned_cols=68  Identities=16%  Similarity=0.347  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 025130          136 ESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       136 eqVs~sL~~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            44556667778888889999999999888888888888888888888888888877766665544443

>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=88.94  E-value=6  Score=38.43  Aligned_cols=77  Identities=12%  Similarity=0.258  Sum_probs=49.0

Q ss_pred             hhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025130          115 DLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       115 DlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      |=|=-=+.+++++...+..||+.+++.|..+...+..|=..+..+++....-=+..++++.++++...+....|...
T Consensus       223 eqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~  299 (359)
T PF10498_consen  223 EQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSER  299 (359)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            44666677788888888888888888888887777777666666666555555555555554444444443333333

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.

>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=88.78  E-value=9.3  Score=32.93  Aligned_cols=81  Identities=14%  Similarity=0.282  Sum_probs=53.5

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH-HHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK-QNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~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            4566677777777777777777777777777776666554 345566777777777777766666666665555555444


Q ss_pred             hh
Q 025130          202 ID  203 (257)
Q Consensus       202 i~  203 (257)
                      +.
T Consensus       115 ln  116 (140)
T PF04513_consen  115 LN  116 (140)
T ss_pred             HH
Confidence            44

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=88.67  E-value=10  Score=30.83  Aligned_cols=15  Identities=13%  Similarity=0.271  Sum_probs=5.9

Q ss_pred             HHHHHHHHHhhHHHH
Q 025130          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            333444444433333

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=88.21  E-value=11  Score=37.09  Aligned_cols=48  Identities=15%  Similarity=0.145  Sum_probs=20.5

Q ss_pred             HhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025130          158 DKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       158 ~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      .++.+........++++.........+..++..++..+..++.++.++
T Consensus       337 ~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l  384 (562)
T PHA02562        337 KKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKL  384 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHH
Confidence            333333333333334444444444444444444444444444444433

>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=87.90  E-value=15  Score=30.78  Aligned_cols=95  Identities=11%  Similarity=0.237  Sum_probs=39.5

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025130          128 VSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       128 v~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      +..++.+-.+....+...-+++.+.++.+-..+++..+......+.+.+....+..|...++.+...+..+...+.++..
T Consensus        84 ir~LA~~t~~~~~~I~~~i~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~~~~~~  163 (213)
T PF00015_consen   84 IRKLAEQTSESAKEISEIIEEIQEQISQVVESMEESREQIEEGSESVEETSESLEEIAESVEEISDSIEEISESAEEQSE  163 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhhHHHHHHHHHhhhhhhhhhhhhhhhcchhhhhhhcccchhcchhhhhhhhhhhHHhhhhHHHHhhHHHHHH
Confidence            33334444444444444444444444444433444433333333444444444444444444444444444444444433


Q ss_pred             hhHHHhHHHHHHHHH
Q 025130          208 KQDITNIGMYLLCNF  222 (257)
Q Consensus       208 kQd~tn~GV~~Lc~f  222 (257)
                      .-.-.+..+.-+...
T Consensus       164 ~~~~i~~~i~~i~~~  178 (213)
T PF00015_consen  164 SIEQINESIEEISEI  178 (213)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333334333333

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.

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

Probab=87.54  E-value=10  Score=35.96  Aligned_cols=100  Identities=15%  Similarity=0.231  Sum_probs=74.3

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh--------------
Q 025130          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE--------------  185 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVs~sL~~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            344444556899999999999999999999999999998877777666666554443333333332              


Q ss_pred             ----hhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHH
Q 025130          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                2346678889999999999999888888776543

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=87.41  E-value=4.6  Score=34.19  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.2

Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhh
Q 025130          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            589999999999999998887765

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.

>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=87.29  E-value=14  Score=33.40  Aligned_cols=72  Identities=11%  Similarity=0.189  Sum_probs=50.0

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025130          129 SNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       129 ~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      ....++..+--+.+...|..|.++|+.+...++....-.+..++.|...+..+..+..+++++..+=..|..
T Consensus        34 ~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p  105 (251)
T PF11932_consen   34 VQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVP  105 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455556666777778888888888888877777777777777777777777777777777654444443

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.

>smart00502 BBC B-Box C-terminal domain

Probab=87.24  E-value=12  Score=28.78  Aligned_cols=26  Identities=19%  Similarity=0.176  Sum_probs=15.9

Q ss_pred             HHHhHHHHHHHHHhhccc--CCChHHHH
Q 025130          210 DITNIGMYLLCNFVDGKK--GRTTESMQ  235 (257)
Q Consensus       210 d~tn~GV~~Lc~f~~~~~--~~~~~~~q  235 (257)
                      ......+..+|.|+...-  +.-+++++
T Consensus        85 ~~~l~~l~~~~~~~e~~l~~~~~~e~L~  112 (127)
T smart00502       85 TQKQEKLSHAINFTEEALNSGDPTELLL  112 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCChHHHH
Confidence            345667788888887433  33346665

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

>PRK04406 hypothetical protein; Provisional

Probab=86.64  E-value=5.2  Score=30.74  Aligned_cols=53  Identities=13%  Similarity=0.209  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHH
Q 025130          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIY  196 (257)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~  196 (257)
                      ++...+.+||+.|..++--|.......-+.|++-+..+......++.+.+-+.
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~   56 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVK   56 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45557888999999999888888888888888777666665555555544333

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=86.61  E-value=2.9  Score=37.60  Aligned_cols=55  Identities=24%  Similarity=0.321  Sum_probs=24.0

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025130          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        78 A~lvinlE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v~~~~q~~~~l~~K~D~  132 (189)
T TIGR02132        78 ASLVINLEEKVDLIEEFFDDKFDELEAQQEQAPALKKDVTKLKQDIKSLDKKLDK  132 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444333333333322223333444444454445555555554

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.

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

Probab=86.47  E-value=19  Score=30.60  Aligned_cols=79  Identities=13%  Similarity=0.230  Sum_probs=34.9

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025130          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      +++++-++.++....++-+.+...=.++...++.....+++..+.+..+.+.+.++..-+..+..-++.+...+..+..
T Consensus       136 ~~la~~t~~~~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~i~~~~~~~~~  214 (262)
T smart00283      136 RKLAERSAESAKEIESLIKEIQEETNEAVAAMEESSSEVEEGVELVEETGEALEEIVDSVEEIADLVQEIAAATDEQAA  214 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444433333344444444444444444444444444444444444444444444444443333

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

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

Probab=86.47  E-value=11  Score=39.89  Aligned_cols=35  Identities=11%  Similarity=0.301  Sum_probs=25.1

