Citrus Sinensis ID: 018954

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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-------260-------270-------280-------290-------300-------310-------320-------330-------340-------35
Protein Sequence
MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRKKDNGDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRNSRRES
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccHEEEcHccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEEEcccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
mfepqhfvdlqdnsafgdsksswltgdgnssptqrgaaqpslgysgatnsnvdrdLYKDLVEIVPLVQSLIdrkasssftrrgsmiytktpsresllkkttdpkgrnaaqslppkrkkdngdkdlgknansnqdsdsfsIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLikndstvnadddydikpyysdylsdiddldDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRNSRRES
Flexible Loop (DISEMBL)
MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIVPLVqslidrkasssftrrgsmiytktpsresllkkttdpkgrnaaqslppkrkkdngdkdlgknansnqdsdsfsIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLkslessksqvNAVHLKLDELKRLAAEKDSlikstqlqlsdAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLhlqsfvfrnsrres
Low Complexity Region (SEG)
MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPkrkkdngdkdlgknanSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFekdellkslessksQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPyysdylsdiddlddVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRNSRRES
Disordered region (IsUnstruct)
***************************************************VDRDLYKDLVEIVPLVQSLID******************************************************************************************************************************************************************************************FMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDV**********AYITAV**********************************
Disordered Region (DISOPRED)
****QHF********************************************VDRDLYKDLVEIVPLVQ**********************************************************************************************************************************************************************************************************************************************************************RARLHLQSF**RN*****
Disordered Region (DISEMBL)
MFEPQHFVDLQDNSAFGDSKSSWL*****************LGYSGATNSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKK*********************GDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLAD*******************************EMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAM************AARARLHLQSFVFRNSRRES
Disordered Region (DISPRO)
*FEPQHFVDLQDN*************************************NVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESL*K**************************************************EKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRN*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRKKDNGDKDLGKNANSNQDSDSFSIFSSRALVxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVExxxxxxxxxxxxxxxxxxxxxQDEESMATAARARLHLQSFVFRNSRRES
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	348
224077546	340	predicted protein [Populus trichocarpa]	0.965	0.988	0.684	1e-121
225455714	368	PREDICTED: uncharacterized protein LOC10	0.979	0.926	0.679	1e-118
255547095	367	conserved hypothetical protein [Ricinus	0.988	0.937	0.685	1e-117
356511562	327	PREDICTED: uncharacterized protein LOC10	0.919	0.978	0.618	1e-107
356562648	327	PREDICTED: uncharacterized protein LOC10	0.919	0.978	0.612	1e-106
449439357	350	PREDICTED: uncharacterized protein LOC10	0.968	0.962	0.596	1e-91
449486894	350	PREDICTED: uncharacterized protein LOC10	0.968	0.962	0.598	2e-89
365222918	336	Hop-interacting protein THI110 [Solanum	0.948	0.982	0.564	2e-86
83265567	338	microtubule-associated protein [Nicotian	0.951	0.979	0.548	1e-83
297810915	325	hypothetical protein ARALYDRAFT_487645 [	0.922	0.987	0.514	6e-83

>gi|224077546|ref|XP_002305296.1| predicted protein [Populus trichocarpa] gi|222848260|gb|EEE85807.1| predicted protein [Populus trichocarpa]

 Score =  442 bits (1136), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 236/345 (68%), Positives = 273/345 (79%), Gaps = 9/345 (2%)

Query: 1   MFEPQHFVDLQDNSA-FGDSKSSWLTGDGNS--SPTQRGAAQPSLGYSGATNSNVDRDLY 57
           M+E Q FVDLQ NS+ FGD KS WL+ D NS  SPT           +G    NVDR L+
Sbjct: 1   MYEAQRFVDLQQNSSNFGDPKS-WLSEDSNSNSSPTHHPNHSQLASSAGG---NVDRVLF 56

Query: 58  KDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRK 117
            DLVE+VPLVQSLIDRK S+SFTRRGS+IYTKTPSRESL KK  DP+GRN  QS+P K+K
Sbjct: 57  NDLVEMVPLVQSLIDRKVSTSFTRRGSVIYTKTPSRESLSKKMIDPRGRNTCQSIPTKKK 116

Query: 118 KDNGDKDLGKNANSNQDSDSFSIFSS-RALVSEKEIEELVALREQVEDLQRKMFEKDELL 176
            D+GDKD GK AN NQD+DSF+I SS RA+ + K+ EEL+ALREQVEDLQRK+ EKDELL
Sbjct: 117 MDHGDKDQGKTANDNQDADSFAILSSSRAVPTGKDAEELIALREQVEDLQRKLLEKDELL 176

Query: 177 KSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAM 236
           KS E SK+Q+NAVH + DE+K   AEKDSLIKSTQLQLS+AKIKLADKQAALEK QWEAM
Sbjct: 177 KSAEVSKNQMNAVHAEFDEVKLQVAEKDSLIKSTQLQLSNAKIKLADKQAALEKLQWEAM 236

Query: 237 TVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLD 296
           T ++K E LQ+E++S+QG +SSFM +FE L KN+S   A +DYDIKP Y D L DIDDLD
Sbjct: 237 TSNQKVETLQQELDSIQGGISSFMLVFENLTKNNSIPYA-EDYDIKPCYLDQLPDIDDLD 295

Query: 297 DVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVF 341
           D EMQ+MEEAREAYI AVA AKEKQDE+S+A AA ARLHLQSFVF
Sbjct: 296 DREMQKMEEAREAYIAAVASAKEKQDEKSIAAAASARLHLQSFVF 340

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455714|ref|XP_002273093.1| PREDICTED: uncharacterized protein LOC100247402 [Vitis vinifera] gi|297734104|emb|CBI15351.3| unnamed protein product [Vitis vinifera]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 235/346 (67%), Positives = 285/346 (82%), Gaps = 5/346 (1%)

Query: 1   MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGA-AQPSLGYSGATNSNVDRDLYKD 59
           MFEPQHF+DL DNS+ GD KS WL+GD NSSP  R   +  S   +  T +NVDR L+ D
Sbjct: 1   MFEPQHFMDLHDNSSLGDPKS-WLSGDDNSSPIHRRTQSSLSSASAAGTAANVDRLLFND 59

Query: 60  LVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRKKD 119
           LVEIVPLVQSLIDRKASSSFTR G++ YTKTPSRESL ++ ++ KGRN AQS+P K+++D
Sbjct: 60  LVEIVPLVQSLIDRKASSSFTRVGAVTYTKTPSRESLSRRFSELKGRNTAQSIPTKKRRD 119

Query: 120 NGDKDLGKNANSNQD--SDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLK 177
           +G+KD G+N ++NQD  +D FS+FSSRA+ SEK+ EEL+ALREQVEDLQRK+ EKDELLK
Sbjct: 120 HGEKDQGRNGSNNQDGCADGFSLFSSRAVASEKDKEELIALREQVEDLQRKLAEKDELLK 179

Query: 178 SLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMT 237
           S E SKSQ++AVH KLDELK+  AEKDSLIKSTQLQLSDAKIKLADKQAALEK QWEAMT
Sbjct: 180 SAEISKSQMSAVHDKLDELKQQVAEKDSLIKSTQLQLSDAKIKLADKQAALEKIQWEAMT 239

Query: 238 VSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDD 297
            +RK EKLQE++ESMQ ++SSFM +FEGL KNDST+ + + YDI PY+  +L  IDDLD+
Sbjct: 240 SNRKVEKLQEDLESMQADISSFMLLFEGLTKNDSTIRS-ESYDITPYHLGHLPPIDDLDE 298

Query: 298 VEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRN 343
           +  Q+MEEAR+AY+ AVA AKE QDEES+A AA +RLHLQSFVF+N
Sbjct: 299 IGAQKMEEARKAYVAAVAAAKENQDEESIALAANSRLHLQSFVFKN 344

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547095|ref|XP_002514605.1| conserved hypothetical protein [Ricinus communis] gi|223546209|gb|EEF47711.1| conserved hypothetical protein [Ricinus communis]

 Score =  428 bits (1101), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 242/353 (68%), Positives = 287/353 (81%), Gaps = 9/353 (2%)

Query: 1   MFEP-QHFVDLQDNSAFGDSKSSWLTGD----GNSSPTQRGAAQPSLGYSGATNSNVDRD 55
           M++P QHFVDLQ+NS+FGD+KS WL  D     NSSPT R     S   +G T  N+D  
Sbjct: 1   MYDPNQHFVDLQENSSFGDTKS-WLLDDDDKNNNSSPTLRLTHSNSASTAGTT-GNIDPV 58

Query: 56  LYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPK 115
           L+ ++VE+VPL++SLI RK +SSFTRRGSMIYTKTPSR+SL KK TDPKGRNA+QS+P K
Sbjct: 59  LFNNIVEMVPLIESLIHRKGNSSFTRRGSMIYTKTPSRDSLYKKMTDPKGRNASQSIPTK 118

Query: 116 RKKDNGDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDEL 175
           +KK++GDKD GK+  +NQDSD+FSIFSSR+L SEK+IEELV LREQVEDLQRK+ EKDEL
Sbjct: 119 KKKEHGDKDRGKSGGNNQDSDNFSIFSSRSLASEKDIEELVTLREQVEDLQRKLAEKDEL 178

Query: 176 LKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEA 235
           LKS E SK+Q+N VH KLDELK  AAEKDSLIKS QLQLSDAKIKLADKQAALEK +WEA
Sbjct: 179 LKSAEISKNQMNDVHGKLDELKHQAAEKDSLIKSIQLQLSDAKIKLADKQAALEKIRWEA 238

Query: 236 MTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDL 295
           MT + K EKLQEE++S QG++SS M +FEGL  N+ST  A +DYD+ P Y DYL DIDD+
Sbjct: 239 MTSNTKVEKLQEELDSKQGDISSMMLLFEGLT-NESTKIA-EDYDVNPRYLDYLPDIDDM 296

Query: 296 DDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFRNSRRES 348
           DD+EMQ MEEAR+AYI AVA AKEKQDEES+A AA ARLHLQSFV R++ R +
Sbjct: 297 DDIEMQEMEEARQAYIAAVATAKEKQDEESIAAAASARLHLQSFVLRSNGRNA 349

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511562|ref|XP_003524494.1| PREDICTED: uncharacterized protein LOC100799930 [Glycine max]

 Score =  395 bits (1016), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 209/338 (61%), Positives = 266/338 (78%), Gaps = 18/338 (5%)

Query: 5   QHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIV 64
           QHFVDLQ+NS  G+S +SWL     S+  Q GAA          N+N+DR L+ DLVEIV
Sbjct: 2   QHFVDLQENSELGES-NSWL-----SAKEQSGAA---------PNTNLDRVLFNDLVEIV 46

Query: 65  PLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRKKDNGDKD 124
           PLVQSLIDRKAS SFTRRGSMIYTKTP+RESL K+TTD K RN AQS+  K+K+D+G+K+
Sbjct: 47  PLVQSLIDRKASRSFTRRGSMIYTKTPTRESLSKRTTDSKSRNVAQSILAKKKRDHGEKE 106

Query: 125 LGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKS 184
            GKN ++  D+D++S+FS+R L SEK+IEEL  L+EQVE+LQRK+ EKDELLKS E+S+ 
Sbjct: 107 QGKNGSN--DADNYSMFSTRTLASEKDIEELGMLKEQVEELQRKLLEKDELLKSAENSRD 164

Query: 185 QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEK 244
           Q+NA + KLDELK  A+EK+SL+K TQ QLSDAKIKLADKQAALEK QWEAMT ++K +K
Sbjct: 165 QMNAFNAKLDELKHQASEKESLLKYTQQQLSDAKIKLADKQAALEKIQWEAMTSNKKVDK 224

Query: 245 LQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRME 304
           L +E+ SMQ +++SF  + EGL K D T    +DYD+KPY   +L  IDDLD+VE+Q+M+
Sbjct: 225 LLDELGSMQADITSFTLLLEGLSKTD-TAKYTNDYDVKPYDFSHLPSIDDLDEVELQKMD 283

Query: 305 EAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
           EAR+AY+ AV+++KEK+DEES+A AA ARLHLQS VF+
Sbjct: 284 EARKAYMAAVSISKEKRDEESIAAAANARLHLQSLVFK 321

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562648|ref|XP_003549581.1| PREDICTED: uncharacterized protein LOC100806411 [Glycine max]

 Score =  392 bits (1007), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 207/338 (61%), Positives = 263/338 (77%), Gaps = 18/338 (5%)

Query: 5   QHFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKDLVEIV 64
           QHF+DLQ NS  G+S +SWL     S   Q GAA          N+N+DR L+ DLVEIV
Sbjct: 2   QHFMDLQANSELGES-NSWL-----SVKEQSGAA---------PNTNLDRVLFNDLVEIV 46

Query: 65  PLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRKKDNGDKD 124
           PLVQSLIDRKAS SFTRRGSMIYTKTP+RESL K+ TD K RN A S+P K+K+D+G+K+
Sbjct: 47  PLVQSLIDRKASRSFTRRGSMIYTKTPTRESLSKRVTDSKSRNVAPSIPAKKKRDHGEKE 106

Query: 125 LGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKS 184
            GKN ++  D+D++S+FSSR L SEK+IEEL  L+EQVE+LQRK+ EKDELLKS E+++ 
Sbjct: 107 QGKNGSN--DADNYSMFSSRTLASEKDIEELGMLKEQVEELQRKLLEKDELLKSAENTRD 164

Query: 185 QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEK 244
           Q+N  + KLDELK  A+EK+SL+K TQ QLSDAKIKLADKQAALEK QWEAMT ++K +K
Sbjct: 165 QMNVFNAKLDELKHQASEKESLLKYTQQQLSDAKIKLADKQAALEKIQWEAMTSNKKVDK 224

Query: 245 LQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRME 304
           LQ+E+ SMQ +++SF  + EGL K D T    DDYD+KPY   +L  IDDLD++E+Q+ME
Sbjct: 225 LQDELGSMQADITSFTLLLEGLSKTD-TAKYTDDYDVKPYDFSHLPSIDDLDEMELQKME 283

Query: 305 EAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
           EAR++Y+ AV+++KEK+DEES+A AA ARLHLQS VF+
Sbjct: 284 EARKSYMAAVSVSKEKRDEESIAAAANARLHLQSLVFK 321

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439357|ref|XP_004137452.1| PREDICTED: uncharacterized protein LOC101207962 [Cucumis sativus]

 Score =  342 bits (878), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 211/354 (59%), Positives = 266/354 (75%), Gaps = 17/354 (4%)

Query: 1   MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQR------------GAAQPSLGYSGAT 48
           MF+PQH   LQD+S FGD ++SWL+GD NSSP +R             ++ P+   + A 
Sbjct: 1   MFDPQHL--LQDDSGFGD-QNSWLSGDHNSSPARRLSHSSLANASISTSSTPAAAAAAAA 57

Query: 49  NSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNA 108
           N N DR+L+ +LV IVPLVQSLIDRKASSSFT+RGSMIYTKTPSR+SL +K  + KG+N 
Sbjct: 58  NGNFDRELFNNLVSIVPLVQSLIDRKASSSFTKRGSMIYTKTPSRDSLHRKI-EQKGKNN 116

Query: 109 AQSLPPKRKKDNGDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRK 168
            QS+P K+KKD+GDK+ G N ++N D++ FS+FSS +LVSEKE EEL+ LREQVEDLQ+K
Sbjct: 117 GQSIPTKKKKDHGDKEEGHNVDNNGDANGFSMFSSSSLVSEKEKEELITLREQVEDLQKK 176

Query: 169 MFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAAL 228
           + EK+ELLKS E SK Q+N V+ KLD L   +AEKDS+IKS   QLSDAKIKLADKQAAL
Sbjct: 177 LLEKEELLKSAEMSKDQMNNVYSKLDALSLQSAEKDSMIKSIHSQLSDAKIKLADKQAAL 236

Query: 229 EKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDY 288
           EK QWE  T + K E+LQE+++S QG++SSFM + EGL K D + +   DY++  +  + 
Sbjct: 237 EKIQWEVTTSNTKVEELQEQLKSSQGDVSSFMLLLEGLTKKDCS-DRLKDYNLSLHLPES 295

Query: 289 LSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
              IDDLDDVEM++MEEAR+AY+  VA AK KQDEES+A AA ARLHLQSFVFR
Sbjct: 296 CPSIDDLDDVEMKKMEEARQAYVAVVAAAKAKQDEESIAAAATARLHLQSFVFR 349

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449486894|ref|XP_004157434.1| PREDICTED: uncharacterized protein LOC101224915 [Cucumis sativus]

 Score =  335 bits (858), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 212/354 (59%), Positives = 267/354 (75%), Gaps = 17/354 (4%)

Query: 1   MFEPQHFVDLQDNSAFGDSKSSWLTGDGNSSPTQR------------GAAQPSLGYSGAT 48
           MF+PQH   LQD+S FGD ++SWL+GD NSSP +R             ++ P+   + A 
Sbjct: 1   MFDPQHL--LQDDSGFGD-QNSWLSGDHNSSPARRLSHSSLANASISTSSTPAAAAAAAA 57

Query: 49  NSNVDRDLYKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNA 108
           N N DR+L+ +LV IVPLVQSLIDRKASSSFT+RGSMIYTKTPSR+SL +K  + KG+N 
Sbjct: 58  NGNFDRELFNNLVSIVPLVQSLIDRKASSSFTKRGSMIYTKTPSRDSLHRKI-EQKGKNN 116

Query: 109 AQSLPPKRKKDNGDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRK 168
            QS+P K+KKD+GDK+ G N ++N D++ FS+FSS +LVSEKE EEL+ LREQVEDLQ+K
Sbjct: 117 GQSIPTKKKKDHGDKEEGHNVDNNGDANGFSMFSSSSLVSEKEKEELITLREQVEDLQKK 176

Query: 169 MFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAAL 228
           + EK+ELLKS E SK Q+N V+ KLD L   +AEKDS+IKS   QLSDAKIKLADKQAAL
Sbjct: 177 LLEKEELLKSAEMSKDQMNNVYSKLDALSLQSAEKDSMIKSIHSQLSDAKIKLADKQAAL 236

Query: 229 EKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDY 288
           EK QWE  T + K E+LQE+++S QG++SSFM + EGL K D + +   DY++  +  + 
Sbjct: 237 EKIQWEVTTSNTKVEELQEQLKSSQGDVSSFMLLLEGLTKKDCS-DRLKDYNLSLHLPES 295

Query: 289 LSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
              IDDLDDVEM++MEEAR+AY+ AVA AK KQDEES+A AA ARLHLQSFVFR
Sbjct: 296 CPSIDDLDDVEMKKMEEARQAYVAAVAAAKAKQDEESIAAAATARLHLQSFVFR 349

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|365222918|gb|AEW69811.1| Hop-interacting protein THI110 [Solanum lycopersicum]

 Score =  325 bits (834), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 196/347 (56%), Positives = 253/347 (72%), Gaps = 17/347 (4%)

Query: 1   MFEPQHFVDLQDNSA-FGDS--KSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLY 57
           M+EPQ  +DLQDN+  FG     SSWL+G+ + SPT R     SL  S A    VDR L+
Sbjct: 1   MYEPQQLLDLQDNNGGFGAGADSSSWLSGE-DRSPTLR-RTDSSLSNSAA--GTVDRTLF 56

Query: 58  KDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRK 117
            DLV+IVPLVQSLIDRKA SSFTRRGSM YTKTPSRESL KKT++ KG+NAAQS      
Sbjct: 57  NDLVQIVPLVQSLIDRKAKSSFTRRGSMTYTKTPSRESLYKKTSETKGKNAAQS------ 110

Query: 118 KDNGDKDLGKNANSNQD--SDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDEL 175
            +   +D  KN  ++QD  SD+ S+ SSR+ +SEK+ EEL+ALR QVEDLQ+K+ EKDEL
Sbjct: 111 -NKKHRDQNKNVGADQDGCSDNISMPSSRSYLSEKDREELMALRGQVEDLQKKLSEKDEL 169

Query: 176 LKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEA 235
           LK +E SK+++ +++ KLDE+K+  AEK+SL+K TQ+QLSDAK+KLADKQAA+EK +WEA
Sbjct: 170 LKEVEISKNEMASIYAKLDEMKKEYAEKESLLKLTQVQLSDAKVKLADKQAAVEKLEWEA 229

Query: 236 MTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDL 295
            T S+K EKLQE++E ++ E++ FMQ  + L KNDS   A +DYD+ PY  D   + D  
Sbjct: 230 TTSSKKVEKLQEDLEVVRQEIAWFMQFVQQLTKNDSRTLA-EDYDVIPYLCDKNIETDQP 288

Query: 296 DDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
           +++ M+ +E AREAYI AVA AKE QDE S + AA+ARL+LQS V R
Sbjct: 289 NELGMEEVELAREAYIAAVAAAKENQDEASFSEAAKARLYLQSLVLR 335

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|83265567|gb|ABB97536.1| microtubule-associated protein [Nicotiana benthamiana]

 Score =  316 bits (809), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 191/348 (54%), Positives = 248/348 (71%), Gaps = 17/348 (4%)

Query: 1   MFEPQHFVDLQDNSA-FG---DSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDL 56
           M+E Q  +DLQDN+  FG   DS+S WL+G+ + SPT R     SL  S A   NVDR L
Sbjct: 1   MYEAQQLLDLQDNNGGFGGGADSRS-WLSGE-DRSPTLR-RTDSSLSNSAA--GNVDRML 55

Query: 57  YKDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKR 116
           + DLVEIVPLVQSLIDRK  SSF+RRGSM YTKTP +ESL KKT++ KGRNAAQS   K+
Sbjct: 56  FNDLVEIVPLVQSLIDRKTKSSFSRRGSMTYTKTPPKESLYKKTSEAKGRNAAQSTATKK 115

Query: 117 KKDNGDKDLGKNANSNQD--SDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDE 174
            +        KN  SNQD  +++FS+ SSR+ + EK+ EEL+ALREQVEDL +K+ EKDE
Sbjct: 116 HRGQN-----KNVGSNQDGCTENFSMISSRSPLLEKDREELMALREQVEDLHKKLSEKDE 170

Query: 175 LLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE 234
           LLK +E +K+++ ++  KLDE+K+  AEKDSL+KSTQ+QLSDAK+ LADKQAA+EK +WE
Sbjct: 171 LLKEVEIAKNEMASICAKLDEMKKEYAEKDSLLKSTQVQLSDAKVILADKQAAVEKLEWE 230

Query: 235 AMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDD 294
           AMT S+K +KLQ +++ ++ E++ FMQ  + L KN S   A +DYD  PY  D   + D 
Sbjct: 231 AMTSSKKVDKLQNDLDVVRQEIAWFMQFVQKLTKNGSRALA-EDYDAIPYLCDKNLETDH 289

Query: 295 LDDVEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVFR 342
            +   MQ +E AREAY+ A+A AKE QDE S + AA+ARL+LQS V R
Sbjct: 290 PNKTGMQELEMAREAYLAAIAAAKENQDEASFSAAAKARLYLQSLVLR 337

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810915|ref|XP_002873341.1| hypothetical protein ARALYDRAFT_487645 [Arabidopsis lyrata subsp. lyrata] gi|297319178|gb|EFH49600.1| hypothetical protein ARALYDRAFT_487645 [Arabidopsis lyrata subsp. lyrata]

 Score =  313 bits (803), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 177/344 (51%), Positives = 237/344 (68%), Gaps = 23/344 (6%)

Query: 1   MFEPQ-HFVDLQDNSAFGDSKSSWLTGDGNS--SPTQRGAAQPSLGYSGATNSNVDRDLY 57
           M+E Q HF+DLQ +S FGD  SSWL GD +   SP Q  A       + + N N+DR L 
Sbjct: 1   MYEQQQHFMDLQSDSGFGDD-SSWLAGDDDLRLSPHQSAAG------TNSGNENLDRRLL 53

Query: 58  KDLVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPKRK 117
           KDLVE+VPL++  ++ K  SSF RRGSMIYTK PS+ESL ++     GRNA+Q+ P ++K
Sbjct: 54  KDLVEMVPLIEHYMEHKERSSFKRRGSMIYTKMPSKESLSRR-----GRNASQTAPGRKK 108

Query: 118 KDNGDKDLGKNANSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLK 177
           +D    D   N NS +D ++ +  S        E EEL  LREQV DLQ K+FEK+E+LK
Sbjct: 109 RDQEGNDDVMN-NSREDGENATALSG------AEKEELSRLREQVNDLQTKLFEKEEVLK 161

Query: 178 SLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMT 237
           S+E SK+QVN +  KL+   RL AEK+ LIKS QLQLSD KIKLADKQAALEK+QWEA T
Sbjct: 162 SMEMSKNQVNDIQEKLEATNRLVAEKEMLIKSMQLQLSDTKIKLADKQAALEKTQWEAKT 221

Query: 238 VSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDD 297
              +A KLQE+++++QG++S+F ++FE L K DS    D DYD  PY  D+L  +DD+D+
Sbjct: 222 TGTRAIKLQEQLDAVQGDISTFTRVFETLAKTDSK-KPDRDYDATPYEFDHLPYLDDVDE 280

Query: 298 VEMQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVF 341
            +++++EEAR AY+ AV  AKE+++EES+A AA+AR +LQS  F
Sbjct: 281 TDLRKIEEARLAYVAAVTTAKERENEESLAMAAQARAYLQSLAF 324

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	348
TAIR|locus:2181534	326	MPB2C "movement protein bindin	0.928	0.990	0.450	3.7e-64

TAIR|locus:2181534 MPB2C "movement protein binding protein 2C" [Arabidopsis thaliana (taxid:3702)]

 Score = 654 (235.3 bits), Expect = 3.7e-64, P = 3.7e-64
 Identities = 154/342 (45%), Positives = 207/342 (60%)

Query:     1 MFEPQ-HFVDLQDNSAFGDSKSSWLTGDGNSSPTQRGAAQPSLGYSGATNSNVDRDLYKD 59
             M+E Q HF+DLQ +S FGD  SSWL GD +     R +   S   + + N N+DR L KD
Sbjct:     1 MYEQQQHFMDLQSDSGFGDD-SSWLAGDDDL----RLSPHQSAAGTNSGNENLDRRLLKD 55

Query:    60 LVEIVPLVQSLIDRKASSSFTRRGSMIYTKTPSRESLLKKTTDPKGRNAAQSLPPXXXXX 119
             LVE+VPL++  ++ K  SSF RRGSMIYTK PS+ESL ++     GRNA+Q++P      
Sbjct:    56 LVEMVPLIEHYMEHKERSSFKRRGSMIYTKMPSKESLSRR-----GRNASQTVP-GRKKR 109

Query:   120 XXXXXXXXXXXSNQDSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFXXXXXXXXX 179
                        S +D ++     ++AL   ++ EE+  LREQV DLQ K+          
Sbjct:   110 DQEGNDDVMNNSREDDEN-----AKALAGAEK-EEMSRLREQVNDLQTKLSEKEEVLKSM 163

Query:   180 XXXXXQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVS 239
                  QVN +  KL+   RL AEKD LIKS QLQLSD KIKLADKQAALEK+QWEA T  
Sbjct:   164 EMSKNQVNEIQEKLEATNRLVAEKDMLIKSMQLQLSDTKIKLADKQAALEKTQWEAKTTG 223

Query:   240 RKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPXXXXXXXXXXXXXXVE 299
              +A KLQE++++++G++S+F ++FE L K DS    D DYD  P               +
Sbjct:   224 TRAIKLQEQLDAVEGDISTFTRVFETLAKTDSK-KPDRDYDAVPYEFDHLPYLDDVDETD 282

Query:   300 MQRMEEAREAYITAVAMAKEKQDEESMATAARARLHLQSFVF 341
             +++MEEAR AY+ AV  AKE++DEES+  AA+AR +LQS  F
Sbjct:   283 LRKMEEARLAYVAAVNTAKEREDEESLVMAAQARAYLQSLAF 324


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        0.310   0.124   0.326    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      348       304   0.00098  115 3  10 23  0.47    34
                                                     33  0.45    37


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:  1
  No. of states in DFA:  607 (65 KB)
  Total size of DFA:  261 KB (2140 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:  42.74u 0.15s 42.89t   Elapsed:  00:00:02
  Total cpu time:  42.75u 0.15s 42.90t   Elapsed:  00:00:02
  Start:  Fri May 10 12:43:50 2013   End:  Fri May 10 12:43:52 2013

GO:0005634 "nucleus" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

GO:0015630 "microtubule cytoskeleton" evidence=IDA

GO:0009414 "response to water deprivation" evidence=IMP

GO:0010375 "stomatal complex patterning" evidence=IMP

GO:0010497 "plasmodesmata-mediated intercellular transport" evidence=IMP

GO:0043622 "cortical microtubule organization" evidence=IMP

GO:0051607 "defense response to virus" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	348
PF10186	302	Atg14: UV radiation resistance protein and autopha	96.59
PRK11637	428	AmiB activator; Provisional	96.59
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	96.03
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.0
PRK09039	343	hypothetical protein; Validated	95.88
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	95.82
PRK11637	428	AmiB activator; Provisional	95.81
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.56
PHA02562	562	46 endonuclease subunit; Provisional	95.55
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	95.45
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	95.18
PRK03918	880	chromosome segregation protein; Provisional	95.11
PRK03918	880	chromosome segregation protein; Provisional	95.05
PRK09039	343	hypothetical protein; Validated	95.0
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	95.0
cd07664	234	BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of S	94.97
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	94.89
PF00038	312	Filament: Intermediate filament protein; InterPro:	94.87
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	94.81
KOG0996	1293	consensus Structural maintenance of chromosome pro	94.77
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	94.7
PHA02562	562	46 endonuclease subunit; Provisional	94.57
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	94.52
PRK02224	880	chromosome segregation protein; Provisional	94.52
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	94.46
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	94.45
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	94.31
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	94.16
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.12
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.06
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	94.01
KOG0933	1174	consensus Structural maintenance of chromosome pro	93.92
PRK02224	880	chromosome segregation protein; Provisional	93.79
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.79
cd07665	234	BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of S	93.72
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	93.34
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	93.09
PF10018	188	Med4: Vitamin-D-receptor interacting Mediator subu	92.99
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	92.98
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	92.96
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	92.79
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	92.71
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	92.68
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	92.66
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	92.62
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	92.32
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	92.23
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	92.22
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	92.17
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	92.08
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	91.95
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	91.9
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	91.64
PRK01156	895	chromosome segregation protein; Provisional	91.62
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	91.57
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	91.32
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	91.24
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	91.13
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	91.01
PRK01156	895	chromosome segregation protein; Provisional	91.0
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	90.79
KOG4673	961	consensus Transcription factor TMF, TATA element m	90.78
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	90.77
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.65
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	90.18
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	89.91
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	89.62
KOG0933	1174	consensus Structural maintenance of chromosome pro	89.52
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	89.25
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	89.1
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	89.06
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.73
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	88.69
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	88.48
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	88.46
PRK04863	1486	mukB cell division protein MukB; Provisional	88.43
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	88.15
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	88.04
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	87.93
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	87.86
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	87.61
PF07200	150	Mod_r: Modifier of rudimentary (Mod(r)) protein; I	87.41
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	87.26
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	86.99
PRK04778	569	septation ring formation regulator EzrA; Provision	86.82
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	86.72
PRK10884	206	SH3 domain-containing protein; Provisional	86.67
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	86.65
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	86.55
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	86.51
PRK04863	1486	mukB cell division protein MukB; Provisional	86.12
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	86.03
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	86.02
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	85.97
PF08537	323	NBP1: Fungal Nap binding protein NBP1; InterPro: I	85.94
PRK10884	206	SH3 domain-containing protein; Provisional	85.65
PF09325	236	Vps5: Vps5 C terminal like; InterPro: IPR015404 Vp	85.55
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	85.5
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	85.27
cd07627	216	BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of	85.26
PF00038	312	Filament: Intermediate filament protein; InterPro:	85.18
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	84.67
PF09763	701	Sec3_C: Exocyst complex component Sec3; InterPro:	84.64
PF14988	206	DUF4515: Domain of unknown function (DUF4515)	84.48
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	84.38
PRK04778	569	septation ring formation regulator EzrA; Provision	84.36
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	84.32
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	84.02
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	83.71
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	83.56
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	83.46
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	83.22
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	82.8
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	82.58
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	82.56
cd07623	224	BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of	82.53
PF15456	124	Uds1: Up-regulated During Septation	82.24
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	82.23
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	82.17
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	82.16
PRK12704	520	phosphodiesterase; Provisional	81.95
KOG0963	629	consensus Transcription factor/CCAAT displacement	81.61
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	81.49
TIGR02231	525	conserved hypothetical protein. This family consis	81.14
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	81.1
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	81.09
KOG0963	629	consensus Transcription factor/CCAAT displacement	81.04
PRK11519	719	tyrosine kinase; Provisional	80.92
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	80.85
PF13514	1111	AAA_27: AAA domain	80.42
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	80.3
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	80.23
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	80.05

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

Probab=96.59  E-value=0.22  Score=45.45  Aligned_cols=80  Identities=21%  Similarity=0.324  Sum_probs=45.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDE-----LLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADK  224 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDe-----lLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadK  224 (348)
                      .-+.++..++++.+.|+.++.+.=+     ....+...+.++......+..|+..+.....-|+..+..+.+.+..|..+
T Consensus        24 ~~~~~l~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~  103 (302)
T PF10186_consen   24 ELRSELQQLKEENEELRRRIEEILESDSNGQLLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQR  103 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456777888888888887766655     45555555555555555555555555544444444444444444444444


Q ss_pred             HHHHH
Q 018954          225 QAALE  229 (348)
Q Consensus       225 qAaLE  229 (348)
                      ...|.
T Consensus       104 ~~~l~  108 (302)
T PF10186_consen  104 RSRLS  108 (302)
T ss_pred             HHHHH
Confidence            44444

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

>PRK11637 AmiB activator; Provisional

Probab=96.59  E-value=0.11  Score=51.44  Aligned_cols=54  Identities=17%  Similarity=0.236  Sum_probs=29.5

Q ss_pred             HHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHH
Q 018954          207 IKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFM  260 (348)
Q Consensus       207 ikStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm  260 (348)
                      |..++.+|......+.+.+..|..++.++...+..+.+++.++...+..+...+
T Consensus        77 l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rl  130 (428)
T PRK11637         77 LKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQL  130 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555555555555555555555555554433

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=96.03  E-value=0.37  Score=51.51  Aligned_cols=8  Identities=38%  Similarity=0.866  Sum_probs=3.8

Q ss_pred             ccccccee
Q 018954           79 FTRRGSMI   86 (348)
Q Consensus        79 ftRr~Smi   86 (348)
                      |.+.|+|+
T Consensus       649 ~~~~G~~t  656 (1164)
T TIGR02169       649 FEKSGAMT  656 (1164)
T ss_pred             EcCCcCcc
Confidence            44445554

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=96.00  E-value=0.18  Score=55.06  Aligned_cols=110  Identities=25%  Similarity=0.237  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHHHh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHH
Q 018954          158 LREQVEDLQRKMF----EKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQW  233 (348)
Q Consensus       158 LreQVeeLqkKL~----EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlew  233 (348)
                      |++.|.-|+..+.    ++|.+.+.++...+......+++|.++.+|..|+.=|...|..|..+--...|++-=++.|.-
T Consensus       250 le~Ei~~L~~~~~~~~~~r~~~~k~le~~~s~~~~mK~k~d~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lke  329 (775)
T PF10174_consen  250 LEDEIYRLRSRGELSEADRDRLDKQLEVYKSHSLAMKSKMDRLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKE  329 (775)
T ss_pred             HHHHHHHHHhcccccccchHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            7888888877553    789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          234 EAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       234 Ea~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      .+-......+.||.||+.+++++..=..++.+-+
T Consensus       330 sl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~  363 (775)
T PF10174_consen  330 SLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQ  363 (775)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999987777776643

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>PRK09039 hypothetical protein; Validated

Probab=95.88  E-value=0.42  Score=47.12  Aligned_cols=85  Identities=19%  Similarity=0.230  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhh----hHHH
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQG----EMSS  258 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~----EIss  258 (348)
                      ..+...+.+++++++...++.-.-|.-++.|+..-+-+|+..+++|.-+|-.-.....+.++|+..|...=.    |+..
T Consensus       115 ~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~  194 (343)
T PRK09039        115 EGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNR  194 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666677888999999999999999999999999999999999999998888888888888888877743    3445


Q ss_pred             HHHHH-HHhh
Q 018954          259 FMQIF-EGLI  267 (348)
Q Consensus       259 lm~~f-e~it  267 (348)
                      +...| -.|.
T Consensus       195 ~~~~~~~~l~  204 (343)
T PRK09039        195 YRSEFFGRLR  204 (343)
T ss_pred             hHHHHHHHHH
Confidence            54433 4456

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=95.82  E-value=0.51  Score=50.53  Aligned_cols=33  Identities=12%  Similarity=0.219  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHH
Q 018954          228 LEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFM  260 (348)
Q Consensus       228 LEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm  260 (348)
                      ++.++-++.....+.+.++..+..++.+|..+.
T Consensus       884 l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~~~~  916 (1164)
T TIGR02169       884 LGDLKKERDELEAQLRELERKIEELEAQIEKKR  916 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333344444444444444444333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>PRK11637 AmiB activator; Provisional

Probab=95.81  E-value=0.14  Score=50.90  Aligned_cols=80  Identities=13%  Similarity=0.244  Sum_probs=50.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHH
Q 018954          151 EIEELVALREQVEDLQRKMF----EKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQA  226 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~----EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqA  226 (348)
                      -++++..++.||..+++++.    +..++...++.+..++..+..+|+++..++.+-+.-|..++.++..++..|...+.
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            45567777777777777776    33444444555556666666666666666666666666666666666666666666


Q ss_pred             HHHH
Q 018954          227 ALEK  230 (348)
Q Consensus       227 aLEK  230 (348)
                      .|.+
T Consensus       125 ~l~~  128 (428)
T PRK11637        125 LLAA  128 (428)
T ss_pred             HHHH
Confidence            6655

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.56  E-value=1.6  Score=38.64  Aligned_cols=119  Identities=22%  Similarity=0.203  Sum_probs=110.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhh
Q 018954          149 EKEIEELVALREQVEDLQRKMFEKDELLK-----SLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLAD  223 (348)
Q Consensus       149 ~kd~eEl~~LreQVeeLqkKL~EKDelLk-----Sae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~Lad  223 (348)
                      .+-|-.+..|+.|+..++.+|..|+++=.     --+++..+...+..+|||=..+|..=-..+.++-..|+..+-+|..
T Consensus         9 ~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~   88 (177)
T PF13870_consen    9 SKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHF   88 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677889999999999999999999744     4567789999999999999999998888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          224 KQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       224 KqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ...-+..+.-++........+++.++.....+...+......|.
T Consensus        89 ~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~  132 (177)
T PF13870_consen   89 LSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLR  132 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999987

>PHA02562 46 endonuclease subunit; Provisional

Probab=95.55  E-value=0.39  Score=48.11  Aligned_cols=101  Identities=16%  Similarity=0.221  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKS  231 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKl  231 (348)
                      -..+..|..++.+|+.++.+=++.+..++....+.+.+..++.+++..+.++..-|.+...++...+..+-..+...+.+
T Consensus       298 ~~~~~~l~d~i~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~  377 (562)
T PHA02562        298 PDRITKIKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDN  377 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhch
Confidence            34667777888888888887777777777777777777777777777777776666665555444444444444443334


Q ss_pred             HHHHHHhhhHHHHHHHHHhhh
Q 018954          232 QWEAMTVSRKAEKLQEEVESM  252 (348)
Q Consensus       232 ewEa~tsn~Kve~LQ~dl~sm  252 (348)
                      +-++..-..+..+++.++..+
T Consensus       378 ~~~l~~l~~~l~~~~~~~~~~  398 (562)
T PHA02562        378 AEELAKLQDELDKIVKTKSEL  398 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            334444344444444443333

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=95.45  E-value=0.81  Score=42.23  Aligned_cols=103  Identities=29%  Similarity=0.364  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKS------------QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKI  219 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~------------em~a~~akvDELr~qlaeKe~likStq~QLsdaki  219 (348)
                      ++.|...++++-++.++|.++|.-|..+.....            +-..+..+|+.+...+.+++.-|+.+.-+|     
T Consensus        74 r~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~l-----  148 (194)
T PF15619_consen   74 RERLRKSQEQERELERKLKDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQL-----  148 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Confidence            344555556666677777777776665544432            222333333333333333333333322211     


Q ss_pred             hhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHH
Q 018954          220 KLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFE  264 (348)
Q Consensus       220 ~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe  264 (348)
                      .|+++     -..+++..-+.|+..++..+..++-||..|...+.
T Consensus       149 eL~~k-----~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~klk  188 (194)
T PF15619_consen  149 ELENK-----SFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKLK  188 (194)
T ss_pred             HHHhh-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111     15677888899999999999999999999987763

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=95.18  E-value=1.2  Score=47.47  Aligned_cols=41  Identities=22%  Similarity=0.280  Sum_probs=16.4

Q ss_pred             hhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          221 LADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       221 LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                      +.+.+..+..++-++..-..+...++.++..++.++..+..
T Consensus       889 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~  929 (1179)
T TIGR02168       889 LALLRSELEELSEELRELESKRSELRRELEELREKLAQLEL  929 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333444444444444444443333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PRK03918 chromosome segregation protein; Provisional

Probab=95.11  E-value=4.4  Score=43.07  Aligned_cols=45  Identities=13%  Similarity=0.238  Sum_probs=27.9

Q ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          223 DKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       223 dKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      +..+.++.++-+...-+.+...|+........+|..+....+.|.
T Consensus       388 ~l~~~l~~l~~~~~~l~~~i~~l~~~~~~~~~~i~eL~~~l~~L~  432 (880)
T PRK03918        388 KLEKELEELEKAKEEIEEEISKITARIGELKKEIKELKKAIEELK  432 (880)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555666666666666666666666666666655

>PRK03918 chromosome segregation protein; Provisional

Probab=95.05  E-value=1.4  Score=46.75  Aligned_cols=111  Identities=14%  Similarity=0.275  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHH---hhHHHHhhhhHHHHHH
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQ---LSDAKIKLADKQAALE  229 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~Q---Lsdaki~LadKqAaLE  229 (348)
                      +-+..+..+++.|...+.+.+++.+.+..++.++..+.+.+.+++.++.+.+..++..+.+   |..++..+...+..++
T Consensus       169 ~~~~~~~~~~~~l~~~l~~l~~i~~~l~~l~~~~~~l~~ei~~l~~e~~~l~~~~~~~~~~l~~l~~~~~~~~~l~~~~~  248 (880)
T PRK03918        169 EVIKEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEELEKELE  248 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444566666666666766666666666666666667777777766666666666655543   3344444444444455


Q ss_pred             HHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          230 KSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       230 KlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      .++-........+..++.++..++.++..+....
T Consensus       249 ~l~~~~~~l~~~i~~l~~el~~l~~~l~~l~~~~  282 (880)
T PRK03918        249 SLEGSKRKLEEKIRELEERIEELKKEIEELEEKV  282 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5554444444445555555555555555444444

>PRK09039 hypothetical protein; Validated

Probab=95.00  E-value=2.9  Score=41.31  Aligned_cols=46  Identities=15%  Similarity=0.213  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHH
Q 018954          185 QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMT  237 (348)
Q Consensus       185 em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~t  237 (348)
                      +|..|+.+|+.||.|       +-+++.+|..++...++.++-++.|+-++-.
T Consensus       138 ~V~~L~~qI~aLr~Q-------la~le~~L~~ae~~~~~~~~~i~~L~~~L~~  183 (343)
T PRK09039        138 QVELLNQQIAALRRQ-------LAALEAALDASEKRDRESQAKIADLGRRLNV  183 (343)
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555       6666666666666666667666666655543

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

Probab=95.00  E-value=2.2  Score=39.62  Aligned_cols=84  Identities=18%  Similarity=0.219  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      +.......+|+.|..+|.+-...+..+..-+.++..+|.-...-|+.++-=+-....|+..|+.+|..+..-+-+|-...
T Consensus        85 ~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~  164 (237)
T PF00261_consen   85 NREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASE  164 (237)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhh
Confidence            34444556677777777777777777777777777777777777888877777888888888888888877777777666


Q ss_pred             HHhh
Q 018954          264 EGLI  267 (348)
Q Consensus       264 e~it  267 (348)
                      ++.+
T Consensus       165 ~~~~  168 (237)
T PF00261_consen  165 EKAS  168 (237)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            5543

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 ....