Q ss_pred             HHHHHHHHhhHHHHHH-HHHHHHHHHHHHHhhHHhH
Q 025130          126 TAVSNLNKHLESVTEA-LTVAKKHLTQRIQNLNDKV  160 (257)
Q Consensus       126 ~Av~sv~kqLeqVs~s-L~~tKkhLsqRI~~vd~kl  160 (257)
                      ..++++.+|++++-.. ...++.|+...|++.+..+
T Consensus       187 ~~l~~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l  222 (806)
T PF05478_consen  187 TFLNDTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL  222 (806)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence            3445667777777777 7778888888888777653

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

>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=86.42  E-value=15  Score=29.16  Aligned_cols=68  Identities=19%  Similarity=0.285  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhh---hHHHHHHHHHhhhhhhhhhhhh
Q 025130          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            3444445555555555555555555555555555555544444433   6666666666666666666654

>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=86.33  E-value=11  Score=28.86  Aligned_cols=56  Identities=16%  Similarity=0.254  Sum_probs=26.3

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025130          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (257)
                      +..++.+.+++|....=...+-++++++.+|+...-..++.+-+.|..++..+.++
T Consensus        32 ~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   32 NKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33333344444433333333344444444444444455555555555555555543

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.31  E-value=11  Score=34.05  Aligned_cols=115  Identities=10%  Similarity=0.130  Sum_probs=70.5

Q ss_pred             hhcCCCeEEEeCCCCCcceeehhhhhHhhhhheeeeeeeccCcchhHH--HhHhhHHHHHHHHHHhhHHHHHHHHHHHHH
Q 025130           71 RASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMY--VTRKSMATAVSNLNKHLESVTEALTVAKKH  148 (257)
Q Consensus        71 Lassr~iTVvn~~sGg~~s~~ivpaA~vGavGYgYmwWKGws~sDlMf--VTkr~ms~Av~sv~kqLeqVs~sL~~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            444567787765433334222211   14455544432    232211  112356777777778888888888888888


Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHH
Q 025130          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQ  192 (257)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~  192 (257)
                      +.++++..+....+.++=-++.++++..++.++....-+.+.++
T Consensus       123 l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884        123 MQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888777777777778888887766655555554443

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

Probab=86.25  E-value=9.4  Score=29.80  Aligned_cols=63  Identities=16%  Similarity=0.259  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHH----HHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025130          142 LTVAKKHLTQRIQNLNDKVEKQNEISKD----IRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~----i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      +-.+.+++++|++.=...|.++++.++.    ++.+...=...+.++..|++.++..++.|..|+..
T Consensus        16 ~l~~Q~~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~kl~~   82 (88)
T PF10241_consen   16 ILALQAQTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKAKLAK   82 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345566677777766666666665543    34555555566777899999999999999988863

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=86.00  E-value=18  Score=36.63  Aligned_cols=69  Identities=13%  Similarity=0.164  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHHHhhccc-CCChHHH
Q 025130          166 ISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKK-GRTTESM  234 (257)
Q Consensus       166 is~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~~~~~-~~~~~~~  234 (257)
                      .-..++++..++...++.|..+...++..+..|.....+...+-..-..-+..+-.++...+ ..+|+.+
T Consensus       377 ~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~k~~lpgip~~y  446 (569)
T PRK04778        377 AYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYLEKSNLPGLPEDY  446 (569)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHH
Confidence            33444455555566666666666666666665555544444333333333334444444333 5566654

>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=85.90  E-value=8.7  Score=39.48  Aligned_cols=92  Identities=12%  Similarity=0.278  Sum_probs=66.6

Q ss_pred             cchhHHH----hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhH
Q 025130          113 FADLMYV----TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNL  188 (257)
Q Consensus       113 ~sDlMfV----Tkr~ms~Av~sv~kqLeqVs~sL~~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            4555555    8999987654   45555666666666778889999999999999999999999988887777766666


Q ss_pred             HHHHHHHHhhhhhhhhhhhhhHHHhH
Q 025130          189 KDLQSMIYCLDGKIDSLADKQDITNI  214 (257)
Q Consensus       189 ~~v~~~V~~Le~Ki~~ie~kQd~tn~  214 (257)
                      ..+       -.+...++.||.....
T Consensus        83 ~~L-------~~~~~~~~~k~~ll~~  101 (618)
T PF06419_consen   83 SEL-------REQKEELELKKKLLDA  101 (618)
T ss_pred             HHH-------HHHHHHHHHHHHHHHH
Confidence            666       4555555555554443

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

Probab=85.84  E-value=32  Score=32.47  Aligned_cols=114  Identities=20%  Similarity=0.276  Sum_probs=66.1

Q ss_pred             hhHHHhHhhHHHHHHHHHHhhHHHHHHHHHH---HHHHHHHHHhhHHhHHHHH----HHHHHHHHHHHHhhhhHHHhhhh
Q 025130          115 DLMYVTRKSMATAVSNLNKHLESVTEALTVA---KKHLTQRIQNLNDKVEKQN----EISKDIRKNVEEACDDLFKVEHN  187 (257)
Q Consensus       115 DlMfVTkr~ms~Av~sv~kqLeqVs~sL~~t---KkhLsqRI~~vd~kld~~~----eis~~i~~eV~~v~~d~~~i~~d  187 (257)
                      +-+--....|.+-.+.+.++++.+.+.+...   +..|..+|.++....++..    +--...+.++.+...+++..+.+
T Consensus       152 ~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~  231 (325)
T PF08317_consen  152 EGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKE  231 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555566666666666666665544433   4455556666555544322    11234455555555556666666


Q ss_pred             HHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHHHhhcccC
Q 025130          188 LKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKG  228 (257)
Q Consensus       188 v~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~~~~~~  228 (257)
                      +..++.-+..++.+|..++....-...=|.-+=.+.+...+
T Consensus       232 l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~  272 (325)
T PF08317_consen  232 LAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRG  272 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            66666667777777777777666666666666665554443

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

Probab=85.79  E-value=4.3  Score=42.04  Aligned_cols=19  Identities=16%  Similarity=0.352  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHhhHHhHHHH
Q 025130          145 AKKHLTQRIQNLNDKVEKQ  163 (257)
Q Consensus       145 tKkhLsqRI~~vd~kld~~  163 (257)
                      +.+.+++|+..++.++.+.
T Consensus       379 ~~~~~~~~l~~le~~l~~~  397 (656)
T PRK06975        379 SVHQLDSQFAQLDGKLADA  397 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444443

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

Probab=85.78  E-value=13  Score=41.16  Aligned_cols=92  Identities=12%  Similarity=0.182  Sum_probs=72.0

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 025130          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       133 kqLeqVs~sL~~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            33444444455555555666666676777777777778888888888899999999999999999999999999888888


Q ss_pred             hHHHHHHHHHhh
Q 025130          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            889999998875

>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=85.71  E-value=3.9  Score=31.88  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=8.6

Q ss_pred             hhhhHHHHHHHHHhhhhhhhh
Q 025130          184 VEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       184 i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      +..-++.+-..+.+|+.++..
T Consensus        40 l~~klDa~~~~l~~l~~~V~~   60 (75)
T PF05531_consen   40 LNKKLDAQSAQLTTLNTKVNE   60 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444443

; GO: 0019028 viral capsid

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

Probab=85.40  E-value=16  Score=32.87  Aligned_cols=71  Identities=17%  Similarity=0.257  Sum_probs=52.7

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHH
Q 025130          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLC  220 (257)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc  220 (257)
                      ..||+.|..++.+...+.........++...+..+..|+......+..+|.|+..++..-.....-+.-|=
T Consensus        91 eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE  161 (237)
T PF00261_consen   91 EERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLE  161 (237)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhh
Confidence            44666666666677777777777777888888888888888888888888888888876666655555543

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 ....