>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2

Probab=94.97  E-value=1.7  Score=41.10  Aligned_cols=119  Identities=23%  Similarity=0.286  Sum_probs=88.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHH-------------------HHHHHHHHHHHHHHHHHHHhhHH-
Q 018954          150 KEIEELVALREQVEDLQRKMFE----KDELLKSLESS-------------------KSQVNAVHLKLDELKRLAAEKDS-  205 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~E----KDelLkSae~~-------------------~~em~a~~akvDELr~qlaeKe~-  205 (348)
                      +-+..+..|..|+-.|.+.+--    .-++..++..+                   -+++..++.+|.++....+..|. 
T Consensus        26 ~~k~yi~~Le~~Lk~l~k~~~~lv~~rkela~~~~efa~s~~~L~~~E~~~~ls~~l~~laev~~ki~~~~~~qa~~d~~  105 (234)
T cd07664          26 EKQQQFENLDQQLRKLHASVESLVCHRKELSANTAAFAKSAAMLGNSEDHTALSRALSQLAEVEEKIDQLHQDQAFADFY  105 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            4456777777777777766531    11222222111                   15888999999999999999998 


Q ss_pred             -----------HHHHHh----------HHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHH
Q 018954          206 -----------LIKSTQ----------LQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFE  264 (348)
Q Consensus       206 -----------likStq----------~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe  264 (348)
                                 +|.|+.          .+...+...|.-|++.++||.|-  .+..|++.++.+|...+.-.......|+
T Consensus       106 ~l~e~L~eYiR~i~svK~~f~~R~k~~~~~~~a~~~L~kkr~~~~Kl~~~--~k~dK~~~~~~ev~~~e~~~~~a~~~fe  183 (234)
T cd07664         106 LFSELLGDYIRLIAAVKGVFDQRMKCWQKWQDAQVTLQKKREAEAKLQYA--NKPDKLQQAKDEIKEWEAKVQQGERDFE  183 (234)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--CchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                       344432          36788999999999999999882  2467999999999999999999999999


Q ss_pred             HhhhcC
Q 018954          265 GLIKND  270 (348)
Q Consensus       265 ~it~N~  270 (348)
                      .|+++.
T Consensus       184 ~Is~~~  189 (234)
T cd07664         184 QISKTI  189 (234)
T ss_pred             HHHHHH
Confidence            999553

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=94.89  E-value=1.2  Score=50.44  Aligned_cols=213  Identities=21%  Similarity=0.264  Sum_probs=143.8

Q ss_pred             CCcchhhh------hhhhh---hhhhhHHHhhhhcCCCccc--ccceeeecCCChhhhcccCCC------cccCCCCCCC
Q 018954           50 SNVDRDLY------KDLVE---IVPLVQSLIDRKASSSFTR--RGSMIYTKTPSRESLLKKTTD------PKGRNAAQSL  112 (348)
Q Consensus        50 gnVDr~L~------~dLVE---mVPLveSlmdrk~~~sftR--r~SmiYT~aP~resl~Kk~sd------~K~~k~~qs~  112 (348)
                      |+|-.-|.      +-|||   -||.=+|=+-|=-.-|++=  .-+||.|-.|+.-.|-.-.|-      .|.-+++.-+
T Consensus       317 G~INqSLLTLGRVInALVe~s~HIPYRESKLTRLLQDSLGGkTKT~iIATiSPa~~~lEETlSTLEYA~RAKnIkNKPev  396 (1041)
T KOG0243|consen  317 GEINQSLLTLGRVINALVEHSGHIPYRESKLTRLLQDSLGGKTKTCIIATISPAKHNLEETLSTLEYAHRAKNIKNKPEV  396 (1041)
T ss_pred             hhhhHHHHHHHHHHHHHHccCCCCCchHHHHHHHHHHHhCCCceeEEEEEeCCCcccHHHHHHHHHHHHHhhhccCCCcc
Confidence            66665544      57777   4788787776655555544  459999999996555433222      4555565555


Q ss_pred             CCcccCCCCCccc------cCCCCCCCCCCCccc-cchhhhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH-
Q 018954          113 PPKRKKDNGDKDL------GKNANSNQDSDSFSI-FSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKS-  184 (348)
Q Consensus       113 ~~Kkkrdpgd~d~------~k~~~~~q~~en~s~-~~s~~~~~~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~-  184 (348)
                      +.|--++-.=||-      =|..-...+.-||-+ +-++-...++   |.-...+||++|..+|..++..|+.+...-. 
T Consensus       397 NQkl~K~~llKd~~~EIerLK~dl~AaReKnGvyisee~y~~~e~---e~~~~~~~ieele~el~~~~~~l~~~~e~~~~  473 (1041)
T KOG0243|consen  397 NQKLMKKTLLKDLYEEIERLKRDLAAAREKNGVYISEERYTQEEK---EKKEMAEQIEELEEELENLEKQLKDLTELYMN  473 (1041)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHhHhhCceEechHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            6433222111110      000000111223222 2222222222   4556788999999999999999998877632 


Q ss_pred             ---HHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          185 ---QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       185 ---em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                         .-..++.+.+.++..|..+..-+.+++.++..++-.|..+.-.+-+++-=.++.-+-+.+||..++.++-++++|-.
T Consensus       474 ~~~~~~~l~~~~~~~k~~L~~~~~el~~~~ee~~~~~~~l~~~e~ii~~~~~se~~l~~~a~~l~~~~~~s~~d~s~l~~  553 (1041)
T KOG0243|consen  474 QLEIKELLKEEKEKLKSKLQNKNKELESLKEELQQAKATLKEEEEIISQQEKSEEKLVDRATKLRRSLEESQDDLSSLFE  553 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               22467889999999999999999999999999999999999888887777777777799999999999999999876


Q ss_pred             HHHH
Q 018954          262 IFEG  265 (348)
Q Consensus       262 ~fe~  265 (348)
                      .++.
T Consensus       554 kld~  557 (1041)
T KOG0243|consen  554 KLDR  557 (1041)
T ss_pred             Hhhh
Confidence            6644

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

Probab=94.87  E-value=1.5  Score=41.09  Aligned_cols=113  Identities=18%  Similarity=0.257  Sum_probs=62.7

Q ss_pred             hhHHHHH-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhH-----------HhhHH
Q 018954          150 KEIEELV-ALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQL-----------QLSDA  217 (348)
Q Consensus       150 kd~eEl~-~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~-----------QLsda  217 (348)
                      +.+.++. ..+.+|++|+.......+.+.++   +.++..+..+|..|+.++..=.....++..           ++.+.
T Consensus       184 ~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~---~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~  260 (312)
T PF00038_consen  184 KNREELEEWYQSKLEELRQQSEKSSEELESA---KEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREEY  260 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhcccccccccccccccccccchh---HhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHHH
Confidence            4444433 23556777776666555555443   333344444444444333332222333333           33334


Q ss_pred             HHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 018954          218 KIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       218 ki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                      +..++.+.+-|.++.+++-.-..-..+|-.-==+++.||.+.++++++
T Consensus       261 ~~~i~~le~el~~l~~~~~~~~~ey~~Ll~~K~~Ld~EIatYR~LLEg  308 (312)
T PF00038_consen  261 QAEIAELEEELAELREEMARQLREYQELLDVKLALDAEIATYRKLLEG  308 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHhhhccchhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhC
Confidence            555666666666666666666666666666666889999999988864

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 ....

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

Probab=94.81  E-value=1.1  Score=50.58  Aligned_cols=118  Identities=19%  Similarity=0.289  Sum_probs=84.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH---H-------------------------------------------
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESS---K-------------------------------------------  183 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~---~-------------------------------------------  183 (348)
                      ...+++...++.+..||.++.++-.-..++.+.   +                                           
T Consensus       285 ~~~~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~  364 (1074)
T KOG0250|consen  285 NQEEEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIE  364 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455677777888888888888777777777632   1                                           


Q ss_pred             HHHHHHHHHHHHHHHHHHhh-HHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHH-------hhhhhh
Q 018954          184 SQVNAVHLKLDELKRLAAEK-DSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEV-------ESMQGE  255 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeK-e~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl-------~sm~~E  255 (348)
                      +.|.++...+|.+++++++= ..+.++++.++.+..-++...+-.+|++|-.+..-..+-+++++++       .+.+.+
T Consensus       365 n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~  444 (1074)
T KOG0250|consen  365 NSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGE  444 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            77788888888888888864 4445999999999999998888888888876666665555555544       444455


Q ss_pred             HHHHHHHHHHhh
Q 018954          256 MSSFMQIFEGLI  267 (348)
Q Consensus       256 Isslm~~fe~it  267 (348)
                      |-++....+.++
T Consensus       445 i~~l~k~i~~~~  456 (1074)
T KOG0250|consen  445 ILQLRKKIENIS  456 (1074)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=94.77  E-value=0.46  Score=54.12  Aligned_cols=110  Identities=19%  Similarity=0.320  Sum_probs=83.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhHHHHHHHhHHhhHHHHhhhhHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLA-AEKDSLIKSTQLQLSDAKIKLADKQAAL  228 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~ql-aeKe~likStq~QLsdaki~LadKqAaL  228 (348)
                      .|.+.+.-|++||++|.+++-+=   =+++-. ++++..++.+||++.... .-...=|++++.||---...++..++++
T Consensus       855 ~d~~~l~~~~~~ie~l~kE~e~~---qe~~~K-k~~i~~lq~~i~~i~~e~~q~qk~kv~~~~~~~~~l~~~i~k~~~~i  930 (1293)
T KOG0996|consen  855 VDKKRLKELEEQIEELKKEVEEL---QEKAAK-KARIKELQNKIDEIGGEKVQAQKDKVEKINEQLDKLEADIAKLTVAI  930 (1293)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHH---HHhhhH-HHHHHHHHHHHHHhhchhhHHhHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            34556777888888888877443   233333 688899999999887654 3345568888888888888888889998


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          229 EKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       229 EKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      +.-.|-+..--+++..|..++..++.|+..|+..+
T Consensus       931 ~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~  965 (1293)
T KOG0996|consen  931 KTSDRNIAKAQKKLSELEREIEDTEKELDDLTEEL  965 (1293)
T ss_pred             hcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888888888888888887777

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=94.70  E-value=2.3  Score=40.57  Aligned_cols=25  Identities=16%  Similarity=0.351  Sum_probs=10.5

Q ss_pred             HhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          237 TVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       237 tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                      .....+..++.++...+.+|..+..
T Consensus       200 ~~~~~~~~~~~~l~~~~~~l~~~~~  224 (423)
T TIGR01843       200 ELERERAEAQGELGRLEAELEVLKR  224 (423)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3333444444444444444444333

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>PHA02562 46 endonuclease subunit; Provisional

Probab=94.57  E-value=1.1  Score=45.00  Aligned_cols=74  Identities=20%  Similarity=0.210  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          188 AVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       188 a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                      ....+++++...+.+-+..|......++...-.+...++.+++|+-+....+.+..+|..++..+..++..+..
T Consensus       327 ~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~~k  400 (562)
T PHA02562        327 EIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSELVK  400 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444445555555666666666777777777777777778877777777888888888888888775443

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=94.52  E-value=1.6  Score=46.46  Aligned_cols=82  Identities=22%  Similarity=0.315  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH--------------hHHhhHHHHhhhh
Q 018954          158 LREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKST--------------QLQLSDAKIKLAD  223 (348)
Q Consensus       158 LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likSt--------------q~QLsdaki~Lad  223 (348)
                      |+.|++..+   -|+++|++-...++.++..++..|+.|+.+|.....=+..+              ..+...-+..+++
T Consensus       141 lQ~qlE~~q---kE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e  217 (546)
T PF07888_consen  141 LQNQLEECQ---KEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAE  217 (546)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555543   34555666666666555555555555555554433322222              2222333344455


Q ss_pred             HHHHHHHHHHHHHHhhhHH
Q 018954          224 KQAALEKSQWEAMTVSRKA  242 (348)
Q Consensus       224 KqAaLEKlewEa~tsn~Kv  242 (348)
                      ..+-+.+||=++++-+.|.
T Consensus       218 ~~~ri~~LEedi~~l~qk~  236 (546)
T PF07888_consen  218 ARQRIRELEEDIKTLTQKE  236 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555665555555554

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>PRK02224 chromosome segregation protein; Provisional

Probab=94.52  E-value=1.2  Score=47.42  Aligned_cols=42  Identities=19%  Similarity=0.343  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHhhh--HHHHHHHHHHHHHHHHHHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEK--DELLKSLESSKSQVNAVHLKLDE  195 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EK--DelLkSae~~~~em~a~~akvDE  195 (348)
                      -...++.|+++|+..|.++  .++...+.....++..+..++++
T Consensus       181 ~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~~~~l~el~~~i~~  224 (880)
T PRK02224        181 VLSDQRGSLDQLKAQIEEKEEKDLHERLNGLESELAELDEEIER  224 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666777777777777665  33333333333333333333333

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

Probab=94.46  E-value=1.7  Score=38.14  Aligned_cols=66  Identities=20%  Similarity=0.234  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEV  249 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl  249 (348)
                      ..+-.++.+|.-|-.+|..-+.-++.|.-.|.++.+......--+..|+-+...-.+|.+.|....
T Consensus        73 ~~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~  138 (143)
T PF12718_consen   73 SNAEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY  138 (143)
T ss_pred             HhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            333355555555555555556666666666666666666655555556666666666666555444

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 [].

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=94.45  E-value=4  Score=37.62  Aligned_cols=113  Identities=15%  Similarity=0.362  Sum_probs=87.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhH
Q 018954          149 EKEIEELVALREQVEDLQRKMFEKDELLKSLES----SKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADK  224 (348)
Q Consensus       149 ~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~----~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadK  224 (348)
                      -.+-+-+..|.+||.+++++....+-.+..+..    +..-+..+...+.+|++++..=+    .-...|..+|..+...
T Consensus        23 ~~NL~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~----kdK~~L~~~k~rl~~~   98 (201)
T PF13851_consen   23 LNNLELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYE----KDKQSLQNLKARLKEL   98 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            345567889999999999998888777665544    35677788999999999998633    4455788899999999


Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH-HHHHHHHH
Q 018954          225 QAALEKSQWEAMTVSRKAEKLQEEVESMQGEMS-SFMQIFEG  265 (348)
Q Consensus       225 qAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs-slm~~fe~  265 (348)
                      +--|..|+||--.-..++.+|+.+-+.+..-+. ++..+.++
T Consensus        99 ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk  140 (201)
T PF13851_consen   99 EKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQK  140 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999988888777765444 33333333

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

Probab=94.31  E-value=2.9  Score=40.58  Aligned_cols=60  Identities=22%  Similarity=0.286  Sum_probs=46.1

Q ss_pred             HHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 018954          206 LIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       206 likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                      -+.++..+|...+..++.++..|+.++-+....+.+++.+..+...+..+|+.+..+.+.
T Consensus       210 eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~  269 (325)
T PF08317_consen  210 ELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREE  269 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677777777777787888888888888888888888888888888888877766653

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=94.16  E-value=1.7  Score=41.46  Aligned_cols=17  Identities=18%  Similarity=0.348  Sum_probs=7.6

Q ss_pred             HHHhhhhhhHHHHHHHH
Q 018954          247 EEVESMQGEMSSFMQIF  263 (348)
Q Consensus       247 ~dl~sm~~EIsslm~~f  263 (348)
                      .++...+.+|..+...+
T Consensus       246 ~~l~~~~~~l~~~~~~l  262 (423)
T TIGR01843       246 EELTEAQARLAELRERL  262 (423)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444444444444444

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.12  E-value=2.1  Score=42.10  Aligned_cols=83  Identities=19%  Similarity=0.241  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHH----HHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHH
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDS----LIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSS  258 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~----likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIss  258 (348)
                      ...-..+..++..|++...+-+.    .+..+..+|...+..+..|+.-++.++-++...+.+++...++.+..+.+|+.
T Consensus       178 ~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~  257 (312)
T smart00787      178 RDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAE  257 (312)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566677777777777777544    66667777777777777777777777777777777777777777777777776


Q ss_pred             HHHHHHH
Q 018954          259 FMQIFEG  265 (348)
Q Consensus       259 lm~~fe~  265 (348)
                      ...+++.
T Consensus       258 ae~~~~~  264 (312)
T smart00787      258 AEKKLEQ  264 (312)
T ss_pred             HHHHHHh
Confidence            6665543

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

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=94.06  E-value=1.2  Score=41.92  Aligned_cols=96  Identities=26%  Similarity=0.341  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQW  233 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlew  233 (348)
                      ||..|.-|+-|.|-.+.-|+          ++|..|.+.+-+++.++..++.-+..++.       .+-.|++.||..|-
T Consensus        11 EIsLLKqQLke~q~E~~~K~----------~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~-------~~~~K~~ELE~ce~   73 (202)
T PF06818_consen   11 EISLLKQQLKESQAEVNQKD----------SEIVSLRAQLRELRAELRNKESQIQELQD-------SLRTKQLELEVCEN   73 (202)
T ss_pred             hHHHHHHHHHHHHHHHHHHH----------hHHHHHHHHHHHHHHHHHhhHHHHHHHHH-------HHHHhhHhHHHhHH
Confidence            67778888887777777665          45666666677777777666665555544       44568899999999


Q ss_pred             HHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHh
Q 018954          234 EAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGL  266 (348)
Q Consensus       234 Ea~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~i  266 (348)
                      |+-.....++-|++.+..++.||..|..-+..+
T Consensus        74 ELqr~~~Ea~lLrekl~~le~El~~Lr~~l~~~  106 (202)
T PF06818_consen   74 ELQRKKNEAELLREKLGQLEAELAELREELACA  106 (202)
T ss_pred             HHHHHhCHHHHhhhhhhhhHHHHHHHHHHHHhh
Confidence            999988889999999999999999999888776

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

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

Probab=94.01  E-value=4.4  Score=39.04  Aligned_cols=105  Identities=16%  Similarity=0.283  Sum_probs=53.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---------HHHHHHHhHHhhHHHHh
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEK---------DSLIKSTQLQLSDAKIK  220 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeK---------e~likStq~QLsdaki~  220 (348)
                      ..+++|..++++++.+.+.+.+++..++.++   +++..+...|++++.+...=         +.-+..++.++.-|+-.
T Consensus        28 ~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le---~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r  104 (239)
T COG1579          28 EIRKALKKAKAELEALNKALEALEIELEDLE---NQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKER  104 (239)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHH
Confidence            4566788888888888888877776655544   44555555555555544332         22233344444444444


Q ss_pred             hhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH
Q 018954          221 LADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMS  257 (348)
Q Consensus       221 LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs  257 (348)
                      ++...-.|..+.-+.-...++.+.|++.+..++..+.
T Consensus       105 ~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~  141 (239)
T COG1579         105 INSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLA  141 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4443333333333333333333444444433333333

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=93.92  E-value=2.2  Score=48.44  Aligned_cols=33  Identities=33%  Similarity=0.488  Sum_probs=22.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESS  182 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~  182 (348)
                      +.-+++-.+.+.|++++..+-|++.+++..+.-
T Consensus       738 ~~~~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~  770 (1174)
T KOG0933|consen  738 KLLDDLKELLEEVEESEQQIKEKERALKKCEDK  770 (1174)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566677777777777777777777766554

>PRK02224 chromosome segregation protein; Provisional

Probab=93.79  E-value=2.1  Score=45.75  Aligned_cols=15  Identities=20%  Similarity=0.062  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHh
Q 018954          304 EEAREAYITAVAMAK  318 (348)
Q Consensus       304 E~aR~aY~aAvaaAK  318 (348)
                      +.....|-.++..++
T Consensus       432 ~~~~~~~~~~l~~~~  446 (880)
T PRK02224        432 EATLRTARERVEEAE  446 (880)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333344444555554

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

Probab=93.79  E-value=5.3  Score=36.51  Aligned_cols=108  Identities=18%  Similarity=0.316  Sum_probs=67.0

Q ss_pred             hhHHHHHHHHHHHHHHHH-----HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhH
Q 018954          150 KEIEELVALREQVEDLQR-----KMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADK  224 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqk-----KL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadK  224 (348)
                      .-+++...|+.+|+++=.     .......+-..++....++..+...++.+++++.++-..|...+.+|+..+..|...
T Consensus        31 ~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~  110 (302)
T PF10186_consen   31 QLKEENEELRRRIEEILESDSNGQLLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSAS  110 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566777777777665     666777777777777777777777777777777777777777777777777766622


Q ss_pred             H-------HHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH
Q 018954          225 Q-------AALEKSQWEAMTVSRKAEKLQEEVESMQGEMS  257 (348)
Q Consensus       225 q-------AaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs  257 (348)
                      .       ..+++++-++.....++..++..+...+..+-
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r~~l~  150 (302)
T PF10186_consen  111 QDLVESRQEQLEELQNELEERKQRLSQLQSQLARRRRQLI  150 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2       22333333444444444444444444444433

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

>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1

Probab=93.72  E-value=2.7  Score=39.96  Aligned_cols=84  Identities=20%  Similarity=0.368  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHH------------HHHHh----------HHhhHHHHhhhhHHHHHHHHHHHHHHhhhH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSL------------IKSTQ----------LQLSDAKIKLADKQAALEKSQWEAMTVSRK  241 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~l------------ikStq----------~QLsdaki~LadKqAaLEKlewEa~tsn~K  241 (348)
                      +.+..++.+|.++....++.|.+            |.|+.          .+.++++..|.-|++.++||.|-  .+..|
T Consensus        83 s~laev~~~i~~~~~~qa~qd~~~f~e~l~eYiRli~SVK~~f~~R~k~~~~~~~~~~~l~kKr~~~~Kl~~~--~~~dK  160 (234)
T cd07665          83 SQLAEVEEKIEQLHQEQANNDFFLLAELLADYIRLLSAVRGAFDQRMKTWQRWQDAQAMLQKKREAEARLLWA--NKPDK  160 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCchH
Confidence            68889999999999999998863            44442          46889999999999999999883  35689


Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhhc
Q 018954          242 AEKLQEEVESMQGEMSSFMQIFEGLIKN  269 (348)
Q Consensus       242 ve~LQ~dl~sm~~EIsslm~~fe~it~N  269 (348)
                      +..++.+|...+........-|+.|+++
T Consensus       161 ~~~a~~Ev~e~e~k~~~a~~~fe~is~~  188 (234)
T cd07665         161 LQQAKDEIAEWESRVTQYERDFERISAT  188 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999844

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=93.34  E-value=5.1  Score=41.59  Aligned_cols=109  Identities=25%  Similarity=0.334  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHHHHHH----hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhh-------
Q 018954          153 EELVALREQVEDLQRKM----FEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKL-------  221 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL----~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~L-------  221 (348)
                      ..+.....++++.+..|    .|-..+-.+++++..++.-....+..++.....-...|.+++.+|...+..|       
T Consensus       281 ~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e  360 (522)
T PF05701_consen  281 SSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEE  360 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhh
Confidence            34666666777666666    4666777888888999999999999999999999999999988888777766       


Q ss_pred             -------hhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          222 -------ADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       222 -------adKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                             .++..+|+++.-|+-.-...++..+.++..+..||.....
T Consensus       361 ~~~k~~~~~l~~~Lqql~~Eae~Ak~ea~~~~~E~~~~k~E~e~~ka  407 (522)
T PF05701_consen  361 EKAKEAMSELPKALQQLSSEAEEAKKEAEEAKEEVEKAKEEAEQTKA  407 (522)
T ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   3566778888777777777777777777777776664433

Several sequences in this family are described as being myosin heavy chain-like.

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=93.09  E-value=4.8  Score=38.25  Aligned_cols=101  Identities=17%  Similarity=0.313  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE  234 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewE  234 (348)
                      |..||.++.+|++.   |.+++..++.+.++=.-|..--.|+...+.||.+.+.    +|..-+.....+.+-+..++-|
T Consensus         3 i~~ir~K~~~lek~---k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~e----eLrqI~~DIn~lE~iIkqa~~e   75 (230)
T PF10146_consen    3 IKEIRNKTLELEKL---KNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVE----ELRQINQDINTLENIIKQAESE   75 (230)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Confidence            56688888888876   5678888888887777777777777777889988886    6777888888889999999988


Q ss_pred             HHHhhhHHHHHHHHHhhhhhhHHHHHHH
Q 018954          235 AMTVSRKAEKLQEEVESMQGEMSSFMQI  262 (348)
Q Consensus       235 a~tsn~Kve~LQ~dl~sm~~EIsslm~~  262 (348)
                      -...-.++.++++++.-+..+|..++.-
T Consensus        76 r~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   76 RNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888899999999999998888888777

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=92.99  E-value=1.9  Score=38.85  Aligned_cols=96  Identities=21%  Similarity=0.188  Sum_probs=72.0

Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHH-HHHHHHHHHHHHhhhHHHHH
Q 018954          167 RKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQ-AALEKSQWEAMTVSRKAEKL  245 (348)
Q Consensus       167 kKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKq-AaLEKlewEa~tsn~Kve~L  245 (348)
                      ..|.++|.-|.++=....+-..++++|..|+.++..+|..|+.+..+|.++...|...- -+-+++     ++..+.+  
T Consensus         5 ~~L~~~d~~L~~~L~~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~~~~~~~-----~~~~~~~--   77 (188)
T PF10018_consen    5 EDLIEADDELSSALEELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPDQADEKL-----KSIPKAE--   77 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----ccccccc--
Confidence            45677887777776777888899999999999999999999999999999999887654 111112     2333333  


Q ss_pred             HHHHhhhhhhHHHHHHHHHHhhhcCCCCC
Q 018954          246 QEEVESMQGEMSSFMQIFEGLIKNDSTVN  274 (348)
Q Consensus       246 Q~dl~sm~~EIsslm~~fe~it~N~S~~~  274 (348)
                           .-.+...-|...=.+|+++.+.+.
T Consensus        78 -----~~~v~~~eLL~YA~rISk~t~~p~  101 (188)
T PF10018_consen   78 -----KRPVDYEELLSYAHRISKFTSAPP  101 (188)
T ss_pred             -----cCCCCHHHHHHHHHHHHHhcCCCC
Confidence                 334446678888899999888844

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=92.98  E-value=5.6  Score=41.32  Aligned_cols=58  Identities=26%  Similarity=0.287  Sum_probs=42.3

Q ss_pred             HHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          206 LIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       206 likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      ...+++..|..++..|.+.+..|++..-|+..-...|+.|+.+|.....+|..+..-.
T Consensus       275 ~~~~~~~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e  332 (522)
T PF05701_consen  275 KSSELQSSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKERE  332 (522)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555566777777777777888888888888888888888887777777766544

Several sequences in this family are described as being myosin heavy chain-like.

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=92.96  E-value=3.8  Score=46.02  Aligned_cols=52  Identities=23%  Similarity=0.254  Sum_probs=30.6

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          216 DAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       216 daki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      +.+-..+++.-.||+++++.=.-++|.+....-+++|+.|...+.-.|+.+.
T Consensus       463 ~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq  514 (980)
T KOG0980|consen  463 DVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQELALLLIELEELQ  514 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555556666666666666666666666666666665555555544

>TIGR00606 rad50 rad50

Probab=92.79  E-value=2.1  Score=48.59  Aligned_cols=71  Identities=14%  Similarity=0.277  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhhHHHHHHH---hHHhhHHHHhhh
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDEL-------KRLAAEKDSLIKST---QLQLSDAKIKLA  222 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDEL-------r~qlaeKe~likSt---q~QLsdaki~La  222 (348)
                      .|+..|+.||++|..++..-..- ++++....++.++..+++.+       ..+...+..-|+.+   ..++.+.+.+|+
T Consensus       799 ~ei~~l~~qie~l~~~l~~~~~~-~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~  877 (1311)
T TIGR00606       799 MELKDVERKIAQQAAKLQGSDLD-RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIG  877 (1311)
T ss_pred             HHHHHHHHHHHHHHHHhcccccc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555544433221 24444444444444444444       66666666666666   444444455554


Q ss_pred             hH
Q 018954          223 DK  224 (348)
Q Consensus       223 dK  224 (348)
                      +.
T Consensus       878 ~~  879 (1311)
T TIGR00606       878 TN  879 (1311)
T ss_pred             HH
Confidence            43

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=92.71  E-value=3.4  Score=49.57  Aligned_cols=80  Identities=19%  Similarity=0.285  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      .++..+...+++...+.++.+.-.+.++..+.+-+..+.|....+.|++.|.-+..+++..|++++..++--|+.|...-
T Consensus       908 ~~l~~~~~~~e~~ee~~~~le~~~~~~~~e~~~l~~~~~~~E~~~~k~~~Ek~~~e~~~~~l~~e~~~~~e~~~kL~kek  987 (1930)
T KOG0161|consen  908 KELKELKERLEEEEEKNAELERKKRKLEQEVQELKEQLEELELTLQKLELEKNAAENKLKNLEEEINSLDENISKLSKEK  987 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666777777777777777777888888888888888899999999999999999999998888888776543

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=92.68  E-value=6.3  Score=42.07  Aligned_cols=28  Identities=25%  Similarity=0.218  Sum_probs=14.0

Q ss_pred             eeecCCChhh-hcccCCCcccCCCCCCCCC
Q 018954           86 IYTKTPSRES-LLKKTTDPKGRNAAQSLPP  114 (348)
Q Consensus        86 iYT~aP~res-l~Kk~sd~K~~k~~qs~~~  114 (348)
                      .|=|-|.-+. +. -|.+-+|.-...|+|=
T Consensus        80 yyLPk~~~e~Yqf-cYv~~~g~V~G~S~pF  108 (546)
T PF07888_consen   80 YYLPKDDDEFYQF-CYVDQKGEVRGASTPF  108 (546)
T ss_pred             ccCCCCCCCeEEE-EEECCCccEEEecCCc
Confidence            4666664332 33 3345555555555554

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

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

Probab=92.66  E-value=4.7  Score=45.40  Aligned_cols=10  Identities=40%  Similarity=0.368  Sum_probs=6.5

Q ss_pred             HHHHHHHHHh
Q 018954          309 AYITAVAMAK  318 (348)
Q Consensus       309 aY~aAvaaAK  318 (348)
                      .|..||.+|=
T Consensus       530 ~y~~Aie~al  539 (1163)
T COG1196         530 KYETALEAAL  539 (1163)
T ss_pred             HHHHHHHHHc
Confidence            5777776653

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

Probab=92.62  E-value=5  Score=45.23  Aligned_cols=73  Identities=19%  Similarity=0.331  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEM  256 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EI  256 (348)
                      .+|..+..+++++..++..=+.-+.+.+.++...+..+...++.+..++-++.....+.++|+..+..+..++
T Consensus       828 ~ei~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~~~~~~  900 (1163)
T COG1196         828 QEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESEL  900 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444443333344444444444444444444444444444444444444444444433333

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.32  E-value=8.9  Score=37.61  Aligned_cols=108  Identities=26%  Similarity=0.389  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH----HHh-----------------
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIK----STQ-----------------  211 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~lik----Stq-----------------  211 (348)
                      .||-.|..||++++.|.-++++   -...+..+|+.++.+|++++..+.++.-+++    ++|                 
T Consensus        52 ~ei~~L~~qi~~~~~k~~~~~~---~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yidvil~SkS  128 (265)
T COG3883          52 NEIESLDNQIEEIQSKIDELQK---EIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNGTATSYIDVILNSKS  128 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHHHHHccCc
Confidence            4788899999999999877764   5667788899999999999888888765543    111                 


Q ss_pred             ----------------------HHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          212 ----------------------LQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       212 ----------------------~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                                            .++-+-|..|-+||++|++-.-++..-.+..+.++.+|.+-..|...++...
T Consensus       129 fsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e~~~l~~~~  202 (265)
T COG3883         129 FSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIAAL  202 (265)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                  1233445567777777777666666666666655555555555544444433

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=92.23  E-value=10  Score=37.95  Aligned_cols=82  Identities=23%  Similarity=0.277  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhh---------------------HH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSR---------------------KA  242 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~---------------------Kv  242 (348)
                      .+|+.+..+-+-|-++|+.=++=+.|+.-+||.+.--|.+|-.+||-+|+++-..-+                     |-
T Consensus       137 ~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kq  216 (305)
T PF14915_consen  137 SDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQ  216 (305)
T ss_pred             chHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            466777777788999999999999999999999999999999999999887655433                     45


Q ss_pred             HHHHHHHhhhhhhHHHHHHHHHH
Q 018954          243 EKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       243 e~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                      +.|++-|..++.|=-.|+++++.
T Consensus       217 es~eERL~QlqsEN~LLrQQLdd  239 (305)
T PF14915_consen  217 ESLEERLSQLQSENMLLRQQLDD  239 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            66677777777777778777754

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=92.22  E-value=4.8  Score=48.39  Aligned_cols=143  Identities=21%  Similarity=0.296  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhh-------hHHH
Q 018954          158 LREQVEDLQRKMFEKDELLKSLESS----KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLA-------DKQA  226 (348)
Q Consensus       158 LreQVeeLqkKL~EKDelLkSae~~----~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~La-------dKqA  226 (348)
                      |.+.+.+|+..|.+.++-++++.-.    ..+|..+...+.+-++...+-|..++..-.+|.+++-.+.       +.+.
T Consensus       990 lEe~~~~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkle~el~~~~e~~~~~~~~~~el~~ 1069 (1930)
T KOG0161|consen  990 LEERIRELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKLEGELKDLQESIEELKKQKEELDN 1069 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            5555555555555555555554433    2555555556665555566666555555555555444444       4444


Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhhhcCCCCCCCCCCCCCccccCCCCCCCCCChHHHHHHHHH
Q 018954          227 ALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEA  306 (348)
Q Consensus       227 aLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it~N~S~~~~ded~d~~~~~~e~l~~~de~~~~e~ekmE~a  306 (348)
                      .|.+.+||+=.-+.|+++++..+.-++-.|..|......|.         +              .-+-...-..|+|.+
T Consensus      1070 ~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~---------e--------------~le~er~~r~K~ek~ 1126 (1930)
T KOG0161|consen 1070 QLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELE---------E--------------ELEAERASRAKAERQ 1126 (1930)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH---------H--------------HHHHHHHHHHHHHHH
Confidence            44445555554455555444444444444444444443333         1              111224456677777


Q ss_pred             HHHHHHHHHHHhhcCCH
Q 018954          307 REAYITAVAMAKEKQDE  323 (348)
Q Consensus       307 R~aY~aAvaaAKenp~e  323 (348)
                      |+.....|.+-++.-++
T Consensus      1127 r~dL~~ele~l~~~Lee 1143 (1930)
T KOG0161|consen 1127 RRDLSEELEELKEELEE 1143 (1930)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777766655444

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

Probab=92.17  E-value=9.1  Score=37.25  Aligned_cols=55  Identities=16%  Similarity=0.163  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHh
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTV  238 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~ts  238 (348)
                      .+++++++.|.++..+++.+..-+...+.||..-+..+.+..+...+++=++...
T Consensus       209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~  263 (325)
T PF08317_consen  209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEA  263 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444444444433

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

Probab=92.08  E-value=1.2  Score=40.06  Aligned_cols=50  Identities=18%  Similarity=0.194  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQW  233 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlew  233 (348)
                      .+...+..++..|..++.+|...+..++.++.--+|.+.-....+.+|+-
T Consensus       123 ~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~  172 (194)
T PF08614_consen  123 AELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEE  172 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555555555555555555444444444443

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.

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

Probab=91.95  E-value=2.4  Score=39.38  Aligned_cols=63  Identities=21%  Similarity=0.247  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHhhHHHHHHHhHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQ------------------VNAVHLKLDELKRLAAEKDSLIKSTQLQ  213 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~e------------------m~a~~akvDELr~qlaeKe~likStq~Q  213 (348)
                      +.++-...++++.++.+|-+.+..+..++.-..-                  +..+..+++++.+.+-+-+.-++.+...
T Consensus         7 ~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r   86 (237)
T PF00261_consen    7 KDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENR   86 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4567777778888888887777777666654311                  1133455566666666655555555444


Q ss_pred             h
Q 018954          214 L  214 (348)
Q Consensus       214 L  214 (348)
                      +
T Consensus        87 ~   87 (237)
T PF00261_consen   87 E   87 (237)
T ss_dssp             H
T ss_pred             H
Confidence            3

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 ....

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=91.90  E-value=10  Score=34.97  Aligned_cols=102  Identities=23%  Similarity=0.353  Sum_probs=75.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HhhHHHHHHHhHHhhHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLA-----------AEKDSLIKSTQLQLSDAK  218 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~ql-----------aeKe~likStq~QLsdak  218 (348)
                      .=++-|..++++|++|+++|..=+.--.++..++..+..+..+|..|+.+.           .|||.|-.--..=+++.+
T Consensus        59 ~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evq  138 (201)
T PF13851_consen   59 RLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQ  138 (201)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345778899999999999997655555688888888888888887776554           456666666666666777


Q ss_pred             HhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          219 IKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       219 i~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                      .+.+-|...||          +|+..|...+..-++++++...
T Consensus       139 Qk~~~kn~lLE----------kKl~~l~~~lE~keaqL~evl~  171 (201)
T PF13851_consen  139 QKTGLKNLLLE----------KKLQALSEQLEKKEAQLNEVLA  171 (201)
T ss_pred             HHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHH
Confidence            77776666666          5788888888888888876554

>TIGR00606 rad50 rad50

Probab=91.64  E-value=4.9  Score=45.76  Aligned_cols=44  Identities=16%  Similarity=0.123  Sum_probs=27.1

Q ss_pred             hhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          220 KLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       220 ~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      -+.+.+..+++++-++.+-..+.+.++.+...++.+|+.|....
T Consensus       823 s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki  866 (1311)
T TIGR00606       823 TVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKT  866 (1311)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666666666666666666664433

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK01156 chromosome segregation protein; Provisional

Probab=91.62  E-value=21  Score=38.62  Aligned_cols=73  Identities=15%  Similarity=0.206  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhh
Q 018954          178 SLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVES  251 (348)
Q Consensus       178 Sae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~s  251 (348)
                      .++....+...+..+++.++..+++.+.-++....++...+..+...+.++++++-=-+. ...+.+++.-++.
T Consensus       675 ~~~~~~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~~~~l~eel~~~~~~~~~l~~~~~~-~~~l~~~r~~l~k  747 (895)
T PRK01156        675 RINDIEDNLKKSRKALDDAKANRARLESTIEILRTRINELSDRINDINETLESMKKIKKA-IGDLKRLREAFDK  747 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhh
Confidence            334445666666667777777777777777777777666666666655555543332121 1234556666664

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=91.57  E-value=0.93  Score=44.64  Aligned_cols=109  Identities=28%  Similarity=0.384  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhH----------------H
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSD----------------A  217 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsd----------------a  217 (348)
                      .|..|.|++-.||+++.||   ++-++-.+.....++.++++||.+|.++|.||+--++=|-.                .
T Consensus       120 ~lee~eE~~~~~~re~~eK---~~elEr~K~~~d~L~~e~~~Lre~L~~rdeli~khGlVlv~~~~ngd~~~~~~~~~~~  196 (302)
T PF09738_consen  120 KLEELEETLAQLQREYREK---IRELERQKRAHDSLREELDELREQLKQRDELIEKHGLVLVPDATNGDTSDEPNNVGHP  196 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCeeeCCCCCCCccccCccccCCC
Confidence            4444555555555555433   45567778899999999999999999999999754443332                2


Q ss_pred             HHhhhhHHHH--HHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          218 KIKLADKQAA--LEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       218 ki~LadKqAa--LEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ++-+.-..++  |+..  +-=+=--++-+|-++=..|..+|.-|..+++...
T Consensus       197 ~~~~vs~e~a~~L~~a--G~g~LDvRLkKl~~eke~L~~qv~klk~qLee~~  246 (302)
T PF09738_consen  197 KRALVSQEAAQLLESA--GDGSLDVRLKKLADEKEELLEQVRKLKLQLEERQ  246 (302)
T ss_pred             cccccchhhhhhhccc--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222222211  1111  0000012555666677788888888888886654

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=91.32  E-value=11  Score=37.90  Aligned_cols=122  Identities=17%  Similarity=0.331  Sum_probs=83.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHH-
Q 018954          149 EKEIEELVALREQVEDLQRKMFEKDELL-KSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQA-  226 (348)
Q Consensus       149 ~kd~eEl~~LreQVeeLqkKL~EKDelL-kSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqA-  226 (348)
                      .-.++|-.+|++.+.-==-.|-++-++| ..+.......|.+.-++-..+-.|.||--++.++|-.|+.++-.+-++.. 
T Consensus       122 qr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m  201 (305)
T PF14915_consen  122 QRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHM  201 (305)
T ss_pred             HHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666543333334444444 23444567788888888899999999999999999888877766554432 


Q ss_pred             ----------------HH----HHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhhhcC
Q 018954          227 ----------------AL----EKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKND  270 (348)
Q Consensus       227 ----------------aL----EKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it~N~  270 (348)
                                      +|    -+||-|-|-=-.-.++.+...++.+--|...+..|..|..+-
T Consensus       202 ~qne~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~K~~~kek~ViniQ~~f~d~~~~L  265 (305)
T PF14915_consen  202 YQNEQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHNKADNKEKTVINIQDQFQDIVKKL  265 (305)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence                            32    237778777777778888888888877777777776666543

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

Probab=91.24  E-value=1.2  Score=40.10  Aligned_cols=97  Identities=21%  Similarity=0.292  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQW  233 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlew  233 (348)
                      -+..|++.+.+|++          +-..+..+++.+..++.+++..+.++..-|..++.++.       ..+..+..++-
T Consensus        75 ~~~~l~~ELael~r----------~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~-------~L~~~~~~l~~  137 (194)
T PF08614_consen   75 KLAKLQEELAELYR----------SKGELAQQLVELNDELQELEKELSEKERRLAELEAELA-------QLEEKIKDLEE  137 (194)
T ss_dssp             -------------------------------------------------HHHHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             cccccccccccccc----------ccccccccccccccccchhhhhHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            34555555555544          33445566666666666666666666555555444433       33333344444


Q ss_pred             HHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          234 EAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       234 Ea~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ++...++-++.|+.++.+++-+++.+-..++++.
T Consensus       138 ~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~  171 (194)
T PF08614_consen  138 ELKEKNKANEILQDELQALQLQLNMLEEKLRKLE  171 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555556666666666666666666665554

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.