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

Probab=85.37  E-value=23  Score=30.53  Aligned_cols=96  Identities=15%  Similarity=0.218  Sum_probs=46.2

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHH----HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH-hhhhHHHHH
Q 025130          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKH----LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK-VEHNLKDLQ  192 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVs~sL~~tKkh----LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~-i~~dv~~v~  192 (257)
                      +|||..+.+..-..-..+.++-..+....++    +....+.|...+|..   -..+++|+..++.++.- |..+=..++
T Consensus        43 ~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l---~~~L~~ei~~l~a~~klD~n~eK~~~r  119 (177)
T PF07798_consen   43 LVTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKL---RQELREEINKLRAEVKLDLNLEKGRIR  119 (177)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            6788888877777777777776666555544    233333333333322   23444445444433320 111111334


Q ss_pred             HHHHhhhhhhhhhhhhhHHHhHHH
Q 025130          193 SMIYCLDGKIDSLADKQDITNIGM  216 (257)
Q Consensus       193 ~~V~~Le~Ki~~ie~kQd~tn~GV  216 (257)
                      .....+|.||..++.+-+....++
T Consensus       120 ~e~~~~~~ki~e~~~ki~~ei~~l  143 (177)
T PF07798_consen  120 EEQAKQELKIQELNNKIDTEIANL  143 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555554444444443343

>PRK09039 hypothetical protein; Validated

Probab=85.18  E-value=15  Score=35.19  Aligned_cols=57  Identities=14%  Similarity=0.182  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 025130          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (257)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (257)
                      .....+..|+..+.++|++.+..+....-+|..++..++.++.-+..++..+...|.
T Consensus       109 ~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~  165 (343)
T PRK09039        109 GAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEK  165 (343)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334477788888888888887777766666655555555555544444444444443

>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=85.00  E-value=9.3  Score=26.84  Aligned_cols=54  Identities=19%  Similarity=0.326  Sum_probs=32.1

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025130          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      +.|+.+..++.+.+++...|.++|.+=..-+.+|..+++....-+..=-.+|..
T Consensus         4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~k   57 (63)
T PF05739_consen    4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKK   57 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666666666666666666666666666666555555444444443

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 ....

>smart00787 Spc7 Spc7 kinetochore protein

Probab=84.60  E-value=31  Score=32.87  Aligned_cols=128  Identities=17%  Similarity=0.204  Sum_probs=76.1

Q ss_pred             HhHhhHHHHHHHHHHhhHHHHHHHHH---HHHHHHHHHHhhHHhHHHH----HHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025130          119 VTRKSMATAVSNLNKHLESVTEALTV---AKKHLTQRIQNLNDKVEKQ----NEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       119 VTkr~ms~Av~sv~kqLeqVs~sL~~---tKkhLsqRI~~vd~kld~~----~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      -..-.|.+--+.+.++++.+.+.+..   -+..|...+..+..-.++.    .+.-..+++++.+...+++....++..+
T Consensus       151 ~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~  230 (312)
T smart00787      151 ENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEEL  230 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555666666555544333   3334444444444444442    2244455667777777777778888888


Q ss_pred             HHHHHhhhhhhhhhhhhhHHHhHHHHHHHHHhhcccCCChH-H--HHHHhhhcccccc
Q 025130          192 QSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE-S--MQEQLKLGEKARR  246 (257)
Q Consensus       192 ~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~~~~~~~~~~-~--~q~~~k~~~~~~~  246 (257)
                      +.-+..++.+|.....+..-.+.=|..+=...+...+-.+. .  |+++++.-.+-.|
T Consensus       231 ~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~Le~l~g  288 (312)
T smart00787      231 EEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLLQSLTG  288 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhC
Confidence            88888888888888887777777777776666655544432 2  4555544444333

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>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=84.56  E-value=9.4  Score=31.84  Aligned_cols=65  Identities=17%  Similarity=0.241  Sum_probs=53.2

Q ss_pred             HhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 025130          119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV  184 (257)
Q Consensus       119 VTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i  184 (257)
                      .+|..+++-+-.+++..|.+.+.... ..+|...++.+..+.+..-++-+.--++|.+++.|+..+
T Consensus        44 ~~r~~l~~Eiv~l~~~~e~~~~~~~~-~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~Dl  108 (120)
T PF12325_consen   44 AERDELREEIVKLMEENEELRALKKE-VEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDL  108 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHH
Confidence            38999999999999998888555444 458999999999999999999999889998888666543

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 [].

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=84.42  E-value=27  Score=35.40  Aligned_cols=100  Identities=13%  Similarity=0.216  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhhHHHHHHHHH---HHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhh----------HHHhhhh---
Q 025130          124 MATAVSNLNKHLESVTEALTV---AKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDD----------LFKVEHN---  187 (257)
Q Consensus       124 ms~Av~sv~kqLeqVs~sL~~---tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d----------~~~i~~d---  187 (257)
                      ....+..+.+++|++|+.|..   ||+...+.+..+.+.++...+-...++.++..++..          +..+..+   
T Consensus       280 ~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~  359 (569)
T PRK04778        280 AEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLES  359 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHH
Confidence            345566677777777777653   555555555555555555555555555544444443          2222222   


Q ss_pred             ------------------HHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHHHh
Q 025130          188 ------------------LKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFV  223 (257)
Q Consensus       188 ------------------v~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~  223 (257)
                                        ...+......|..++..++..|.--..-+..|+.--
T Consensus       360 Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E  413 (569)
T PRK04778        360 LEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDE  413 (569)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                              234445566777777888888888888887777644

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=84.20  E-value=5.5  Score=35.05  Aligned_cols=62  Identities=10%  Similarity=0.270  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025130          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~vvsY--qll~hr~e~ee~~~~l~~le~~~~~~e~  146 (175)
T PRK13182         85 VDFEQLEAQLNTITRRLDELERQLQQKADDVVSY--QLLQHRREMEEMLERLQKLEARLKKLEP  146 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH--HHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4445566667777777777777777778887443  4677889999999999999999998664

>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=84.11  E-value=22  Score=31.05  Aligned_cols=88  Identities=17%  Similarity=0.337  Sum_probs=50.0

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh----hhHHHhhhhHHHHHHH
Q 025130          120 TRKSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC----DDLFKVEHNLKDLQSM  194 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVs~sL-~~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            55555555554444444444444 456788888888887776665555555555554433    3445566666666666


Q ss_pred             HHhhhhhhhhhhh
Q 025130          195 IYCLDGKIDSLAD  207 (257)
Q Consensus       195 V~~Le~Ki~~ie~  207 (257)
                      +.+-.+.|+.++.
T Consensus       158 l~~~~g~I~~L~~  170 (184)
T PF05791_consen  158 LAGENGDIPQLQK  170 (184)
T ss_dssp             HHHTT--HHHHHH
T ss_pred             HhcccCCHHHHHH
Confidence            6666666665554

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.