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=91.13  E-value=3.3  Score=44.07  Aligned_cols=31  Identities=19%  Similarity=0.355  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESS  182 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~  182 (348)
                      .-|+..|+++|++|++++.++...+..++.-
T Consensus       112 e~ei~kl~~e~~elr~~~~~~~k~~~~~re~  142 (546)
T KOG0977|consen  112 EIEITKLREELKELRKKLEKAEKERRGAREK  142 (546)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            3456666666666666666665555555443

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=91.01  E-value=4.1  Score=43.17  Aligned_cols=83  Identities=14%  Similarity=0.191  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHHHHHHHH-hhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhH---HHHHHHHHhhhhhhHHHH
Q 018954          184 SQVNAVHLKLDELKRLAA-EKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRK---AEKLQEEVESMQGEMSSF  259 (348)
Q Consensus       184 ~em~a~~akvDELr~qla-eKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~K---ve~LQ~dl~sm~~EIssl  259 (348)
                      -+|.++++++++|++++. +...++.+++.++..++......++.+.+++-.+..-+.+   ..+||-+++.-+.-...|
T Consensus       316 P~v~~l~~qi~~l~~~i~~e~~~~~~~~~~~~~~a~~~~~~L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~Y~~l  395 (754)
T TIGR01005       316 PRVVAAKSSLADLDAQIRSELQKITKSLLMQADAAQARESQLVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQLYESY  395 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHHHHHH
Confidence            456777788888887764 4677778888888888888888888888887777655443   334555555555555555


Q ss_pred             HHHHHHh
Q 018954          260 MQIFEGL  266 (348)
Q Consensus       260 m~~fe~i  266 (348)
                      ...++.+
T Consensus       396 l~r~~e~  402 (754)
T TIGR01005       396 LTNYRQA  402 (754)
T ss_pred             HHHHHHH
Confidence            5555443

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>PRK01156 chromosome segregation protein; Provisional

Probab=91.00  E-value=11  Score=40.64  Aligned_cols=18  Identities=11%  Similarity=0.313  Sum_probs=6.7

Q ss_pred             hhHHHHHHHHHhhhhhhH
Q 018954          239 SRKAEKLQEEVESMQGEM  256 (348)
Q Consensus       239 n~Kve~LQ~dl~sm~~EI  256 (348)
                      ..+++.++.++..+..++
T Consensus       701 ~~~i~~l~~~~~~l~eel  718 (895)
T PRK01156        701 ESTIEILRTRINELSDRI  718 (895)
T ss_pred             HHHHHHHHhhHHHHHHHH
Confidence            333333333333333333

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=90.79  E-value=7.4  Score=38.99  Aligned_cols=10  Identities=20%  Similarity=0.331  Sum_probs=5.2

Q ss_pred             hhhHHHhhhh
Q 018954           65 PLVQSLIDRK   74 (348)
Q Consensus        65 PLveSlmdrk   74 (348)
                      ++++..+++-
T Consensus        81 ~v~~~vi~~l   90 (498)
T TIGR03007        81 PNLEKVIRML   90 (498)
T ss_pred             HHHHHHHHHc
Confidence            4555555544

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=90.78  E-value=7.1  Score=43.29  Aligned_cols=114  Identities=21%  Similarity=0.246  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHHHHHH---------HHhhhHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHhhHHHHHHHhH
Q 018954          153 EELVALREQVEDLQR---------KMFEKDELLKSLESS-----------KSQVNAVHLKLDELKRLAAEKDSLIKSTQL  212 (348)
Q Consensus       153 eEl~~LreQVeeLqk---------KL~EKDelLkSae~~-----------~~em~a~~akvDELr~qlaeKe~likStq~  212 (348)
                      .|--+||-++.-|++         .|.||||++.-+-.-           .+.|.-|.||+-+--..++.+--+|.-+++
T Consensus       423 kERDalr~e~kslk~ela~~l~~DeLaEkdE~I~~lm~EGEkLSK~ql~qs~iIkKLRAk~ke~etl~~K~ge~i~~L~s  502 (961)
T KOG4673|consen  423 KERDALRREQKSLKKELAAALLKDELAEKDEIINQLMAEGEKLSKKQLAQSAIIKKLRAKIKEAETLEEKKGELITKLQS  502 (961)
T ss_pred             HhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhhHHHHHhhhHHHHHHH
Confidence            355567777664443         466799988765322           377888999999888888888899999999


Q ss_pred             HhhHHHHhhhhHHHHHHHHHHHHHHh-hhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          213 QLSDAKIKLADKQAALEKSQWEAMTV-SRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       213 QLsdaki~LadKqAaLEKlewEa~ts-n~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ++.--|.-|++|.+ .||+..|.... +--+.+-..+.+..++.|..|......|-
T Consensus       503 E~~~lk~il~~Kee-~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~q  557 (961)
T KOG4673|consen  503 EENKLKSILRDKEE-TEKLLQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQ  557 (961)
T ss_pred             HHHHHHHHhhhHHH-HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence            99999999999975 57777775432 22233333444444555554444444433

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=90.77  E-value=11  Score=33.17  Aligned_cols=16  Identities=6%  Similarity=0.152  Sum_probs=6.9

Q ss_pred             hHHHHHHHHHHHHHHh
Q 018954          223 DKQAALEKSQWEAMTV  238 (348)
Q Consensus       223 dKqAaLEKlewEa~ts  238 (348)
                      +.+..++.+.|++...
T Consensus       155 ~~~~~~~~~~~~~~~~  170 (191)
T PF04156_consen  155 DSREEVQELRSQLERL  170 (191)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3334444444444433

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=90.65  E-value=27  Score=38.15  Aligned_cols=35  Identities=29%  Similarity=0.443  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHhhcC--CHHHHHHHHHHHHhhhhh
Q 018954          303 MEEAREAYITAVAMAKEKQ--DEESMATAARARLHLQSF  339 (348)
Q Consensus       303 mE~aR~aY~aAvaaAKenp--~eEsl~~aAeaR~~LQ~f  339 (348)
                      .+....+-+.||+|.+++-  -|.+  +.||-|..|--|
T Consensus       585 ~~~~~e~L~~aL~amqdk~~~LE~s--LsaEtriKldLf  621 (697)
T PF09726_consen  585 SEKDTEVLMSALSAMQDKNQHLENS--LSAETRIKLDLF  621 (697)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHH
Confidence            3556778889999988764  3444  456667666555

; GO: 0016021 integral to membrane

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=90.18  E-value=16  Score=39.34  Aligned_cols=85  Identities=21%  Similarity=0.295  Sum_probs=59.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhH----------Hhh
Q 018954          150 KEIEELVALREQVEDLQRKMFE----KDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQL----------QLS  215 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~E----KDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~----------QLs  215 (348)
                      .-.+|+.+|+.+++.|..+|-.    ++.+=+-....+.++..+..++.++.....+..+|+..+++          |=+
T Consensus        84 ~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~  163 (617)
T PF15070_consen   84 QLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNR  163 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHH
Confidence            4456788888888888876544    33332222344678888899999999999999999887773          445


Q ss_pred             HHHHhhhhHHHHHHHHHHH
Q 018954          216 DAKIKLADKQAALEKSQWE  234 (348)
Q Consensus       216 daki~LadKqAaLEKlewE  234 (348)
                      +-|..|+++|-+.-+|-.+
T Consensus       164 eLK~QL~Elq~~Fv~ltne  182 (617)
T PF15070_consen  164 ELKEQLAELQDAFVKLTNE  182 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            5677777777766665444

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=89.91  E-value=7.3  Score=39.01  Aligned_cols=60  Identities=17%  Similarity=0.216  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhh
Q 018954          156 VALREQVEDLQRKMFEKDELLKSLESS------------KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLS  215 (348)
Q Consensus       156 ~~LreQVeeLqkKL~EKDelLkSae~~------------~~em~a~~akvDELr~qlaeKe~likStq~QLs  215 (348)
                      .-|..|+..++++|.+.+..|+.-...            .++++.++.++..++.++++-++.+.+++.+|.
T Consensus       164 ~fl~~ql~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l~  235 (498)
T TIGR03007       164 RFIDEQIKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDALKRQLG  235 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345667777777777777777665432            355666666666666666666666666665544

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=89.62  E-value=17  Score=40.34  Aligned_cols=114  Identities=21%  Similarity=0.321  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhH-HHHH---HHHHHHHHHHHHHHHHHHHHHHHHhhHHH-------HHHHhHHhhHHHHhhh
Q 018954          154 ELVALREQVEDLQRKMFEKD-ELLK---SLESSKSQVNAVHLKLDELKRLAAEKDSL-------IKSTQLQLSDAKIKLA  222 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKD-elLk---Sae~~~~em~a~~akvDELr~qlaeKe~l-------ikStq~QLsdaki~La  222 (348)
                      ....+...++.+.-.|..|+ |++.   -++..-++-+....-||-|+-+++.|+.=       |..+...|..++.+|.
T Consensus       281 ~~~~mK~k~d~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~  360 (775)
T PF10174_consen  281 HSLAMKSKMDRLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLE  360 (775)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            34455566888888888888 3222   22223344444466667777666666543       3445566777888888


Q ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          223 DKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       223 dKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      -|++.+++++-|.-+-.-.+++|.+-++..+.+|+.|..-+++|.
T Consensus       361 kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Le  405 (775)
T PF10174_consen  361 KKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLE  405 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888888888888888888888887776655

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=89.52  E-value=15  Score=42.07  Aligned_cols=115  Identities=23%  Similarity=0.325  Sum_probs=73.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH---------------------------------HHHHHHHHHHHHHH
Q 018954          151 EIEELVALREQVEDLQRKMFEKDELLKSLESSK---------------------------------SQVNAVHLKLDELK  197 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDelLkSae~~~---------------------------------~em~a~~akvDELr  197 (348)
                      +.+.+...+-|++.-|+.|..=+..|++++.+.                                 .++..+...|.|++
T Consensus       675 ~l~~l~~~~~~~~~~q~el~~le~eL~~le~~~~kf~~l~~ql~l~~~~l~l~~~r~~~~e~~~~~~~~~~~~e~v~e~~  754 (1174)
T KOG0933|consen  675 QLQKLKQAQKELRAIQKELEALERELKSLEAQSQKFRDLKQQLELKLHELALLEKRLEQNEFHKLLDDLKELLEEVEESE  754 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHHHHH
Confidence            344677777777777777777777777777663                                 66777778888888


Q ss_pred             HHHHhhHHHHHHHhHHhhHHHHh-----------hhhHHHHHHHHHH-------HHHHhhhHHHHHHHHHhhhhhhHHHH
Q 018954          198 RLAAEKDSLIKSTQLQLSDAKIK-----------LADKQAALEKSQW-------EAMTVSRKAEKLQEEVESMQGEMSSF  259 (348)
Q Consensus       198 ~qlaeKe~likStq~QLsdaki~-----------LadKqAaLEKlew-------Ea~tsn~Kve~LQ~dl~sm~~EIssl  259 (348)
                      .++-+++..++..+...+.-..+           |.|.+.-+..+..       +...+..=++.||-+.+.|+.||++.
T Consensus       755 ~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~  834 (1174)
T KOG0933|consen  755 QQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSL  834 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88989988888877766433222           2222222222222       22223333556777888888888877


Q ss_pred             HHHHHH
Q 018954          260 MQIFEG  265 (348)
Q Consensus       260 m~~fe~  265 (348)
                      ..+++.
T Consensus       835 k~~l~~  840 (1174)
T KOG0933|consen  835 KQQLEQ  840 (1174)
T ss_pred             HHHHHH
Confidence            776654

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=89.25  E-value=4.4  Score=38.28  Aligned_cols=86  Identities=20%  Similarity=0.220  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHH
Q 018954          182 SKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQ  261 (348)
Q Consensus       182 ~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~  261 (348)
                      -.++|+.|.-++-|.+-+++-|+.=|-|+-.||.+++..|..+...+-.++--+-+.+...+..++++.....|++.|+.
T Consensus         8 k~GEIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~~~Ea~lLre   87 (202)
T PF06818_consen    8 KSGEISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRKKNEAELLRE   87 (202)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHHhCHHHHhhh
Confidence            35789999999999999999999999999999999999999999999999988888999999999999999999988888


Q ss_pred             HHHHhh
Q 018954          262 IFEGLI  267 (348)
Q Consensus       262 ~fe~it  267 (348)
                      .+..|.
T Consensus        88 kl~~le   93 (202)
T PF06818_consen   88 KLGQLE   93 (202)
T ss_pred             hhhhhH
Confidence            775543

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=89.10  E-value=2.9  Score=41.60  Aligned_cols=85  Identities=25%  Similarity=0.265  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHH----HHHHHHHHHHHHHHHH-------HHHHHHHHh-hHHHHHHHhHHhhHHHHhh
Q 018954          154 ELVALREQVEDLQRKMFEKDELLK----SLESSKSQVNAVHLKL-------DELKRLAAE-KDSLIKSTQLQLSDAKIKL  221 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLk----Sae~~~~em~a~~akv-------DELr~qlae-Ke~likStq~QLsdaki~L  221 (348)
                      ++..-..||..|...|..|-+=+.    .+.++.+++..++.++       ++|.+.|.. |++.- .++.+|++-+-+-
T Consensus       207 QL~~An~qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~-~L~aEL~elqdkY  285 (306)
T PF04849_consen  207 QLSEANQQIASLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQR-QLQAELQELQDKY  285 (306)
T ss_pred             HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            344444566666666655543221    1222233333333332       344433322 33332 2456666666666


Q ss_pred             hhHHHHHHHHHHHHHHhh
Q 018954          222 ADKQAALEKSQWEAMTVS  239 (348)
Q Consensus       222 adKqAaLEKlewEa~tsn  239 (348)
                      ++-.++|.-.|=|+++-.
T Consensus       286 ~E~~~mL~EaQEElk~lR  303 (306)
T PF04849_consen  286 AECMAMLHEAQEELKTLR  303 (306)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            666666666666665543

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>smart00787 Spc7 Spc7 kinetochore protein

Probab=89.06  E-value=25  Score=34.77  Aligned_cols=114  Identities=16%  Similarity=0.191  Sum_probs=50.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHH-HHHHHH-----------HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLK-SLESSK-----------SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDA  217 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLk-Sae~~~-----------~em~a~~akvDELr~qlaeKe~likStq~QLsda  217 (348)
                      .|.+-|..-.+.|+++.-+|.+|-..|+ .+.++.           +++..++++|.++..++..|-..+...+.||+.-
T Consensus       158 ~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l  237 (312)
T smart00787      158 EDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQEL  237 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555566666666666666665544433 223322           3344444444444444444444444444444443


Q ss_pred             HHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHh
Q 018954          218 KIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGL  266 (348)
Q Consensus       218 ki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~i  266 (348)
                      ...+.+..+-...++=++..-.+.+++-++   -=..||+.|...|+.|
T Consensus       238 ~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~---~t~~Ei~~Lk~~~~~L  283 (312)
T smart00787      238 ESKIEDLTNKKSELNTEIAEAEKKLEQCRG---FTFKEIEKLKEQLKLL  283 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHH
Confidence            333333333333333333322222221110   1123677777776553

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

>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=88.73  E-value=20  Score=33.36  Aligned_cols=107  Identities=12%  Similarity=0.228  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHH----HHHHHHH
Q 018954          158 LREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQA----ALEKSQW  233 (348)
Q Consensus       158 LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqA----aLEKlew  233 (348)
                      .+++|+.+.   .||.+++...+.+..++..+....+.+.++++.-+.-|.+++.|+.+......+.-.    ++..|+-
T Consensus        40 sQ~~id~~~---~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~  116 (251)
T PF11932_consen   40 SQKRIDQWD---DEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQ  116 (251)
T ss_pred             HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444443   367888888888888888888888888888888888888888888888766655554    4444544


Q ss_pred             HHH--------HhhhHHHHHHHHHhhhhhhHH-HHHHHHHHhh
Q 018954          234 EAM--------TVSRKAEKLQEEVESMQGEMS-SFMQIFEGLI  267 (348)
Q Consensus       234 Ea~--------tsn~Kve~LQ~dl~sm~~EIs-slm~~fe~it  267 (348)
                      -|.        .+-..++.|..-|+.-+.-.+ .|+.+++.+.
T Consensus       117 ~v~~d~Pf~~~eR~~Rl~~L~~~l~~~dv~~~ek~r~vlea~~  159 (251)
T PF11932_consen  117 FVELDLPFLLEERQERLARLRAMLDDADVSLAEKFRRVLEAYQ  159 (251)
T ss_pred             HHhcCCCCChHHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHH
Confidence            222        355677777777777666555 6888887644

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.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=88.69  E-value=16  Score=32.14  Aligned_cols=106  Identities=22%  Similarity=0.384  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQW  233 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlew  233 (348)
                      |+..++.++..|++++.+-++.+....   .+...+......++..+.....-+++......+....+.+.+..+...+.
T Consensus        82 e~~~~~~~l~~l~~el~~l~~~~~~~~---~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~  158 (191)
T PF04156_consen   82 ELSELQQQLQQLQEELDQLQERIQELE---SELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDSRE  158 (191)
T ss_pred             hHHhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555444333332222   23333333333333444444444444444444444444444445555555


Q ss_pred             HHHHhhhHHHHHHHHHhhhhhhHHHHHHH
Q 018954          234 EAMTVSRKAEKLQEEVESMQGEMSSFMQI  262 (348)
Q Consensus       234 Ea~tsn~Kve~LQ~dl~sm~~EIsslm~~  262 (348)
                      ++..-..=+..++.+.......|.....+
T Consensus       159 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~l  187 (191)
T PF04156_consen  159 EVQELRSQLERLQENLQQLEEKIQELQEL  187 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555444444433

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=88.48  E-value=13  Score=39.58  Aligned_cols=60  Identities=13%  Similarity=0.195  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHh
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESS------------KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQL  214 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~------------~~em~a~~akvDELr~qlaeKe~likStq~QL  214 (348)
                      ..-|.+|+.+|+++|.+.|..|..-...            ..+|+.++.++-..+.+.++.+....+++.+|
T Consensus       196 ~~~L~~ql~~l~~~l~~aE~~l~~fk~~~~l~~~~~~~~~~~~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l  267 (754)
T TIGR01005       196 ADFLAPEIADLSKQSRDAEAEVAAYRAQSDLLMGNNATLATQQLAELNTELSRARANRAAAEGTADSVKKAL  267 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4668999999999999999888776543            25666666666666665555555555544443

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=88.46  E-value=21  Score=40.42  Aligned_cols=84  Identities=17%  Similarity=0.196  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH-HHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMS-SFMQI  262 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs-slm~~  262 (348)
                      -+.......+|++.++..+++..|.-.+-+.+.+.-|.-+.--+||+++.|....-.++++||..+++....=+ ++..+
T Consensus       452 kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq~~~~~~~qs~~~~~~~l  531 (980)
T KOG0980|consen  452 KQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQELALLLIELEELQRTLSNLAQSHNNQLAQL  531 (980)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            45555556677777888888888888999999988899999999999999999999999999999777655444 44433


Q ss_pred             HHHhh
Q 018954          263 FEGLI  267 (348)
Q Consensus       263 fe~it  267 (348)
                      -+.+.
T Consensus       532 ~~~l~  536 (980)
T KOG0980|consen  532 EDLLK  536 (980)
T ss_pred             HHHHH
Confidence            33333

>PRK04863 mukB cell division protein MukB; Provisional

Probab=88.43  E-value=19  Score=42.56  Aligned_cols=32  Identities=19%  Similarity=0.309  Sum_probs=18.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 018954          151 EIEELVALREQVEDLQRKMFEKDELLKSLESS  182 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDelLkSae~~  182 (348)
                      -.||....+.+..+..++|.+++.-|..++..
T Consensus       284 liEEAag~r~rk~eA~kkLe~tE~nL~rI~di  315 (1486)
T PRK04863        284 HLEEALELRRELYTSRRQLAAEQYRLVEMARE  315 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666655555443

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

Probab=88.15  E-value=20  Score=34.58  Aligned_cols=156  Identities=21%  Similarity=0.234  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHH--hhhhHHHHHHHHHHHHHH
Q 018954          160 EQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKI--KLADKQAALEKSQWEAMT  237 (348)
Q Consensus       160 eQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki--~LadKqAaLEKlewEa~t  237 (348)
                      ++.++|++...|++.+.+.++...-++..+..++-.+...+.+=..-++.++..|..++-  ++.+.+-.+..++....+
T Consensus        28 ~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~  107 (239)
T COG1579          28 EIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINS  107 (239)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHH
Confidence            667778888888887777777776666666666666666666655666666666633321  222233333334455555


Q ss_pred             hhhHHHHHHHHHhhhhhhHHHHHHHHHHhhhcCCCCCCCCCCCCCccccCCCCCCCCCChHHHHHHHHHHHHHHHHHHHH
Q 018954          238 VSRKAEKLQEEVESMQGEMSSFMQIFEGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAMA  317 (348)
Q Consensus       238 sn~Kve~LQ~dl~sm~~EIsslm~~fe~it~N~S~~~~ded~d~~~~~~e~l~~~de~~~~e~ekmE~aR~aY~aAvaaA  317 (348)
                      -++.+.+|.+.+..++.+|..+..-+..+..+-....                   .-.+.++.++.+.+..|..=-.--
T Consensus       108 le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~-------------------~~~e~e~~~i~e~~~~~~~~~~~L  168 (239)
T COG1579         108 LEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAE-------------------ARLEEEVAEIREEGQELSSKREEL  168 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555544442211111                   112456677777777666666655


Q ss_pred             hhcCCHHHHHHHHHHHH
Q 018954          318 KEKQDEESMATAARARL  334 (348)
Q Consensus       318 Kenp~eEsl~~aAeaR~  334 (348)
                      ++.-+.+.|..=..-|+
T Consensus       169 ~~~l~~ell~~yeri~~  185 (239)
T COG1579         169 KEKLDPELLSEYERIRK  185 (239)
T ss_pred             HHhcCHHHHHHHHHHHh
Confidence            66666666555444443

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=88.04  E-value=21  Score=38.62  Aligned_cols=101  Identities=23%  Similarity=0.301  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHHHHHhhHHHHHH
Q 018954          158 LREQVEDLQRKMFEKDELLKSLESS----------------------------KSQVNAVHLKLDELKRLAAEKDSLIKS  209 (348)
Q Consensus       158 LreQVeeLqkKL~EKDelLkSae~~----------------------------~~em~a~~akvDELr~qlaeKe~likS  209 (348)
                      +-.+|++|+++..+=.+.+.+++-.                            +..+-..-.+|..|+.++.+||.-|+.
T Consensus       233 i~~~ie~l~~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~  312 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEK  312 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5567778888777777766655543                            133344556788999999999999999


Q ss_pred             HhHHhhHHHHhhh----------hHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHH
Q 018954          210 TQLQLSDAKIKLA----------DKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSS  258 (348)
Q Consensus       210 tq~QLsdaki~La----------dKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIss  258 (348)
                      +|.+-.+-|..+-          .|.+-.++|++++-.-+.+.+.|+..+-+..-+|..
T Consensus       313 lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~  371 (581)
T KOG0995|consen  313 LQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIED  371 (581)
T ss_pred             HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            9998887765543          366777888888888888888888888887777663

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=87.93  E-value=4.8  Score=31.96  Aligned_cols=48  Identities=25%  Similarity=0.338  Sum_probs=23.5

Q ss_pred             HHHHHHhhhHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 018954          164 DLQRKMFEKDELLKSL----ESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQ  211 (348)
Q Consensus       164 eLqkKL~EKDelLkSa----e~~~~em~a~~akvDELr~qlaeKe~likStq  211 (348)
                      .|.++|.|||+.+.-+    +.+...-.....+|.-||.+..+=+.-|..+.
T Consensus         2 sl~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~   53 (74)
T PF12329_consen    2 SLEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELK   53 (74)
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556666666543322    33344444445555555555555444444433

The whole 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. 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.

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=87.86  E-value=11  Score=32.80  Aligned_cols=47  Identities=21%  Similarity=0.249  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHH-HHhHHhhHHHHhhhhHHHHH
Q 018954          181 SSKSQVNAVHLKLDELKRLAAEKDSLIK-STQLQLSDAKIKLADKQAAL  228 (348)
Q Consensus       181 ~~~~em~a~~akvDELr~qlaeKe~lik-Stq~QLsdaki~LadKqAaL  228 (348)
                      +....++.|+++|+++++.+.. +.+.+ -++.+|..+++.-|--+..|
T Consensus        55 s~~qr~~eLqaki~ea~~~le~-eK~ak~~l~~r~~k~~~dka~lel~l  102 (107)
T PF09304_consen   55 SRNQRIAELQAKIDEARRNLED-EKQAKLELESRLLKAQKDKAILELKL  102 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            3357778888888888888776 66666 77778887777766555544

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

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

Probab=87.61  E-value=21  Score=41.02  Aligned_cols=34  Identities=26%  Similarity=0.393  Sum_probs=28.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSK  183 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~  183 (348)
                      .-++.|..+.+.|..|+|++.|..+.|+.++++.
T Consensus       225 ~~~~~i~~~~e~i~~l~k~i~e~~e~~~~~~~~e  258 (1074)
T KOG0250|consen  225 HAKELIDLKEEEIKNLKKKIKEEEEKLDNLEQLE  258 (1074)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3456777888899999999999999999887774

>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins

Probab=87.41  E-value=16  Score=31.27  Aligned_cols=104  Identities=22%  Similarity=0.235  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKS  231 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKl  231 (348)
                      ..++..|..+.+.|-...++++.-   ++..++++...+..+..|+.++.+|..-.+......        +-.+.+.+|
T Consensus        33 ~~~~~~l~~~n~~lAe~nL~~~~~---l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~--------s~~~l~~~L  101 (150)
T PF07200_consen   33 QQEREELLAENEELAEQNLSLEPE---LEELRSQLQELYEELKELESEYQEKEQQQDELSSNY--------SPDALLARL  101 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH--------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccchH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC--------CHHHHHHHH
Confidence            344555555555555555555433   333445555666666666666666655444432222        234667777


Q ss_pred             HHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHh
Q 018954          232 QWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGL  266 (348)
Q Consensus       232 ewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~i  266 (348)
                      +-.+.......+.|-+..-.=..++..|-..|...
T Consensus       102 ~~~~~e~eeeSe~lae~fl~g~~d~~~Fl~~f~~~  136 (150)
T PF07200_consen  102 QAAASEAEEESEELAEEFLDGEIDVDDFLKQFKEK  136 (150)
T ss_dssp             HHHHHHHHHHHHHHC-S-SSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            77777777778777444433344556777777543

The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=87.26  E-value=19  Score=35.43  Aligned_cols=48  Identities=10%  Similarity=0.221  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHh
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESS-------------KSQVNAVHLKLDELKRLAAE  202 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~-------------~~em~a~~akvDELr~qlae  202 (348)
                      +.-|.+|+.+++++|.+-+..|..-...             ..+++.++.++-..+.++.+
T Consensus       173 ~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~i~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  233 (444)
T TIGR03017       173 ALWFVQQIAALREDLARAQSKLSAYQQEKGIVSSDERLDVERARLNELSAQLVAAQAQVMD  233 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCcccchHHHHHHHHHHHHHHHHHHHHH
Confidence            5568899999999999999988875553             24455555555555544443

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=86.99  E-value=25  Score=37.69  Aligned_cols=104  Identities=14%  Similarity=0.242  Sum_probs=79.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALE  229 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLE  229 (348)
                      ..-.|+..++--|++-.+.          -..+..++..+...+++|++.+.++...+..++..+.+.---|++++|.+.
T Consensus        89 ~ye~El~~ar~~l~e~~~~----------ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~  158 (546)
T KOG0977|consen   89 KYEAELATARKLLDETARE----------RAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEIN  158 (546)
T ss_pred             HhhhhHHHHHHHHHHHHHH----------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHH
Confidence            4445777777766655443          344567888888888899999999888888888888888888888888888


Q ss_pred             HHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          230 KSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       230 KlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      -+-+-+..-...+..|..+.+-+..+|.....++
T Consensus       159 ~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l  192 (546)
T KOG0977|consen  159 TLKRRIKALEDELKRLKAENSRLREELARARKQL  192 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            8888887777777777777777777777666544

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=86.82  E-value=18  Score=37.90  Aligned_cols=36  Identities=22%  Similarity=0.315  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 018954          176 LKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQ  211 (348)
Q Consensus       176 LkSae~~~~em~a~~akvDELr~qlaeKe~likStq  211 (348)
                      +.++..+..++..+.+.++++...+.++..-...++
T Consensus       347 ~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~  382 (569)
T PRK04778        347 LESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQ  382 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHH
Confidence            555556666666666666655555555544333333

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=86.72  E-value=22  Score=40.51  Aligned_cols=101  Identities=21%  Similarity=0.381  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHH-H
Q 018954          157 ALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE-A  235 (348)
Q Consensus       157 ~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewE-a  235 (348)
                      .|+++++.+..+|.......+.+   ..++.+.+.++++++.++.....-++..+..+...+..+...+..++..--+ .
T Consensus       604 ~L~~~l~~~~~~l~~~~~~~~~~---e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  680 (1201)
T PF12128_consen  604 ELRERLEQAEDQLQSAEERQEEL---EKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEERK  680 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666665555444333   3444556666777777776666666666666655555554444444332222 2


Q ss_pred             HHhhhHHHHHHHHHhhhhhhHHHHH
Q 018954          236 MTVSRKAEKLQEEVESMQGEMSSFM  260 (348)
Q Consensus       236 ~tsn~Kve~LQ~dl~sm~~EIsslm  260 (348)
                      ....+++..+..++.....++..+.
T Consensus       681 ~~~~~~l~~l~~~l~~~~~e~~~~~  705 (1201)
T PF12128_consen  681 EQIEEQLNELEEELKQLKQELEELL  705 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2344444444444444444444433

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.67  E-value=14  Score=34.60  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=17.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKD  173 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKD  173 (348)
                      --++-+-.|+.|+.+|+.+|.+-+
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455677788888888888877743

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=86.65  E-value=18  Score=35.65  Aligned_cols=82  Identities=21%  Similarity=0.235  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHHh-hHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhH---HHHHHHHHhhhhhhHHHH
Q 018954          184 SQVNAVHLKLDELKRLAAE-KDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRK---AEKLQEEVESMQGEMSSF  259 (348)
Q Consensus       184 ~em~a~~akvDELr~qlae-Ke~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~K---ve~LQ~dl~sm~~EIssl  259 (348)
                      -.|..+.++++++++++.. -..++.+.+..+..++..+++.++.++.++-++..-+.+   ...|+-|++.-+.-..+|
T Consensus       282 P~v~~l~~~i~~l~~~l~~e~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~L~r~~~~~~~~y~~l  361 (444)
T TIGR03017       282 PQYKRAQAEINSLKSQLNAEIKKVTSSVGTNSRILKQREAELREALENQKAKVLELNRQRDEMSVLQRDVENAQRAYDAA  361 (444)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555432 234445555555555555666666666655555544433   233444444444444444


Q ss_pred             HHHHHH
Q 018954          260 MQIFEG  265 (348)
Q Consensus       260 m~~fe~  265 (348)
                      ...++.
T Consensus       362 l~r~~e  367 (444)
T TIGR03017       362 MQRYTQ  367 (444)
T ss_pred             HHHHHH
Confidence            444433

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=86.55  E-value=22  Score=32.35  Aligned_cols=91  Identities=14%  Similarity=0.233  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHH-HHHHHHHhhhHHHHHHHHHh
Q 018954          172 KDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEK-SQWEAMTVSRKAEKLQEEVE  250 (348)
Q Consensus       172 KDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEK-lewEa~tsn~Kve~LQ~dl~  250 (348)
                      |+++..-+|.+..+...+...|++++.++++==.-+-.+...-.-|+..|++--....+ .|-+++.-=.+|..+|.+|.
T Consensus        15 K~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~lQ~~L~   94 (159)
T PF05384_consen   15 KEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHELQVRLA   94 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHH
Confidence            45555555555666666666666666666665555556666666666666665555544 45566666666666666666


Q ss_pred             hhhhhHHHHHHH
Q 018954          251 SMQGEMSSFMQI  262 (348)
Q Consensus       251 sm~~EIsslm~~  262 (348)
                      .++.+-..|+.-
T Consensus        95 ~~re~E~qLr~r  106 (159)
T PF05384_consen   95 MLREREKQLRER  106 (159)
T ss_pred             HHHHHHHHHHHH
Confidence            666666655543

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=86.51  E-value=29  Score=33.64  Aligned_cols=60  Identities=10%  Similarity=0.117  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESS------KSQVNAVHLKLDELKRLAAEKDSLIKSTQ  211 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~------~~em~a~~akvDELr~qlaeKe~likStq  211 (348)
                      ++-+.-|++||+.++++|.+-+..|..-...      ..+..+....+.+|+.++++-+.-+..+.
T Consensus       169 ~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~  234 (362)
T TIGR01010       169 KDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLR  234 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455678899999999999888887766553      13344444555555555555554444443

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=86.12  E-value=33  Score=40.59  Aligned_cols=31  Identities=16%  Similarity=0.112  Sum_probs=19.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSK  183 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~  183 (348)
                      +..+|...|-|++-..+   .+|.++++.++...
T Consensus       276 r~~eERR~liEEAag~r---~rk~eA~kkLe~tE  306 (1486)
T PRK04863        276 RHANERRVHLEEALELR---RELYTSRRQLAAEQ  306 (1486)
T ss_pred             hCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            55677788888886655   44555555555443

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=86.03  E-value=25  Score=37.14  Aligned_cols=72  Identities=13%  Similarity=0.166  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADK  224 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadK  224 (348)
                      +.++..+.+++++|.++|..-+.- ..++....++..+..++++++.++.....-|+....++...+..+...
T Consensus       397 ~~~~~~~e~el~~l~~~l~~~~~~-e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  468 (650)
T TIGR03185       397 LKELRELEEELAEVDKKISTIPSE-EQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLDEK  468 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666666432110 123334455555555555555555555555555555555544444333

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=86.02  E-value=20  Score=35.18  Aligned_cols=94  Identities=21%  Similarity=0.308  Sum_probs=50.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALE  229 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLE  229 (348)
                      ...+++..+.++++.|++   |.+++++.++.+..+-..+.+.+..|..+..+.+......-.+....+..+.+.+-.++
T Consensus        40 ~~~~~~~~~~~el~~le~---Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~  116 (314)
T PF04111_consen   40 DSEEDIEELEEELEKLEQ---EEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERD  116 (314)
T ss_dssp             --HH--HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566666666666654   44555555666666666666666666666666555555555555555555555555444


Q ss_pred             HHHHHHHHhhhHHHHHH
Q 018954          230 KSQWEAMTVSRKAEKLQ  246 (348)
Q Consensus       230 KlewEa~tsn~Kve~LQ  246 (348)
                      .++-..-..+..+++|+
T Consensus       117 sl~~q~~~~~~~L~~L~  133 (314)
T PF04111_consen  117 SLKNQYEYASNQLDRLR  133 (314)
T ss_dssp             HHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444444444444444

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 []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=85.97  E-value=32  Score=39.19  Aligned_cols=59  Identities=17%  Similarity=0.223  Sum_probs=35.8

Q ss_pred             HHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          205 SLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       205 ~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      .-|...|++|.+++|.|.+-.+-|++++-|+--.-+-+-..=++|-+.--+|..|.-+|
T Consensus       127 ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L~nk~~~lt~~~~q~  185 (1265)
T KOG0976|consen  127 DTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDLHDKNEELNEFNMEF  185 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHhHHHHHH
Confidence            34566677777777777777777777777764443333333344555555555555444

>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle

Probab=85.94  E-value=6.6  Score=39.53  Aligned_cols=72  Identities=26%  Similarity=0.362  Sum_probs=56.5

Q ss_pred             hhHHHHHHHHHHH---HHHHHHHhhh---HHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHhhHHHHH
Q 018954          150 KEIEELVALREQV---EDLQRKMFEK---DELLKSLESS---------------KSQVNAVHLKLDELKRLAAEKDSLIK  208 (348)
Q Consensus       150 kd~eEl~~LreQV---eeLqkKL~EK---DelLkSae~~---------------~~em~a~~akvDELr~qlaeKe~lik  208 (348)
                      ..+++-..|++-|   |.+++||.|+   +-+|..+...               -.++-.|+.+|++|+++|.+.+..++
T Consensus       120 ~~~e~r~~lk~RI~rSEAFKRKllE~kYD~~mL~qLr~g~~~~~~~~~~~~~~~~D~v~LLqkk~~~l~~~l~~~~~eL~  199 (323)
T PF08537_consen  120 SGREERRLLKDRILRSEAFKRKLLEKKYDKRMLEQLRRGRSKNRHNRPRNPSSNSDRVILLQKKIDELEERLNDLEKELE  199 (323)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhcCCCCCCcccccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555656666655   7899999999   3477766544               27899999999999999999999999


Q ss_pred             HHhHHhhHHHHhh
Q 018954          209 STQLQLSDAKIKL  221 (348)
Q Consensus       209 Stq~QLsdaki~L  221 (348)
                      +|+--|.=|+-+-
T Consensus       200 ~~~k~L~faqekn  212 (323)
T PF08537_consen  200 ITKKDLKFAQEKN  212 (323)
T ss_pred             HHHHHHHHHHHHH
Confidence            9888887776443

>PRK10884 SH3 domain-containing protein; Provisional

Probab=85.65  E-value=17  Score=34.04  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSL  179 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSa  179 (348)
                      ....+++++..|+++|.+=..-|..+
T Consensus        87 ~~p~~~~rlp~le~el~~l~~~l~~~  112 (206)
T PRK10884         87 TTPSLRTRVPDLENQVKTLTDKLNNI  112 (206)
T ss_pred             CCccHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567777777777766544444333

>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking

Probab=85.55  E-value=26  Score=31.26  Aligned_cols=61  Identities=23%  Similarity=0.290  Sum_probs=54.5

Q ss_pred             HhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhhhcC
Q 018954          210 TQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKND  270 (348)
Q Consensus       210 tq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it~N~  270 (348)
                      .+.++..+...|.-|++.++|+.+.-..+..|++.++.++...+.-+..+..-|+.|+++.
T Consensus       133 ~~~~~~~a~~~l~kkk~~~~kl~~~~~~~~~k~~~~~~ei~~~~~~~~~~~~~~~~is~~~  193 (236)
T PF09325_consen  133 KLIEYQNAEKELQKKKAQLEKLKASGKNRQDKVEQAENEIEEAERRVEQAKDEFEEISENI  193 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567788999999999999999998778899999999999999999999999999998653

This is the C-terminal dimerisation domain [].

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=85.50  E-value=8.9  Score=33.65  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=11.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHhh
Q 018954          151 EIEELVALREQVEDLQRKMFE  171 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~E  171 (348)
                      +.+|+..|..+|.+|+.+|.+
T Consensus        70 s~eel~~ld~ei~~L~~el~~   90 (169)
T PF07106_consen   70 SPEELAELDAEIKELREELAE   90 (169)
T ss_pred             CchhHHHHHHHHHHHHHHHHH
Confidence            445566665555555555443

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=85.27  E-value=36  Score=36.61  Aligned_cols=35  Identities=31%  Similarity=0.437  Sum_probs=27.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKS  184 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~  184 (348)
                      ....|+..|++||++|...+.+-+.-++.+.....
T Consensus       325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~  359 (594)
T PF05667_consen  325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSLK  359 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55678999999999999988888777777665543

>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p

Probab=85.26  E-value=30  Score=31.69  Aligned_cols=60  Identities=25%  Similarity=0.230  Sum_probs=50.0

Q ss_pred             hHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhhhcC
Q 018954          211 QLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIKND  270 (348)
Q Consensus       211 q~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it~N~  270 (348)
                      +..+..+...|.-|++.++||.+--.+...|+..++.+|...+........-|+.|+++.
T Consensus       114 ~~~~~~~~~~L~k~~~~~~Kl~~~~~s~~~K~~~~~~ei~~~e~~~~~a~~~~e~is~~~  173 (216)
T cd07627         114 WQYWQSAESELSKKKAQLEKLKRQGKTQQEKLNSLLSELEEAERRASELKKEFEEVSELI  173 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445667888899999999999874344578999999999999999999999999998553

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in

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

Probab=85.18  E-value=34  Score=32.21  Aligned_cols=83  Identities=17%  Similarity=0.246  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHh-------hhHHHHHHHHHhhhhhh
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTV-------SRKAEKLQEEVESMQGE  255 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~ts-------n~Kve~LQ~dl~sm~~E  255 (348)
                      ..+|..++..||.+..+-+.=+.-+..++.++.+.+.++-+-.+....++-++...       .....+|+..+..++.|
T Consensus        53 e~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eE  132 (312)
T PF00038_consen   53 EEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEE  132 (312)
T ss_dssp             HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHH
Confidence            45555555666665555555555555555555555555554444444444333322       22334577777777778


Q ss_pred             HHHHHHHHHH
Q 018954          256 MSSFMQIFEG  265 (348)
Q Consensus       256 Isslm~~fe~  265 (348)
                      |.-+...++.
T Consensus       133 l~fl~~~hee  142 (312)
T PF00038_consen  133 LEFLKQNHEE  142 (312)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHhhhhh
Confidence            8766666654

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 ....

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=84.67  E-value=19  Score=35.28  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=15.5

Q ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhh
Q 018954          244 KLQEEVESMQGEMSSFMQIFEGLIK  268 (348)
Q Consensus       244 ~LQ~dl~sm~~EIsslm~~fe~it~  268 (348)
                      .++++.+++...+......++.|.+
T Consensus       110 ~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen  110 EFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455566666666666666666663

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 []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8

Probab=84.64  E-value=37  Score=36.21  Aligned_cols=58  Identities=21%  Similarity=0.233  Sum_probs=41.9

Q ss_pred             CCccccCCCCCCCCCChHH-HHHHHHHHHHHHHHHHHH-----hhcCCHHHHHHHHHHHHhhhhh
Q 018954          281 IKPYYSDYLSDIDDLDDVE-MQRMEEAREAYITAVAMA-----KEKQDEESMATAARARLHLQSF  339 (348)
Q Consensus       281 ~~~~~~e~l~~~de~~~~e-~ekmE~aR~aY~aAvaaA-----Kenp~eEsl~~aAeaR~~LQ~f  339 (348)
                      +.|-.+..|.. ..+++.+ ++.+|.|=.+--.|+.+.     ...|+-..|.++.+-|..+...
T Consensus       100 i~~~~l~~L~~-~~l~~~~~l~~~e~a~~~L~~Al~~i~~~~~~~~~~~~~M~Av~er~~~~~~~  163 (701)
T PF09763_consen  100 IPEEHLEALRN-ASLSSPDGLEKIEEAAEALYKALKAIRPDLEKLDPGLGQMRAVKERREEYEKV  163 (701)
T ss_pred             CCHHHHHHHhc-CCCCCcccHHHHHHHHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHHHHHH
Confidence            44455566666 4454444 889998888777787772     5778888999999999887643

This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.