>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=83.71  E-value=13  Score=36.23  Aligned_cols=87  Identities=16%  Similarity=0.289  Sum_probs=57.9

Q ss_pred             CcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh-------HHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 025130          112 SFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNL-------NDKVEKQNEISKDIRKNVEEACDDLFKV  184 (257)
Q Consensus       112 s~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~v-------d~kld~~~eis~~i~~eV~~v~~d~~~i  184 (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            47788888999999987777777776554    455555555444       3445555555555556677777777788


Q ss_pred             hhhHHHHHHHHHhhhhhh
Q 025130          185 EHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki  202 (257)
                      ..+++.+++-+..=+.+|
T Consensus       307 seeLe~vK~emeerg~~m  324 (359)
T PF10498_consen  307 SEELEQVKQEMEERGSSM  324 (359)
T ss_pred             HHHHHHHHHHHHHhcCCC
Confidence            888777776655444444

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.

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

Probab=83.14  E-value=17  Score=35.35  Aligned_cols=99  Identities=13%  Similarity=0.225  Sum_probs=70.2

Q ss_pred             eccCc-chhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhh
Q 025130          109 KGLSF-ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHN  187 (257)
Q Consensus       109 KGws~-sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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 36788899999999999999999999999999999998888888777655544445556666666665555555


Q ss_pred             HHH----HHHHHHhhhhhhhhhhh
Q 025130          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    44455555555444444

>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=83.03  E-value=19  Score=31.86  Aligned_cols=92  Identities=15%  Similarity=0.253  Sum_probs=58.2

Q ss_pred             eeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHH-HHHh-hhhHHHh
Q 025130          108 WKGLSFADLMYVTRKSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKN-VEEA-CDDLFKV  184 (257)
Q Consensus       108 WKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL-~~tKkhLsqRI~~vd~kld~~~eis~~i~~e-V~~v-~~d~~~i  184 (257)
                      |++|         +.+| .+|++-+|++++.+... ...+.-++.-++.+...+.+...-...+-.+ |..+ ..+...+
T Consensus        14 w~~~---------~~sl-s~~~~~~kqve~~~l~~lkqqqd~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l   83 (165)
T PF09602_consen   14 WKQW---------SQSL-SLFASFMKQVEQQTLKKLKQQQDWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSL   83 (165)
T ss_pred             HHHH---------HHHH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777         3344 46888999999877544 3345557777777777666665555555544 5555 3344556


Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhhh
Q 025130          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            6666677777777777776554443

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

>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=82.94  E-value=4.5  Score=32.01  Aligned_cols=42  Identities=21%  Similarity=0.402  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 025130          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~~  126 (129)
T cd00890          85 LEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ  126 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455578888888888888888877777777777776655544

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.

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=82.81  E-value=29  Score=31.47  Aligned_cols=89  Identities=15%  Similarity=0.206  Sum_probs=59.3

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (257)
                      .+....+.++++|......+..+|    .+++.++..++....=....+++++.+..+...+..+.+..+.-...|+..|
T Consensus        21 ~l~~~~e~~~~~L~~~~~~~~~~~----~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i   96 (264)
T PF06008_consen   21 KLLSSIEDLTNQLRSYRSKLNPQK----QQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFI   96 (264)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455666666666666665544    3456666666666666667777788888888888888888888888888887


Q ss_pred             hhhhhhhHHHhHH
Q 025130          203 DSLADKQDITNIG  215 (257)
Q Consensus       203 ~~ie~kQd~tn~G  215 (257)
                      ..+..+-.-...-
T Consensus        97 ~~l~~~i~~l~~~  109 (264)
T PF06008_consen   97 QNLQDNIQELIEQ  109 (264)
T ss_pred             HHHHHHHHHHHHH
Confidence            7766654433333

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

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

Probab=82.74  E-value=11  Score=37.38  Aligned_cols=61  Identities=20%  Similarity=0.274  Sum_probs=30.3

Q ss_pred             ehhhhhHhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHH--HHHHHHHHhhHHhHHH
Q 025130           91 LMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAK--KHLTQRIQNLNDKVEK  162 (257)
Q Consensus        91 ~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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         22333444445555555555555555  5555555444444444

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

Probab=82.56  E-value=5.2  Score=29.79  Aligned_cols=47  Identities=19%  Similarity=0.185  Sum_probs=29.2

Q ss_pred             ehhhhhHhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHH
Q 025130           91 LMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTV  144 (257)
Q Consensus        91 ~ivpaA~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~  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            344344445666666555664       37778888887777777666655544

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

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

Probab=82.50  E-value=6.6  Score=34.28  Aligned_cols=96  Identities=20%  Similarity=0.326  Sum_probs=45.1

Q ss_pred             CcchhHHHhHhhHHH---HHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh
Q 025130          112 SFADLMYVTRKSMAT---AVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE  185 (257)
Q Consensus       112 s~sDlMfVTkr~ms~---Av~sv~kqLeqVs~sL~~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            455667777766664   4677788888888888777766655   5555555666666666666788888888999999


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhh
Q 025130          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            9999999999999999998875

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.

>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein

Probab=82.35  E-value=8.5  Score=31.59  Aligned_cols=44  Identities=20%  Similarity=0.305  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHhhhhHHH-hhhhHHHHHHHHHhhhhhhhhhhh
Q 025130          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            45666677777666544432 348999999999999999987764

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=81.77  E-value=6.8  Score=29.26  Aligned_cols=51  Identities=24%  Similarity=0.354  Sum_probs=32.8

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025130          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 LEERIEELEIKLAFQEDTIEELNDVVTEQQR-------QIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhc
Confidence            5678888888888887777777777766664       44455556666667776665

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.