>PF14988 DUF4515: Domain of unknown function (DUF4515)

Probab=84.48  E-value=34  Score=31.93  Aligned_cols=67  Identities=22%  Similarity=0.268  Sum_probs=49.0

Q ss_pred             HHHHHHHHHH-HHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHH
Q 018954          183 KSQVNAVHLK-LDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFM  260 (348)
Q Consensus       183 ~~em~a~~ak-vDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm  260 (348)
                      ..++..-|+. +++|+.++.+++..+..++.+|..    |.+-+.-=++.++|+       ..|+.++.+|+.+.+.-.
T Consensus        38 r~~l~s~y~~q~~~Lq~qLlq~~k~~~~l~~eLq~----l~~~~~~k~~qe~eI-------~~Le~e~~~~~~e~~~~l  105 (206)
T PF14988_consen   38 RQELVSRYAKQTSELQDQLLQKEKEQAKLQQELQA----LKEFRRLKEQQEREI-------QTLEEELEKMRAEHAEKL  105 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence            4555555554 999999999999999999999865    455555556666665       567777778888877543

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=84.38  E-value=18  Score=41.10  Aligned_cols=128  Identities=10%  Similarity=0.085  Sum_probs=85.5

Q ss_pred             CCCCccccchhhhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhHHHHHH
Q 018954          134 DSDSFSIFSSRALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESS----KSQVNAVHLKLDELKRLAAEKDSLIKS  209 (348)
Q Consensus       134 ~~en~s~~~s~~~~~~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~----~~em~a~~akvDELr~qlaeKe~likS  209 (348)
                      -+.|+|+.+.++--  ---+|..-+|+-|..|...|.++...++-+...    ..+..++++++-.+..++.+-+-=|.+
T Consensus        68 aglneSviie~sk~--vstqetriyRrdv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~  145 (1265)
T KOG0976|consen   68 AGLNESVIIEQSKK--VSTQETRIYRRDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIEN  145 (1265)
T ss_pred             hhccchhhhhhcch--hhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35666665554321  112355566666666666666666666655544    466777888888888888888888888


Q ss_pred             HhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          210 TQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       210 tq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      +.+.||.-...|--|.--+-..=-++.-++.+..++..++--.-.|++.+-..+
T Consensus       146 ~~srlh~le~eLsAk~~eIf~~~~~L~nk~~~lt~~~~q~~tkl~e~~~en~~l  199 (1265)
T KOG0976|consen  146 LNSRLHKLEDELSAKAHDIFMIGEDLHDKNEELNEFNMEFQTKLAEANREKKAL  199 (1265)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHhHHHHHHHHHHHHHHHHHHHH
Confidence            888888877777766666666666677777777777777777777777655443

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=84.36  E-value=30  Score=36.28  Aligned_cols=78  Identities=15%  Similarity=0.222  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          186 VNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       186 m~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      +..+..++.++...+.+-..-|..-....+..+..+.+...-|+.++-+-+.-...++.|+.+-...+..|..|...+
T Consensus       350 ~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L  427 (569)
T PRK04778        350 VRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKL  427 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444433333333333344444444444444555555544444444444444444444444444444

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=84.32  E-value=39  Score=35.80  Aligned_cols=78  Identities=17%  Similarity=0.242  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHH
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKS  231 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKl  231 (348)
                      ..+..|+.++..++.+|.+-+.-|..+.. ..++..+..+++++.+.+.+-..-+...+.++...+..+...+.-+.++
T Consensus       391 ~~~~~~~~~~~~~e~el~~l~~~l~~~~~-~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  468 (650)
T TIGR03185       391 DAKSQLLKELRELEEELAEVDKKISTIPS-EEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLDEK  468 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555554444444332 2567777777777777777777777777777776666666666655554

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=84.02  E-value=26  Score=40.35  Aligned_cols=117  Identities=24%  Similarity=0.265  Sum_probs=71.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHH-----hhH
Q 018954          151 EIEELVALREQVEDLQRKMFEKDELLKSLESSKSQV---------------------NAVHLKLDELKRLAA-----EKD  204 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em---------------------~a~~akvDELr~qla-----eKe  204 (348)
                      =..+++.|++.|--|+..|-||-+.|.-+++-..+|                     ..-..++|+++.+..     =|+
T Consensus       175 L~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~ea~ra~~yrdeldalre~aer~d~~yke  254 (1195)
T KOG4643|consen  175 LEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDEAHRADRYRDELDALREQAERPDTTYKE  254 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhcCCCccch
Confidence            356999999999999999999999998877664222                     222334455554432     255


Q ss_pred             HHHHH--HhHHhhHHHH----hhhhHHHHHHHHH------------HHHHHhhhHHHHHHHHHh-------hhhhhHHHH
Q 018954          205 SLIKS--TQLQLSDAKI----KLADKQAALEKSQ------------WEAMTVSRKAEKLQEEVE-------SMQGEMSSF  259 (348)
Q Consensus       205 ~likS--tq~QLsdaki----~LadKqAaLEKle------------wEa~tsn~Kve~LQ~dl~-------sm~~EIssl  259 (348)
                      ++..|  .-.++-++|.    -|++|+-.=|+||            -|+.+=+.|..+|+.+.+       .+..|+++|
T Consensus       255 rlmDs~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eEnstL  334 (1195)
T KOG4643|consen  255 RLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEENSTL  334 (1195)
T ss_pred             hhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            66555  5555555444    4777776666644            455555666666654433       344455555


Q ss_pred             HHHHHHhh
Q 018954          260 MQIFEGLI  267 (348)
Q Consensus       260 m~~fe~it  267 (348)
                      |-+=+.|.
T Consensus       335 q~q~eqL~  342 (1195)
T KOG4643|consen  335 QVQKEQLD  342 (1195)
T ss_pred             HHHHHHhh
Confidence            55544444

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=83.71  E-value=3.8  Score=43.03  Aligned_cols=60  Identities=13%  Similarity=0.164  Sum_probs=49.7

Q ss_pred             HHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhhh
Q 018954          209 STQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIK  268 (348)
Q Consensus       209 Stq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it~  268 (348)
                      --|+-|.+.+.++.+.+.-|++|+-|+-+.+++..++|..|..++.||..|..+++.+..
T Consensus        66 VnqSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~  125 (475)
T PRK13729         66 VRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGA  125 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            446667777788888888888888888888888889999999999999999999876443

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=83.56  E-value=12  Score=33.30  Aligned_cols=116  Identities=16%  Similarity=0.240  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHH
Q 018954          151 EIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEK  230 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEK  230 (348)
                      .+..+-.+.++++.|+.+|-+-+.-|+.++.....+..|+++|++|+..+.....        -+++++.=-.+..||+.
T Consensus        18 ~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~--------~~e~~l~~~~~~~ai~~   89 (155)
T PF06810_consen   18 PKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKE--------EYEAKLAQMKKDSAIKS   89 (155)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
Confidence            4456667788999999999999999999999888899999999999988865332        22233333334566666


Q ss_pred             HHHHHHHhhhHHHHHHHHHhhhhhh---HHHHHHHHHHhhhcCCCCC
Q 018954          231 SQWEAMTVSRKAEKLQEEVESMQGE---MSSFMQIFEGLIKNDSTVN  274 (348)
Q Consensus       231 lewEa~tsn~Kve~LQ~dl~sm~~E---Isslm~~fe~it~N~S~~~  274 (348)
                      .=..+...|.|+-.-.-|++.+.+.   +.-|-.++..|.+++.--+
T Consensus        90 al~~akakn~~av~allD~d~l~l~~dg~~Gldeqi~~lkes~~yLF  136 (155)
T PF06810_consen   90 ALKGAKAKNPKAVKALLDLDKLKLDDDGLKGLDEQIKALKESDPYLF  136 (155)
T ss_pred             HHHHcCCCCHHHHHHhcCHHHeeeCCCccccHHHHHHHHHhcCchhc
Confidence            6666666777766555555554332   4456666666666554333

The function of this family is unknown.; GO: 0005198 structural molecule activity

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=83.46  E-value=34  Score=31.66  Aligned_cols=29  Identities=17%  Similarity=0.378  Sum_probs=23.0

Q ss_pred             hhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          239 SRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       239 n~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ...+.+|+.++..+..+|......|+.+.
T Consensus       158 ~~ei~~lks~~~~l~~~~~~~e~~F~~~~  186 (190)
T PF05266_consen  158 DKEISRLKSEAEALKEEIENAELEFQSVA  186 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35677888888888888888888888765

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=83.22  E-value=43  Score=31.84  Aligned_cols=39  Identities=26%  Similarity=0.344  Sum_probs=27.6

Q ss_pred             HhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH
Q 018954          219 IKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMS  257 (348)
Q Consensus       219 i~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs  257 (348)
                      ..+.+.++-+.+|+-++-....=++.||.++..++...-
T Consensus        82 ~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~~~  120 (246)
T PF00769_consen   82 QELREAEAEIARLEEESERKEEEAEELQEELEEAREDEE  120 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666677777777777777777788887777776544

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=82.80  E-value=37  Score=32.95  Aligned_cols=68  Identities=12%  Similarity=0.279  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHhh-------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHH
Q 018954          151 EIEELVALREQVEDLQRKMFE-------------KDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDA  217 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~E-------------KDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsda  217 (348)
                      -.+++..++.+++..+.+|.+             -......+..+..++..+..++.+++....+.---++.++.|+...
T Consensus       175 l~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~~~~~~~P~v~~l~~~i~~l  254 (362)
T TIGR01010       175 AENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRSITPEQNPQVPSLQARIKSL  254 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCchHHHHHHHHHH
Confidence            344566666666666655543             1123333444445555555555555544444333344444444333


Q ss_pred             H
Q 018954          218 K  218 (348)
Q Consensus       218 k  218 (348)
                      +
T Consensus       255 ~  255 (362)
T TIGR01010       255 R  255 (362)
T ss_pred             H
Confidence            3

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=82.58  E-value=35  Score=34.38  Aligned_cols=25  Identities=16%  Similarity=0.260  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKS  178 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkS  178 (348)
                      ++..+..+|..++.++..-..++++
T Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~~  197 (457)
T TIGR01000       173 TKAQLDQQISKTDQKLQDYQALKNA  197 (457)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444443

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

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=82.56  E-value=26  Score=32.46  Aligned_cols=86  Identities=17%  Similarity=0.241  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHH---------hhhHHHHHHHH
Q 018954          178 SLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMT---------VSRKAEKLQEE  248 (348)
Q Consensus       178 Sae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~t---------sn~Kve~LQ~d  248 (348)
                      +++.+..+++...+.+-++...+++-.+.+.+.+.....+...+.+-...++.+...+..         +.-....|+-+
T Consensus        79 s~~eLeq~l~~~~~~L~~~q~~l~~~~~~l~~~~~~p~~aq~~l~~~~~~l~ei~~~L~~~~~~~~~~l~~a~~~~l~ae  158 (240)
T PF12795_consen   79 SLEELEQRLSQEQAQLQELQEQLQQENSQLIEIQTRPERAQQQLSEARQRLQEIRNQLQNLPPNGESPLSEAQRWLLQAE  158 (240)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHhccCCCCcchhhHHHHHHHHHH
Confidence            344456777777777777777777777777777777777777777777777777666553         23344445555


Q ss_pred             HhhhhhhHHHHHHHH
Q 018954          249 VESMQGEMSSFMQIF  263 (348)
Q Consensus       249 l~sm~~EIsslm~~f  263 (348)
                      +..+..+|.-+...+
T Consensus       159 ~~~l~~~~~~le~el  173 (240)
T PF12795_consen  159 LAALEAQIEMLEQEL  173 (240)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            555555555444333

>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2

Probab=82.53  E-value=41  Score=31.13  Aligned_cols=84  Identities=23%  Similarity=0.296  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHH------------HHHHh----------HHhhHHHHhhhhHHHHHHHHHHHHHHhhhH
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSL------------IKSTQ----------LQLSDAKIKLADKQAALEKSQWEAMTVSRK  241 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~l------------ikStq----------~QLsdaki~LadKqAaLEKlewEa~tsn~K  241 (348)
                      ..+..++.+|.++....+..|.+            |.|+.          ..+..+...|.-|++.++||++.-  ...|
T Consensus        73 ~~la~~~~ki~~~~~~qa~~d~~~l~e~L~eY~r~i~svk~~f~~R~~a~~~~q~a~~~l~kkr~~~~Kl~~~~--~~~K  150 (224)
T cd07623          73 SQLAEVEEKIEQLHGEQADTDFYILAELLKDYIGLIGAIKDVFHERVKVWQNWQNAQQTLTKKREAKAKLELSG--RTDK  150 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--ChhH
Confidence            56777777777777777777654            22222          345667777899999999998754  3579


Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhhc
Q 018954          242 AEKLQEEVESMQGEMSSFMQIFEGLIKN  269 (348)
Q Consensus       242 ve~LQ~dl~sm~~EIsslm~~fe~it~N  269 (348)
                      ++.++.+|...+.-......-|+.|+++
T Consensus       151 ~~~~~~ev~~~e~~~~~a~~~fe~is~~  178 (224)
T cd07623         151 LDQAQQEIKEWEAKVDRGQKEFEEISKT  178 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999843

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh

>PF15456 Uds1: Up-regulated During Septation

Probab=82.24  E-value=21  Score=31.10  Aligned_cols=37  Identities=22%  Similarity=0.245  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHH
Q 018954          226 AALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQI  262 (348)
Q Consensus       226 AaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~  262 (348)
                      -.+.+.+-|...++.||+++..++...+.-.+.++.-
T Consensus        74 ~~~~~~eeel~~~~rk~ee~~~eL~~le~R~~~~~~r  110 (124)
T PF15456_consen   74 ESSLKAEEELAESDRKCEELAQELWKLENRLAEVRQR  110 (124)
T ss_pred             chHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3567788899999999999999999999988877543

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=82.23  E-value=19  Score=36.01  Aligned_cols=84  Identities=15%  Similarity=0.268  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhH-------------HHHhh----hhHHHHHHHHHHHHH
Q 018954          174 ELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSD-------------AKIKL----ADKQAALEKSQWEAM  236 (348)
Q Consensus       174 elLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsd-------------aki~L----adKqAaLEKlewEa~  236 (348)
                      +|=-.......+|..+...|+.|++-+.+|+.-++-+|.-|..             ++..|    .+.+..+.+|+--+.
T Consensus       262 ~Le~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lkvaqTRL~~R~~RP~vElcrD~~q~~L~~Ev~~l~~~i~~L~~~L~  341 (384)
T PF03148_consen  262 ELEWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLKVAQTRLENRTQRPNVELCRDPPQYGLIEEVKELRESIEALQEKLD  341 (384)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHhcCCchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344456777777777777777777777777777666643             33333    455666666777777


Q ss_pred             HhhhHHHHHHHHHhhhhhhHH
Q 018954          237 TVSRKAEKLQEEVESMQGEMS  257 (348)
Q Consensus       237 tsn~Kve~LQ~dl~sm~~EIs  257 (348)
                      .+..-...|..-...++.+|.
T Consensus       342 ~a~~~l~~L~~~~~~Le~di~  362 (384)
T PF03148_consen  342 EAEASLQKLERTRLRLEEDIA  362 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777766

The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=82.17  E-value=49  Score=33.25  Aligned_cols=32  Identities=41%  Similarity=0.416  Sum_probs=26.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 018954          151 EIEELVALREQVEDLQRKMFEKDELLKSLESS  182 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDelLkSae~~  182 (348)
                      --++|..-.++|..|+-.|.-||+||+-.-+.
T Consensus       102 le~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~  133 (306)
T PF04849_consen  102 LEEQLGAALEQVEQLRHELSMKDELLQIYSND  133 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcH
Confidence            34578899999999999999999999866543

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=82.16  E-value=52  Score=39.99  Aligned_cols=111  Identities=25%  Similarity=0.382  Sum_probs=69.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHH--
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVN-AVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQA--  226 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~-a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqA--  226 (348)
                      -|..++..|...|..|+.+|.+|+-+...++.--+++. .++.++|++..+.+.+..-|+    ||-++++.|+.+.-  
T Consensus      1304 ~d~~~~~kL~~ei~~Lk~el~~ke~~~~el~~~~~~~q~~~k~qld~l~~e~~~lt~~~~----ql~~~~~rL~~~~~e~ 1379 (1822)
T KOG4674|consen 1304 SDKNDYEKLKSEISRLKEELEEKENLIAELKKELNRLQEKIKKQLDELNNEKANLTKELE----QLEDLKTRLAAALSEK 1379 (1822)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            46778999999999999999999999998888766554 667777877777766655554    34445554443322  


Q ss_pred             ---------HHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 018954          227 ---------ALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       227 ---------aLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                               +.....-.-=..++|.+++-.++. +.+||.++...+..
T Consensus      1380 ~~q~~el~~~~~~~~~~~e~t~rk~e~~~~k~~-~~~e~~sl~eeL~e 1426 (1822)
T KOG4674|consen 1380 NAQELELSDKKKAHELMQEDTSRKLEKLKEKLE-LSEELESLKEELEE 1426 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHH
Confidence                     111111111134455555555554 44666666666533

>PRK12704 phosphodiesterase; Provisional

Probab=81.95  E-value=49  Score=34.84  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHH
Q 018954          227 ALEKSQWEAMTVSRKAEKLQEEV  249 (348)
Q Consensus       227 aLEKlewEa~tsn~Kve~LQ~dl  249 (348)
                      .|++.+.++-.....+++++.++
T Consensus       104 ~Lekke~eL~~re~~Le~re~eL  126 (520)
T PRK12704        104 LLEKREEELEKKEKELEQKQQEL  126 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=81.61  E-value=44  Score=36.52  Aligned_cols=41  Identities=32%  Similarity=0.361  Sum_probs=23.1

Q ss_pred             HHHHHHHhhHHHHH----HHhHHhhHHHHhhhhHHHHHHHHHHHH
Q 018954          195 ELKRLAAEKDSLIK----STQLQLSDAKIKLADKQAALEKSQWEA  235 (348)
Q Consensus       195 ELr~qlaeKe~lik----Stq~QLsdaki~LadKqAaLEKlewEa  235 (348)
                      ++-++.++++..++    .+|.|+..+.-+.-.+|.+++..+.++
T Consensus       175 ~~~q~~~e~e~~L~~~~~~~~~q~~~le~ki~~lq~a~~~t~~el  219 (629)
T KOG0963|consen  175 KLEQEWAEREAGLKDEEQNLQEQLEELEKKISSLQSAIEDTQNEL  219 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            44455566665554    345566666666666666666655443

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=81.49  E-value=9.1  Score=44.68  Aligned_cols=98  Identities=20%  Similarity=0.198  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE  234 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewE  234 (348)
                      +.++.+.++++++||.|=-.+|-....+...+..+-.++.+||++|-+=---+--+..-|+|-...+-.-+-.||-||+|
T Consensus      1196 ~gay~s~f~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~ 1275 (1758)
T KOG0994|consen 1196 LGAYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQRE 1275 (1758)
T ss_pred             chhhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHH
Confidence            45678889999999999989998777778888888888888888775433333333344555555555566677888888


Q ss_pred             HHHhhhHHHHHHHHHhhh
Q 018954          235 AMTVSRKAEKLQEEVESM  252 (348)
Q Consensus       235 a~tsn~Kve~LQ~dl~sm  252 (348)
                      +-.-++-+.+|.+.++-+
T Consensus      1276 ~~~l~~~~keL~e~~~~i 1293 (1758)
T KOG0994|consen 1276 FNGLLTTYKELREQLEKI 1293 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            877777777777666543

>TIGR02231 conserved hypothetical protein

Probab=81.14  E-value=21  Score=36.58  Aligned_cols=38  Identities=21%  Similarity=0.351  Sum_probs=27.3

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Q 018954          147 VSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKS  184 (348)
Q Consensus       147 ~~~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~  184 (348)
                      ..+...+++..|+.||..|+.++.+=..-+..++....
T Consensus        65 ~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~  102 (525)
T TIGR02231        65 TSRPDPERLAELRKQIRELEAELRDLEDRGDALKALAK  102 (525)
T ss_pred             CCcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567779999999999999888766655555444443

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=81.10  E-value=39  Score=36.35  Aligned_cols=97  Identities=18%  Similarity=0.198  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHH---HHhhhhHHHHHHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDA---KIKLADKQAALEKS  231 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsda---ki~LadKqAaLEKl  231 (348)
                      ...=..++++||++|-   ++...++....+|..+...+.++..++.+++.-....+.++.-.   ..+|.|....++||
T Consensus       323 ~~~~~~el~~l~~~l~---~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~kL  399 (594)
T PF05667_consen  323 QEEQEQELEELQEQLD---ELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAKL  399 (594)
T ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            4455667788887764   46677777777888888888888888877777777777766533   24577777777776


Q ss_pred             HHHHHHhhhHHHHHHHHHhhhhh
Q 018954          232 QWEAMTVSRKAEKLQEEVESMQG  254 (348)
Q Consensus       232 ewEa~tsn~Kve~LQ~dl~sm~~  254 (348)
                      |-=+-.+..|+..|+.+....+.
T Consensus       400 ~~~v~~s~~rl~~L~~qWe~~R~  422 (594)
T PF05667_consen  400 QALVEASEQRLVELAQQWEKHRA  422 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            65555555555555544444333

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=81.09  E-value=59  Score=33.63  Aligned_cols=85  Identities=19%  Similarity=0.271  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHH
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQI  262 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~  262 (348)
                      .+|-.-++.++|++.++..||+-=.++++-+|.++   +|=+|+..+--|-=...---=..+=|.-++.++.-+.-|||-
T Consensus       140 ~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~---layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~E  216 (401)
T PF06785_consen  140 REENQCLQLQLDALQQECGEKEEESQTLNRELAEA---LAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYE  216 (401)
T ss_pred             HHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHH---HHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHH
Confidence            35556678899999999999999888888888876   455555555433222222222344466666666667777777


Q ss_pred             HHHhhhcC
Q 018954          263 FEGLIKND  270 (348)
Q Consensus       263 fe~it~N~  270 (348)
                      |.++--+.
T Consensus       217 irnLLQle  224 (401)
T PF06785_consen  217 IRNLLQLE  224 (401)
T ss_pred             HHHHHHhh
Confidence            77755443

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=81.04  E-value=41  Score=36.77  Aligned_cols=67  Identities=28%  Similarity=0.280  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHh----hhhHHHHHHHHHHHHHHhhhHHHHHHHHHhh
Q 018954          185 QVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIK----LADKQAALEKSQWEAMTVSRKAEKLQEEVES  251 (348)
Q Consensus       185 em~a~~akvDELr~qlaeKe~likStq~QLsdaki~----LadKqAaLEKlewEa~tsn~Kve~LQ~dl~s  251 (348)
                      +--.+++++.++.+.+..=.+.|+-||.||.+.+..    .+-|.|-+.=+=-|+-.-++++..||.+++.
T Consensus       190 ~~~~~~~q~~~le~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~  260 (629)
T KOG0963|consen  190 EEQNLQEQLEELEKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQ  260 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333455566666666666667777777888877776    5556555555444555555555544444433

>PRK11519 tyrosine kinase; Provisional

Probab=80.92  E-value=48  Score=35.66  Aligned_cols=49  Identities=14%  Similarity=0.206  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHh
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESS------KSQVNAVHLKLDELKRLAAE  202 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~------~~em~a~~akvDELr~qlae  202 (348)
                      =+.-|.+|+.+|+++|.+.|..|..-...      ..+..++..++.+++.++++
T Consensus       268 a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~vd~~~ea~~~l~~~~~l~~ql~~  322 (719)
T PRK11519        268 SLAFLAQQLPEVRSRLDVAENKLNAFRQDKDSVDLPLEAKAVLDSMVNIDAQLNE  322 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHH
Confidence            35568999999999999999998877654      23344444444444444444