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=81.10  E-value=39  Score=29.87  Aligned_cols=124  Identities=15%  Similarity=0.230  Sum_probs=56.9

Q ss_pred             cCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHh--HHHHHHHHHHHHHHHHHhhhhHHHh-hhh
Q 025130          111 LSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDK--VEKQNEISKDIRKNVEEACDDLFKV-EHN  187 (257)
Q Consensus       111 ws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~k--ld~~~eis~~i~~eV~~v~~d~~~i-~~d  187 (257)
                      |+||.--..   .+.+.++.+.+.++.+...+...+..|..--..-...  =.+..+--+..+++...++..++.. ..|
T Consensus        57 WsFps~~~~---~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~D  133 (188)
T PF03962_consen   57 WSFPSQAKQ---KRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSEND  133 (188)
T ss_pred             EecChHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            567766544   4455666666666666666666655554432111111  0000111111222333333333321 123


Q ss_pred             HHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHHHhhcccCCChHHHHHHhhhc
Q 025130          188 LKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTESMQEQLKLG  241 (257)
Q Consensus       188 v~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f~~~~~~~~~~~~q~~~k~~  241 (257)
                      -+.|    ..+...+...-..-++-+.-|+.|-.|+..+-+--++.+..++-+|
T Consensus       134 p~~i----~~~~~~~~~~~~~anrwTDNI~~l~~~~~~k~~~~~~~i~k~f~Ip  183 (188)
T PF03962_consen  134 PEKI----EKLKEEIKIAKEAANRWTDNIFSLKSYLKKKFGMDEEDIRKEFGIP  183 (188)
T ss_pred             HHHH----HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcCCCHHHHHHHcCCc
Confidence            3333    2333333333334555666788888888765443444455454443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

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

Probab=80.99  E-value=33  Score=29.04  Aligned_cols=90  Identities=21%  Similarity=0.242  Sum_probs=53.9

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 025130          126 TAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (257)
Q Consensus       126 ~Av~sv~kqLeqVs~sL~~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 EELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESE----KRKSNAEQLNRRIQLLEEELEEA   92 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH----HHHHhHHHHHhhHHHHHHHHHHH
Confidence            44555566677777766666677777777777777766544444444433322    12233446777777777777777


Q ss_pred             hhhhHHHhHHHHHH
Q 025130          206 ADKQDITNIGMYLL  219 (257)
Q Consensus       206 e~kQd~tn~GV~~L  219 (257)
                      +.+=.-|+.-+...
T Consensus        93 e~~L~e~~ekl~e~  106 (143)
T PF12718_consen   93 EKKLKETTEKLREA  106 (143)
T ss_pred             HHHHHHHHHHHHHH
Confidence            76666666555443

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 [].

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

Probab=80.80  E-value=6.2  Score=37.97  Aligned_cols=69  Identities=17%  Similarity=0.247  Sum_probs=53.5

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHH
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQ  192 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~  192 (257)
                      ..++.|..+-++||.|+.=.-+--..+..|++.|..+.|+ -..-+--+++..++++++..++.|+..+-
T Consensus        45 ~e~dFv~~Ld~ELEKv~~F~lek~~el~~Rl~~L~e~~~~-~~~~~~~~~~~~~lr~~l~~~~~em~~L~  113 (310)
T KOG1161|consen   45 DESDFVRLLDAELEKVNGFQLEKESELIIRLKELEEKIDA-LSLEPPSAEEMKELREELVDFHGEMVLLE  113 (310)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-cccCCcchhHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999999999999999999875 11112223456667777777777766653

>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=80.77  E-value=7.3  Score=29.95  Aligned_cols=75  Identities=13%  Similarity=0.222  Sum_probs=40.6

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhh
Q 025130          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLD  199 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le  199 (257)
                      +++-+.+...-++..+......-....+.+..++++.=.+||=.      +++|....+.=+.+       .+..+..||
T Consensus         4 ~~~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~kldlV------tREEFd~q~~~L~~-------~r~kl~~LE   70 (79)
T PF04380_consen    4 PNKIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSKLDLV------TREEFDAQKAVLAR-------TREKLEALE   70 (79)
T ss_pred             chhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHCCCC------cHHHHHHHHHHHHH-------HHHHHHHHH
Confidence            34555555555555555555555556666666666666665533      34444444433333       444445556


Q ss_pred             hhhhhhhh
Q 025130          200 GKIDSLAD  207 (257)
Q Consensus       200 ~Ki~~ie~  207 (257)
                      .||..+|.
T Consensus        71 arl~~LE~   78 (79)
T PF04380_consen   71 ARLAALEA   78 (79)
T ss_pred             HHHHHHhc
Confidence            66666554

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.

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

Probab=80.49  E-value=10  Score=35.15  Aligned_cols=66  Identities=20%  Similarity=0.252  Sum_probs=40.2

Q ss_pred             HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHH
Q 025130          152 RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMY  217 (257)
Q Consensus       152 RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~  217 (257)
                      +|+.+|.+++....-.+.+++++..++..++.+..++..++..+..|+..+..++.-=+-.+.-+.
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~   76 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIK   76 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466666666666666666666666666666666666666666666666666555554444444333

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=80.32  E-value=52  Score=32.44  Aligned_cols=51  Identities=12%  Similarity=0.242  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHH
Q 025130          140 EALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKD  190 (257)
Q Consensus       140 ~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~  190 (257)
                      +.+...=.++..-.+.+....+++.+...++...+.++...+.++-...+.
T Consensus       273 ~~v~~~s~el~~~~~~ls~~~~~qa~~i~~i~~s~eeis~~~~e~~~~~~~  323 (553)
T PRK15048        273 DAIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQ  323 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444445555555555554444444444444444444333333

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=80.10  E-value=44  Score=35.44  Aligned_cols=69  Identities=17%  Similarity=0.258  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHH
Q 025130          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (257)
                      ...++.++..|+..+-...++|.+              ++.+..++.+.+++.-+.|..|++++.++|..-..-+..+-+
T Consensus       556 ~~~ar~ei~~rv~~Lk~~~e~Ql~--------------~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~  621 (717)
T PF10168_consen  556 QDLAREEIQRRVKLLKQQKEQQLK--------------ELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQ  621 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666666666555533              334455566667788888888999999999888888886655


Q ss_pred             Hhh
Q 025130          222 FVD  224 (257)
Q Consensus       222 f~~  224 (257)
                      -+.
T Consensus       622 ~l~  624 (717)
T PF10168_consen  622 LLN  624 (717)
T ss_pred             HHh
Confidence            444

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

---

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,	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05

>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 = 45.2 bits (106), Expect = 1e-05
 Identities = 39/266 (14%), Positives = 88/266 (33%), Gaps = 80/266 (30%)

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-DSLADKQDIT--NIGMYLLC------------NFVDG 225
            +  L+ L +S  Y  CL   +  ++ + +     N+     C            +F+  
Sbjct: 231 -QAELRRLLKSKPYENCLL--VLLNVQNAKAWNAFNLS----CKILLTTRFKQVTDFLSA 283

Query: 226 KKGRTTESMQEQLKLG---EKARRLL 248
               TT    +   +    ++ + LL
Sbjct: 284 AT--TTHISLDHHSMTLTPDEVKSLL 307

>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 = 44.1 bits (103), Expect = 3e-05
 Identities = 50/305 (16%), Positives = 104/305 (34%), Gaps = 84/305 (27%)

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----------TNIGMYLLCNFVDGKKGRTTESMQEQLKLGEKARRLLKAPS 252
           L  A+ + +           +I   LL              +  +L    K   + K P 
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL---HKYSLVEKQPK 422

Query: 253 PMVSY 257
                
Sbjct: 423 ESTIS 427

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	94.34
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	93.76
2zdi_C	151	Prefoldin subunit alpha; chaperone, cytoplasm; 3.0	93.76
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	93.12
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	91.1
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	90.5
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.75
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	89.7
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	89.59
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	89.36
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	89.23
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	88.94
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	88.62
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	88.54
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	86.99
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	85.86
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	85.53
2yo3_A	268	General control protein GCN4, putative inner MEMB	85.07
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	84.09
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	83.82
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	83.67
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	83.52
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	83.28
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	83.1
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	82.78
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	82.25
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	82.19
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	82.18
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	82.03
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	81.94
2qyw_A	102	Vesicle transport through interaction with T-SNAR	81.88
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	81.73
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	81.59
1gl2_D	65	Syntaxin 8, vesicle transport V-snare protein VTI1	81.5
3htk_A	60	Structural maintenance of chromosomes protein 5; S	80.53

>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=94.34  E-value=0.078  Score=40.96  Aligned_cols=77  Identities=17%  Similarity=0.232  Sum_probs=49.7

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025130          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       118 fVTkr~ms~Av~sv~kqLeqVs~sL~~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            78888777642221            345555556555555555555555444455666665556667777788888888


Q ss_pred             hhhhhhhhh
Q 025130          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

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

Probab=93.76  E-value=0.61  Score=36.82  Aligned_cols=43  Identities=12%  Similarity=0.135  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 025130          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV  184 (257)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i  184 (257)
                      +..|++.|..|++.++..+++..+....++++++.+...+.+.
T Consensus        86 ~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~i~~~~~~l~~~  128 (133)
T 1fxk_C           86 FEDAMESIKSQKNELESTLQKMGENLRAITDIMMKLSPQAEEL  128 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788899999999999999988888888888887777655443

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

Probab=93.76  E-value=0.94  Score=36.78  Aligned_cols=117  Identities=15%  Similarity=0.214  Sum_probs=69.8

Q ss_pred             CcchHHHHHHHHHHHHhhcCCCCcchHHHHHHHHHH---HHHh-hhhc----------CCCeEEEeCCCCCcceeehhhh
Q 025130           30 KLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRL---KFEC-QRAS----------SGQIFVRNENSGGNATSLMIPA   95 (257)
Q Consensus        30 kLsd~~g~lq~~lk~~~k~gd~~~~~d~L~aQV~~L---~~El-~Las----------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            445545666666665553      355666666666   4433 2111          2234445655552111222111


Q ss_pred             h-HhhhhheeeeeeeccCcchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025130           96 A-TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus        96 A-~vGavGYgYmwWKGws~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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 12358899998884                               578888999999999998888877777777777


Q ss_pred             HHhhhhHHH
Q 025130          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            666654444

>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=93.12  E-value=1.4  Score=34.75  Aligned_cols=79  Identities=14%  Similarity=0.242  Sum_probs=62.3

Q ss_pred             HHHHHhhH---HHHHHHHHHHHHHHHHHHhhH----HhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025130          129 SNLNKHLE---SVTEALTVAKKHLTQRIQNLN----DKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       129 ~sv~kqLe---qVs~sL~~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            45666664   667788999999999999865    56778888888888888888888888888888887777777777


Q ss_pred             hhhhhh
Q 025130          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            766654

>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=91.10  E-value=2.8  Score=40.71  Aligned_cols=97  Identities=12%  Similarity=0.243  Sum_probs=62.1

Q ss_pred             cchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHH-----Hh
Q 025130          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKK---HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLF-----KV  184 (257)
Q Consensus       113 ~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~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            48999999999999999999999999877666553   35555555555555555444444444443333222     23


Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhhh
Q 025130          185 EHNLKDLQSMIYCLDGKIDSLADKQ  209 (257)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (257)
                      ...+..++..++.|..||..+|.+-
T Consensus       167 ~~~i~~L~~~~~~l~~ki~~l~~~~  191 (464)
T 1m1j_B          167 PSSLRVLRAVIDSLHKKIQKLENAI  191 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666666666666543

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

Probab=90.50  E-value=3.1  Score=36.17  Aligned_cols=39  Identities=18%  Similarity=0.315  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 025130          124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (257)
Q Consensus       124 ms~Av~sv~kqLeqVs~sL~~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            344445555555544444444444444444433333333

>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=89.75  E-value=4.4  Score=40.32  Aligned_cols=100  Identities=15%  Similarity=0.181  Sum_probs=71.3

Q ss_pred             cchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhH-------HHHHHHHHHHHHHHHHhhhhHHHhh
Q 025130          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKV-------EKQNEISKDIRKNVEEACDDLFKVE  185 (257)
Q Consensus       113 ~sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kl-------d~~~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            446788889999999999999999997765555555555444444443       3445556666666777777776655


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 025130          186 HNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (257)
                      .-++.||..|+.+-.||.+||---|+-
T Consensus       131 snIrvLQsnLedq~~kIQRLEvDIdiq  157 (562)
T 3ghg_A          131 QHIQLLQKNVRAQLVDMKRLEVDIDIK  157 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777788888888888888888755544

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

Probab=89.59  E-value=0.56  Score=37.51  Aligned_cols=43  Identities=7%  Similarity=0.182  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 025130          165 EISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (257)
Q Consensus       165 eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (257)
                      +-...++.|+++++..+.....++++++..-..||..|...|.
T Consensus        29 ~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~   71 (129)
T 3tnu_B           29 DDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQ   71 (129)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444444444444443

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

Probab=89.36  E-value=7.2  Score=33.80  Aligned_cols=75  Identities=12%  Similarity=0.185  Sum_probs=42.1

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025130          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       130 sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      .+...+++++..+...-..+....+.+....++..+.+..+.+.+......+.++...+..+...+..+..++..
T Consensus         4 qva~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (213)
T 3g67_A            4 EVKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKEASSQIGETLENIRS   78 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455556666666666666666666666666666666666655555555555555555555444444444444433

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

Probab=89.23  E-value=3.5  Score=34.40  Aligned_cols=82  Identities=18%  Similarity=0.301  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------HhhhhHHHhhhhHHHHHHHHH--------hhh
Q 025130          140 EALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EACDDLFKVEHNLKDLQSMIY--------CLD  199 (257)
Q Consensus       140 ~sL~~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            456666666667666666664        357


Q ss_pred             hhhhhhhhhhHHHhHHHHHHHH
Q 025130          200 GKIDSLADKQDITNIGMYLLCN  221 (257)
Q Consensus       200 ~Ki~~ie~kQd~tn~GV~~Lc~  221 (257)
                      ..|..|..-|+|-|.==.++..
T Consensus        90 ~EL~~VceEQqfl~~QedL~~D  111 (141)
T 3okq_A           90 AELDKVCEEQQFLTLQEELILD  111 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            7778887888877765444433

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

Probab=88.94  E-value=6.6  Score=36.24  Aligned_cols=80  Identities=23%  Similarity=0.281  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (257)
                      .|.+++..+-..=..+-++|..+.+.+.+-|++.-. ..++......+++++++++..+.+++-.-..-++.|.+|-..|
T Consensus       356 ~~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~-~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  434 (471)
T 3mq9_A          356 AVRTAVINAASGRQTVDEALKDAQTRITAARDGLRA-VMEARNVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMASL  434 (471)
T ss_dssp             HHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHH-HHHhhhHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHHH
Confidence            344555544444345677888888888888877644 4477888899999999999999999988888888887775544


Q ss_pred             h
Q 025130          203 D  203 (257)
Q Consensus       203 ~  203 (257)
                      +
T Consensus       435 ~  435 (471)
T 3mq9_A          435 D  435 (471)
T ss_dssp             H
T ss_pred             H
Confidence            3

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

Probab=88.62  E-value=2.9  Score=36.56  Aligned_cols=18  Identities=6%  Similarity=-0.113  Sum_probs=6.8

Q ss_pred             hhHHHHHHHHHhhhhhhh
Q 025130          186 HNLKDLQSMIYCLDGKID  203 (257)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~  203 (257)
                      .+++....-...||.+|-
T Consensus        97 kEie~~~~~i~~lE~eil  114 (256)
T 3na7_A           97 IEEDIAKERSNQANREIE  114 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

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

Probab=88.54  E-value=0.52  Score=37.83  Aligned_cols=64  Identities=20%  Similarity=0.295  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHH---HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 025130          138 VTEALTVAKKH---LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (257)
Q Consensus       138 Vs~sL~~tKkh---LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (257)
                      -.+.+..+|.+   +..+|+.|...++.+...-......+.++.   .+...+++.++..+..||.-+..
T Consensus        29 ~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e---~~~~~~l~~~q~~i~~lE~eL~~   95 (131)
T 3tnu_A           29 NSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETK---GRYCMQLAQIQEMIGSVEEQLAQ   95 (131)
T ss_dssp             ------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444432   334555555555555544444444454444   23344455555555555555543

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

Probab=86.99  E-value=6.8  Score=28.19  Aligned_cols=69  Identities=14%  Similarity=0.299  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHHhhHHHHH-HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025130          123 SMATAVSNLNKHLESVTE-ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~-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            456666666666665433 334555566777777766666666666667777776666666666665554

>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=85.86  E-value=11  Score=36.87  Aligned_cols=104  Identities=14%  Similarity=0.205  Sum_probs=87.9

Q ss_pred             eccCcchhHHHhHhhHHHHHHHHHHhhHHH-------HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 025130          109 KGLSFADLMYVTRKSMATAVSNLNKHLESV-------TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDL  181 (257)
Q Consensus       109 KGws~sDlMfVTkr~ms~Av~sv~kqLeqV-------s~sL~~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            455677888889999999999999999887       4557778888888888888888888999999999999999998


Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 025130          182 FKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (257)
Q Consensus       182 ~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (257)
                      ..--..|..|+..|+.+-.||.+||.--+..
T Consensus       128 d~qi~~IrvLq~~l~~q~skIQRLE~dI~~q  158 (491)
T 1m1j_A          128 ATQVNRIKALQNSIQEQVVEMKRLEVDIDIK  158 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7755999999999999999999999865544

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

Probab=85.53  E-value=6.2  Score=36.60  Aligned_cols=66  Identities=15%  Similarity=0.016  Sum_probs=50.7

Q ss_pred             hHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHHHH
Q 025130          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            334555666777788888888888888888888888888888888888887777777777777665

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

Probab=85.07  E-value=2.4  Score=38.71  Aligned_cols=58  Identities=16%  Similarity=0.366  Sum_probs=36.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 025130          134 HLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (257)
Q Consensus       134 qLeqVs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (257)
                      ...|+++++..++....+|+..|+.+++....=..++.+.|.++-..+-.|..+++.+
T Consensus       199 Nv~QL~~s~~~an~yTd~k~~~l~n~I~~V~n~~~q~~~~~~~~~~~~~~~~~~~~~~  256 (268)
T 2yo3_A          199 NYAQLKRSVEEANTYTDQKMGEMNSKIKGVENKMKQIEDKIEEILSKIYHIENEIARI  256 (268)
T ss_dssp             BHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567778899999988888888877766654444444444444444444444444433

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

Probab=84.09  E-value=11  Score=30.68  Aligned_cols=64  Identities=16%  Similarity=0.151  Sum_probs=48.9

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHH
Q 025130          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            4455667777777777777777778888888888888888888888888888888888877654

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

Probab=83.82  E-value=0.83  Score=29.11  Aligned_cols=28  Identities=18%  Similarity=0.488  Sum_probs=24.5

Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 025130          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            5677899999999999999999999764

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

Probab=83.67  E-value=17  Score=30.97  Aligned_cols=79  Identities=18%  Similarity=0.288  Sum_probs=42.8

Q ss_pred             HhhHHHHHHHHHHhhHHHHHHHHHHHHHHH---HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 025130          121 RKSMATAVSNLNKHLESVTEALTVAKKHLT---QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (257)
Q Consensus       121 kr~ms~Av~sv~kqLeqVs~sL~~tKkhLs---qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (257)
                      -+.+.++...+-+.+-++...|..=|+--+   .+|..+..++       .....|+..++...++...|...++..+..
T Consensus        57 ~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri-------~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~  129 (168)
T 3o0z_A           57 NRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARI-------TSLQEEVKHLKHNLEKVEGERKEAQDMLNH  129 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555554443222   2222222222       223455555556666666777778888888


Q ss_pred             hhhhhhhhh
Q 025130          198 LDGKIDSLA  206 (257)
Q Consensus       198 Le~Ki~~ie  206 (257)
                      ||..-.+++
T Consensus       130 lEKe~a~~e  138 (168)
T 3o0z_A          130 SEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhhh
Confidence            887766655

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

Probab=83.28  E-value=16  Score=29.26  Aligned_cols=36  Identities=17%  Similarity=0.235  Sum_probs=15.1

Q ss_pred             HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025130          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            333344444444444444444444444444444333

>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=83.10  E-value=3.6  Score=33.38  Aligned_cols=27  Identities=15%  Similarity=0.368  Sum_probs=14.6

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHH
Q 025130          120 TRKSMATAVSNLNKHLESVTEALTVAK  146 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVs~sL~~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            455555555555555555555555544

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

Probab=82.78  E-value=14  Score=33.97  Aligned_cols=42  Identities=10%  Similarity=0.230  Sum_probs=26.9

Q ss_pred             hhHHHHHHHHHHhhHHHHHHH------HHHHHHHHHHHHhhHHhHHHH
Q 025130          122 KSMATAVSNLNKHLESVTEAL------TVAKKHLTQRIQNLNDKVEKQ  163 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVs~sL------~~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            355666666666665554433      345667888888888887654

>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=82.25  E-value=13  Score=34.92  Aligned_cols=37  Identities=8%  Similarity=0.135  Sum_probs=29.8

Q ss_pred             HhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 025130          121 RKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (257)
Q Consensus       121 kr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd  157 (257)
                      ...+.+.+..+...+++....++..++++..|.+...
T Consensus       458 ~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~  494 (597)
T 3oja_B          458 VNELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYR  494 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcC
Confidence            3446678888888888888899999999888887766

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

Probab=82.19  E-value=17  Score=28.89  Aligned_cols=72  Identities=15%  Similarity=0.402  Sum_probs=44.6

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHH
Q 025130          123 SMATAVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSM  194 (257)
Q Consensus       123 ~ms~Av~sv~kqLeqVs~sL~~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            45677788888888888888755555544   5555555555554445555566666666666666666555443

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

Probab=82.18  E-value=21  Score=30.06  Aligned_cols=69  Identities=17%  Similarity=0.154  Sum_probs=41.1

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025130          127 AVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       127 Av~sv~kqLeqVs~sL~~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 334445666777777777777777766666555555555554              445555566677777666


Q ss_pred             h-hhH
Q 025130          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

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

Probab=82.03  E-value=12  Score=28.45  Aligned_cols=67  Identities=15%  Similarity=0.162  Sum_probs=34.9

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHhHHHHHH
Q 025130          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            3445555555555555555566665555555555555555555555555555544444444444333

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

Probab=81.94  E-value=3.2  Score=31.45  Aligned_cols=27  Identities=15%  Similarity=0.335  Sum_probs=14.6

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025130          148 HLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV  174 (257)
                      .|..||..+...|++...=....+.|+
T Consensus        24 ~Le~~v~~le~~Le~s~~~q~~~~~El   50 (79)
T 3cvf_A           24 ELEHQLRAMERSLEEARAERERARAEV   50 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555555555555444444

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

Probab=81.88  E-value=6.1  Score=30.47  Aligned_cols=62  Identities=13%  Similarity=0.180  Sum_probs=42.3

Q ss_pred             chhHHHhHhhHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh
Q 025130          114 ADLMYVTRKSMATAVSNLNKHLESVTEALT-VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC  178 (257)
Q Consensus       114 sDlMfVTkr~ms~Av~sv~kqLeqVs~sL~-~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~  178 (257)
                      |+++----+.+...++++++.++++..... ..|+.   .|..++..|||..|+..++.-||..+-
T Consensus        14 SelFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~---~i~~ie~~ldEA~eLl~qMelE~r~~p   76 (102)
T 2qyw_A           14 SEHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKK---LVRDFDEKQQEANETLAEMEEELRYAP   76 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            344545556677777888888877643322 34443   367778889999999999988887653

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

Probab=81.73  E-value=6.8  Score=29.89  Aligned_cols=53  Identities=6%  Similarity=0.191  Sum_probs=39.4

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 025130          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (257)
Q Consensus       122 r~ms~Av~sv~kqLeqVs~sL~~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 SDFKTTLEQAKASLAEAPSQPLSQRNT---TLKHVEQQQDELFDLLDQMDVEVNNS   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHGGGSCHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccChHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            455677788888888776333334443   36777889999999999999999888

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

Probab=81.59  E-value=10  Score=33.05  Aligned_cols=67  Identities=13%  Similarity=0.175  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 025130          140 EALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (257)
Q Consensus       140 ~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (257)
                      +.|...+++|-..|+.+.+.+.....-...++.++.++...+.++..|++.++..+...+.++..+.
T Consensus        21 ~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~   87 (256)
T 3na7_A           21 DSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIK   87 (256)
T ss_dssp             HHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            4455555666666666666666666666666666666666666666666666666666665555443

>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=81.50  E-value=6.6  Score=27.54  Aligned_cols=52  Identities=8%  Similarity=0.246  Sum_probs=29.0

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 025130          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (257)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (257)
                      +.++.|..++..++.++..|.+||.+=-.=+.++..+++.....+..--.|+
T Consensus         9 ~~Ld~L~~~v~~lk~~a~~Ig~El~~Qn~lLd~l~~~~d~~~~~l~~~~~rl   60 (65)
T 1gl2_D            9 AGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARRV   60 (65)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666666666666665555555555555555544444433333

>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=80.53  E-value=7.6  Score=26.62  Aligned_cols=46  Identities=13%  Similarity=0.166  Sum_probs=18.3

Q ss_pred             hHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 025130          156 LNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (257)
Q Consensus       156 vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (257)
                      ++.+++++.+.-..++.+..+.+..+.+.-.++..++.-+..+..+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~q   55 (60)
T 3htk_A           10 LENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQ   55 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444433333344444444444444444444444444333333

---

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	85.9
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	84.59

>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=85.90  E-value=0.67  Score=34.20  Aligned_cols=60  Identities=15%  Similarity=0.340  Sum_probs=38.9

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH-HhHHHHHHHHHHHHHHHHHhhhhH
Q 025130          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN-DKVEKQNEISKDIRKNVEEACDDL  181 (257)
Q Consensus       120 Tkr~ms~Av~sv~kqLeqVs~sL~~tKkhLsqRI~~vd-~kld~~~eis~~i~~eV~~v~~d~  181 (257)
                      +++-|.++|.++-.+|+.+.+++..+.++-. |- +++ ..++.=....+.++++|..++..+
T Consensus        43 ~~~eL~~~l~siewdL~dLe~av~~ve~np~-kf-~l~~~ei~~Rr~fi~~~~~~I~~~~~~l  103 (106)
T d1lvfa_          43 TTNELRNNLRSIEWDLEDLDETISIVEANPR-KF-NLDATELSIRKAFITSTRQIVRDMKDQM  103 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSSGG-GG-TCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhCHH-hc-CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6888999999999999999999988765422 11 122 224444555566666666555444

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=84.59  E-value=5  Score=29.42  Aligned_cols=32  Identities=16%  Similarity=0.199  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 025130          143 TVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (257)
Q Consensus       143 ~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV  174 (257)
                      ..|++.+..||+.+...+++..+-.+.+++++
T Consensus        87 ~eA~~~l~~ri~~l~~~~~~l~~~~~~~~~~i  118 (133)
T d1fxkc_          87 EDAMESIKSQKNELESTLQKMGENLRAITDIM  118 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555565555555554433333333333