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=80.85  E-value=36  Score=34.17  Aligned_cols=71  Identities=18%  Similarity=0.261  Sum_probs=44.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH-------------------------HHHHHHHHHHHHHHHHHHhh
Q 018954          149 EKEIEELVALREQVEDLQRKMFEKDELLKSLESSK-------------------------SQVNAVHLKLDELKRLAAEK  203 (348)
Q Consensus       149 ~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~-------------------------~em~a~~akvDELr~qlaeK  203 (348)
                      .+--.-|..|..|++-|+|.--.|-=.|.|+|..-                         ..-..+..+-+-|-+.+.-|
T Consensus        14 ~~aLqKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~K   93 (307)
T PF10481_consen   14 TRALQKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVK   93 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhh
Confidence            33444677788899999988888888888877661                         22233333444444555556


Q ss_pred             HHHHHHHhHHhhHHHH
Q 018954          204 DSLIKSTQLQLSDAKI  219 (348)
Q Consensus       204 e~likStq~QLsdaki  219 (348)
                      |+.|.++.-||+-+|.
T Consensus        94 e~qv~~lEgQl~s~Kk  109 (307)
T PF10481_consen   94 ESQVNFLEGQLNSCKK  109 (307)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666666666655554

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>PF13514 AAA_27: AAA domain

Probab=80.42  E-value=54  Score=37.01  Aligned_cols=53  Identities=23%  Similarity=0.366  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSL  206 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~l  206 (348)
                      ++..++.+|.+.+.+..+=..+.+.++....++..+..++.+++.+...-+.+
T Consensus       158 ~l~e~~~~l~~~~~~~~~y~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ler~  210 (1111)
T PF13514_consen  158 ELKELERELREAEVRAAEYQELQQALEEAEEELEELRAELKELRAELRRLERL  210 (1111)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444455555555555555555555555555444444

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=80.30  E-value=0.54  Score=49.97  Aligned_cols=79  Identities=24%  Similarity=0.317  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHH----------HHhHHhhHHHHhhhhHHHHHHHHHHHHHHh-hhHHHHHHHHHhh
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDSLIK----------STQLQLSDAKIKLADKQAALEKSQWEAMTV-SRKAEKLQEEVES  251 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~lik----------Stq~QLsdaki~LadKqAaLEKlewEa~ts-n~Kve~LQ~dl~s  251 (348)
                      ..++..++.+|+++++.+.+-.....          -...+|++++-.+..++..++.++-++.++ +.||.+|+..|..
T Consensus       508 ~~~~~~lq~qle~lq~~l~~~~~~~~d~~~lk~~le~~~~~l~e~~~e~~~~~~~le~l~~~~~~~~~~ki~~Le~~L~~  587 (713)
T PF05622_consen  508 NEKILELQSQLEELQKSLQEQGSKSEDSSELKQKLEEHLEKLRELKDELQKKREQLEELEQELNQSLSQKIEELEEALQK  587 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            35666777777777776655433322          233466777777788888888888888887 8999999999999


Q ss_pred             hhhhHHHHHH
Q 018954          252 MQGEMSSFMQ  261 (348)
Q Consensus       252 m~~EIsslm~  261 (348)
                      .+.|+.+.-.
T Consensus       588 k~~e~~~~ee  597 (713)
T PF05622_consen  588 KEEEMRAMEE  597 (713)
T ss_dssp             ----------
T ss_pred             hHHHHHhHHH
Confidence            9888876654

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=80.23  E-value=12  Score=29.59  Aligned_cols=50  Identities=24%  Similarity=0.369  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHH-----------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018954          153 EELVALREQVEDLQRKM-----------FEKDELLKSLESSKSQVNAVHLKLDELKRLAAE  202 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL-----------~EKDelLkSae~~~~em~a~~akvDELr~qlae  202 (348)
                      -++.+||+.++-+-+|+           .|.|.++.++.....++..|.++++.|++++.+
T Consensus         5 a~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~   65 (69)
T PF14197_consen    5 AEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEE   65 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677777777666665           466777777777777777777777777777544

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=80.05  E-value=55  Score=30.96  Aligned_cols=27  Identities=11%  Similarity=0.262  Sum_probs=22.3

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          241 KAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       241 Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      =-+.+..||.||+.-++.|..-|+++-
T Consensus        77 erdq~~~dL~s~E~sfsdl~~ryek~K  103 (207)
T PF05010_consen   77 ERDQAYADLNSLEKSFSDLHKRYEKQK  103 (207)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            345688899999999999999998755

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

---

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	348
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	6e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-04

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

 Score = 56.4 bits (135), Expect = 7e-09
 Identities = 56/438 (12%), Positives = 122/438 (27%), Gaps = 140/438 (31%)

Query: 9   DLQDNSAFGDSKSSWLT-GDGNSSP-------------TQRGAAQPSLGYSGATNSNVDR 54
            +Q    F      WL   + NS                    ++     +     +  +
Sbjct: 175 KVQCKMDFK---IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231

Query: 55  DLYKDLVEIVPLVQSLI------DRKASSSF---------TRRGSMI------YTKTPSR 93
              + L++  P    L+      + KA ++F         TR   +        T   S 
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 94  ESLLKKTTDPKGRN--------AAQSLPP--------------KRKKDNGD-----KDLG 126
           +      T  + ++          Q LP               +  +D        K + 
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351

Query: 127 KNANS--------NQDSD-------SFSIFSSRALVSEKEIEEL--VALREQVEDLQRKM 169
            +  +          +           S+F   A +    +  +    ++  V  +  K+
Sbjct: 352 CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411

Query: 170 FEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALE 229
            +   + K  + S   + +++L   ELK     + +L +            + D     +
Sbjct: 412 HKYSLVEKQPKESTISIPSIYL---ELKVKLENEYALHR-----------SIVDHYNIPK 457

Query: 230 KSQWEAMTVS--------------RKAEKLQEEVESMQGEMSSFMQIF------EGLIKN 269
               + +                 +  E            M+ F  +F      E  I++
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHHLKNIE--------HPERMTLFRMVFLDFRFLEQKIRH 509

Query: 270 DSTVN------ADDDYDIKPYYSDYLSDIDD-----LDDVE--MQRMEEA--REAYITAV 314
           DST         +    +K +Y  Y+ D D      ++ +   + ++EE      Y   +
Sbjct: 510 DSTAWNASGSILNTLQQLK-FYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568

Query: 315 AMAKEKQDEESMATAARA 332
            +A   +DE     A + 
Sbjct: 569 RIALMAEDEAIFEEAHKQ 586

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.9 bits (104), Expect = 6e-05
 Identities = 28/194 (14%), Positives = 66/194 (34%), Gaps = 18/194 (9%)

Query: 144  RALVSEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEK 203
            R +++++E+++L      VE  ++     +  +  L+           K+DE  +     
Sbjct: 898  RRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQR----------KIDEQNKEYKSL 947

Query: 204  DSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF 263
               + + ++  S    KL      L  S+        +A+     V S+Q E++   +  
Sbjct: 948  LEKMNNLEITYSTETEKLRSDVERLRMSE-------EEAKNATNRVLSLQEEIAKLRKEL 1000

Query: 264  EGLIKNDSTVNADDDYDIKPYYSDYLSDIDDLDDVEMQRMEEAREAYITAVAMAKEKQDE 323
                    T+    D   K      +S++ + + +     EE             E  ++
Sbjct: 1001 HQTQTEKKTIEEWAD-KYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEK 1059

Query: 324  ESMATAARARLHLQ 337
            + +    +  L L 
Sbjct: 1060 KLVEETKQLELDLN 1073

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.1 bits (104), Expect = 6e-05
 Identities = 27/130 (20%), Positives = 52/130 (40%), Gaps = 10/130 (7%)

Query: 149  EKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIK 208
             K   E   L EQ+ +LQ ++ E    L   E       A   +L++           I+
Sbjct: 1063 RKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALA---RLEDETSQKNNALKKIR 1119

Query: 209  STQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLIK 268
              +  +SD +  L  ++AA  K++       ++   L EE+E+++ E+   +       +
Sbjct: 1120 ELESHISDLQEDLESEKAARNKAE-------KQKRDLSEELEALKTELEDTLDTTATQQE 1172

Query: 269  NDSTVNADDD 278
               +   DDD
Sbjct: 1173 LRGSDYKDDD 1182

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 41.0 bits (96), Expect = 5e-04
 Identities = 20/111 (18%), Positives = 50/111 (45%), Gaps = 1/111 (0%)

Query: 149  EKEIEELVALREQVED-LQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLI 207
             K   +  ++  ++E  L+++   + EL K     + + + +H ++ EL+   AE  + +
Sbjct: 1031 TKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQL 1090

Query: 208  KSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSS 258
               + +L  A  +L D+ +    +  +   +      LQE++ES +   + 
Sbjct: 1091 AKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNK 1141

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	348
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	96.85
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.66
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.22
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.08
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	95.66
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	95.36
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.21
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	94.73
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	94.65
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	94.49
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	94.48
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	93.44
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	92.91
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	92.42
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	92.23
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	92.19
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	92.02
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	91.71
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	91.38
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	90.83
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	90.6
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	90.26
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	90.14
2k48_A	107	Nucleoprotein; viral protein; NMR {Andes virus}	90.05
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	88.68
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	88.49
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	87.83
2p22_C	192	Protein SRN2; endosome, trafficking complex, VPS23	87.26
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	87.11
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	87.11
4fi5_A	113	Nucleoprotein; structural genomics, niaid, nationa	87.05
2ic6_A	78	Nucleocapsid protein; hantavirus, bunyaviridae, ss	87.02
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	86.82
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	86.17
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	85.5
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	85.12
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	84.22
2ic9_A	96	Nucleocapsid protein; hantavirus, bunyaviridae, ss	83.69
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	83.44
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	82.32
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	81.47
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	81.4
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	81.21

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

Probab=96.85  E-value=0.13  Score=42.59  Aligned_cols=12  Identities=17%  Similarity=0.102  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHHH
Q 018954          156 VALREQVEDLQR  167 (348)
Q Consensus       156 ~~LreQVeeLqk  167 (348)
                      ..|.-+++.++.
T Consensus         9 ~~l~~~~~~~~~   20 (284)
T 1c1g_A            9 QMLKLDKENALD   20 (284)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHH
Confidence            333333333333

>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=96.66  E-value=0.051  Score=52.71  Aligned_cols=111  Identities=14%  Similarity=0.149  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHhhHHHHHHHhHHhhHH
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLESSKSQV---------------NAVHLKLDELKRLAAEKDSLIKSTQLQLSDA  217 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em---------------~a~~akvDELr~qlaeKe~likStq~QLsda  217 (348)
                      +|+..++..|..|+.++...+..+...+.-..+.               ..+...+..++...+.++..++..+.+..+.
T Consensus       456 ~e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  535 (597)
T 3oja_B          456 AEVNELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRETQARRTEADAK  535 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcCccccccCCHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhh
Confidence            4666677777777777777666666665554322               4455566666666666666666666666555


Q ss_pred             HHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          218 KIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       218 ki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      +..+...+.-++++|..+..-.+++.+|+.++..+..||..|+..+
T Consensus       536 ~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~  581 (597)
T 3oja_B          536 QKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKK  581 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5555555566666666666777777777777777777766665543

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.22  E-value=0.027  Score=61.02  Aligned_cols=109  Identities=18%  Similarity=0.228  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLE--------SSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQA  226 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae--------~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqA  226 (348)
                      -..|..+|++||.+|.++++..+.+.        ....++..++..+++|+....|+..    +..++...+.++++...
T Consensus       923 ~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~~~~e~~~----~~~~v~~L~~e~~~l~~  998 (1080)
T 2dfs_A          923 HIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKN----ATNRVLSLQEEIAKLRK  998 (1080)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHTHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            45677888888888877665554333        2356777777777777776555542    22333333334444444


Q ss_pred             HHHHHHHHHHHhhhHH----HHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          227 ALEKSQWEAMTVSRKA----EKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       227 aLEKlewEa~tsn~Kv----e~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      .++++.-|.+.-..+.    ++||+.|++|+.|...|.++++.|.
T Consensus       999 ~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A          999 ELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444443333333332    4666777778888888877776655

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.08  E-value=0.1  Score=62.42  Aligned_cols=107  Identities=16%  Similarity=0.215  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhh----
Q 018954          158 LREQVEDLQRKMFEKDELLKSL-----------ESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLA----  222 (348)
Q Consensus       158 LreQVeeLqkKL~EKDelLkSa-----------e~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~La----  222 (348)
                      -.+||++||++|.+|.-.|+..           .....+....++.+++.+.+++++..-|...+   .++...|+    
T Consensus      1932 t~~~V~~l~~~L~~~~~~L~~k~~ea~~~l~~i~~~~~~ae~~k~~v~~~~~~~~~~~~ei~~~k---~~~e~dL~~A~P 2008 (3245)
T 3vkg_A         1932 TEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQK---VKAYADLEKAEP 2008 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHCC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhcCC
Confidence            4567777777777766555433           33333444445555555556555554444322   23334443    


Q ss_pred             --hHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          223 --DKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       223 --dKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                        =|+++|+++|-++.....+....|..|..++..|..|...|+..+
T Consensus      2009 a~Pkr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~ 2055 (3245)
T 3vkg_A         2009 TGPLREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLI 2055 (3245)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              377788888888888888888888888888888888888886654

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=95.66  E-value=0.77  Score=38.12  Aligned_cols=108  Identities=15%  Similarity=0.235  Sum_probs=76.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhH
Q 018954          149 EKEIEELVALREQVEDLQRKMFEKD----ELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADK  224 (348)
Q Consensus       149 ~kd~eEl~~LreQVeeLqkKL~EKD----elLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadK  224 (348)
                      -..-+|+..+.+++..|+.+|..-+    ++=.....+..++|.|..+|..-+-.+++.+-.+..++.+-.+-..+|.+.
T Consensus         9 ~~~e~E~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el   88 (129)
T 2fxo_A            9 AEREKEMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEM   88 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455789999999999988886333    333445566799999999999999999999999988887777777778888


Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhH
Q 018954          225 QAALEKSQWEAMTVSRKAEKLQEEVESMQGEM  256 (348)
Q Consensus       225 qAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EI  256 (348)
                      +.-|+..+-..-.-..+-.+|+.+++.+..+|
T Consensus        89 ~~rleeeee~~~~L~~~kkkle~e~~~Lk~~l  120 (129)
T 2fxo_A           89 NKRLEDEEEMNAELTAKKRKLEDECSELKRDI  120 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            87777766544433344444444444444433

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

Probab=95.36  E-value=0.15  Score=42.27  Aligned_cols=53  Identities=26%  Similarity=0.430  Sum_probs=36.8

Q ss_pred             HHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHH
Q 018954          212 LQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFE  264 (348)
Q Consensus       212 ~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe  264 (348)
                      .+|.+++..++++.+.|.++.++...-..--..|=+==-.++.||++.+++++
T Consensus        75 ~~l~~~q~~i~~lE~eL~~~r~e~~~ql~EYq~LlnvKl~Ld~EIatYRkLLE  127 (129)
T 3tnu_B           75 LALKDARNKLAELEEALQKAKQDMARLLREYQELMNTKLALDVEIATYRKLLE  127 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHC
Confidence            46667777777788888777777665555444444433468899999988775

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

Probab=95.21  E-value=0.17  Score=42.13  Aligned_cols=54  Identities=15%  Similarity=0.303  Sum_probs=37.5

Q ss_pred             HHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 018954          212 LQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       212 ~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                      .+|.+++..++++.+.|.++.++...-..--..|-+==-.++.||++.++++++
T Consensus        77 ~~l~~~q~~i~~lE~eL~~~r~em~~ql~EYq~Ll~vKl~Ld~EIatYRkLLEG  130 (131)
T 3tnu_A           77 MQLAQIQEMIGSVEEQLAQLRCEMEQQNQEYKILLDVKTRLEQEIATYRRLLEG  130 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHCc
Confidence            466677777777777777777776655555444444334688999999988763

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

Probab=94.73  E-value=1.9  Score=38.90  Aligned_cols=12  Identities=8%  Similarity=0.260  Sum_probs=8.1

Q ss_pred             HHHHHHHHhhhc
Q 018954          258 SFMQIFEGLIKN  269 (348)
Q Consensus       258 slm~~fe~it~N  269 (348)
                      .|...|+.|.++
T Consensus       176 ~lL~~Yerir~~  187 (256)
T 3na7_A          176 KIYSFYERIRRW  187 (256)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            566777777753

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=94.65  E-value=0.047  Score=59.03  Aligned_cols=19  Identities=21%  Similarity=0.316  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHhh
Q 018954          153 EELVALREQVEDLQRKMFE  171 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~E  171 (348)
                      .|+..|++++++|+.+|..
T Consensus       857 ~El~~L~~eL~el~~~L~~  875 (1184)
T 1i84_S          857 EEMQAKDEELQRTKERQQK  875 (1184)
T ss_dssp             HHCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444433

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=94.49  E-value=0.18  Score=54.49  Aligned_cols=11  Identities=18%  Similarity=0.241  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 018954          155 LVALREQVEDL  165 (348)
Q Consensus       155 l~~LreQVeeL  165 (348)
                      +..|+++++.+
T Consensus       866 L~el~~~L~~l  876 (1184)
T 1i84_S          866 LQRTKERQQKA  876 (1184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

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

Probab=94.48  E-value=1.5  Score=39.04  Aligned_cols=83  Identities=14%  Similarity=0.179  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhh----hhHHH
Q 018954          183 KSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQ----GEMSS  258 (348)
Q Consensus       183 ~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~----~EIss  258 (348)
                      ..++..+++.+++=|+...--.-+|.-+|..+...+..|......+.+++-|...=..|+..|+-+-++|+    |++-+
T Consensus        68 eke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~eid~~~eLKa  147 (168)
T 3o0z_A           68 DKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLEIDLNYKLKS  147 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            35566666666666666666666677777777777777777777777777777777777777777777777    66777


Q ss_pred             HHHHHHH
Q 018954          259 FMQIFEG  265 (348)
Q Consensus       259 lm~~fe~  265 (348)
                      ++.-++.
T Consensus       148 lQ~~~eq  154 (168)
T 3o0z_A          148 LQQRLEQ  154 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7666654

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=93.44  E-value=1.2  Score=48.53  Aligned_cols=51  Identities=18%  Similarity=0.160  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAE  202 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlae  202 (348)
                      -.|+..|++++++|++...|+..+-..+.++..++..+..++.++.++..+
T Consensus       959 ~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~ 1009 (1080)
T 2dfs_A          959 STETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKT 1009 (1080)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666655555554444444444444444444444443333

>4h22_A Leucine-rich repeat flightless-interacting protei; nucleic acid sensor, transcription; 2.89A {Homo sapiens}

Probab=92.91  E-value=0.21  Score=41.57  Aligned_cols=53  Identities=21%  Similarity=0.399  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHhhhHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Q 018954          156 VALREQVEDLQRKMFEKDELL-----------KSLESSKSQVNAVHLKLDELKRLAAEKDSLIK  208 (348)
Q Consensus       156 ~~LreQVeeLqkKL~EKDelL-----------kSae~~~~em~a~~akvDELr~qlaeKe~lik  208 (348)
                      .+|.=||+-|+-+|-|.+|.+           +-++.++-....++.++++|+.+|.++|.||.
T Consensus        26 sal~YqVdlLKD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk~~L~qRD~LI~   89 (103)
T 4h22_A           26 TNFMYQVDTLKDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVKEALKQREEMLE   89 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSCC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555444           44666778889999999999999999999985

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

Probab=92.42  E-value=5.7  Score=35.40  Aligned_cols=106  Identities=20%  Similarity=0.262  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE  234 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewE  234 (348)
                      +..|+-|+++++.||.-=-+.-.-+.-...++....+.++..-++|.+|=..+...   .-.-...++..|+.|+.=-+.
T Consensus         8 i~~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~---k~~Leke~~~LQa~L~qEr~~   84 (168)
T 3o0z_A            8 LSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENS---KSQTDKDYYQLQAILEAERRD   84 (168)
T ss_dssp             --CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence            45666677777777654333333334444666666666666666666664444333   333345666777777665544


Q ss_pred             HHHhhhHHHHHHHHHhhhhhhHHHHHHHH
Q 018954          235 AMTVSRKAEKLQEEVESMQGEMSSFMQIF  263 (348)
Q Consensus       235 a~tsn~Kve~LQ~dl~sm~~EIsslm~~f  263 (348)
                      --..+.-+.+||+.+.+++.||..+..-.
T Consensus        85 r~q~se~~~elq~ri~~L~~El~~~k~~~  113 (168)
T 3o0z_A           85 RGHDSEMIGDLQARITSLQEEVKHLKHNL  113 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555444433

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

Probab=92.23  E-value=5.6  Score=35.86  Aligned_cols=28  Identities=11%  Similarity=0.126  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 018954          184 SQVNAVHLKLDELKRLAAEKDSLIKSTQ  211 (348)
Q Consensus       184 ~em~a~~akvDELr~qlaeKe~likStq  211 (348)
                      .++.+++..++.+++++...+.-|..+.
T Consensus        46 ~~~~~~~~~l~d~~~~~~~~e~~i~~~~   73 (256)
T 3na7_A           46 KAILNLEEEKLALKLQVSKNEQTLQDTN   73 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444333333

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=92.19  E-value=1.3  Score=35.51  Aligned_cols=64  Identities=17%  Similarity=0.249  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHH
Q 018954          173 DELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAM  236 (348)
Q Consensus       173 DelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~  236 (348)
                      |+-.+-+|.++.+||.+.-+|.||-.+-.-=|.=++||..+|+--+..|+.|.|.++.|+-++.
T Consensus        15 ee~~~~~E~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l~   78 (81)
T 3qh9_A           15 EEKQRKAEELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQLS   78 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            4555777888899999999999988777777777888888888888888888888888776653

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=92.02  E-value=0.43  Score=37.46  Aligned_cols=45  Identities=33%  Similarity=0.336  Sum_probs=31.4

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhH
Q 018954          162 VEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSD  216 (348)
Q Consensus       162 VeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsd  216 (348)
                      |-+||.-|-+|++=          +..-.+.|++|.++|.+||..|+-+|++|..
T Consensus        21 i~eLq~~L~~K~eE----------Lr~kd~~I~eLEk~L~ekd~eI~~LqseLDK   65 (72)
T 3nmd_A           21 LRDLQYALQEKIEE----------LRQRDALIDELELELDQKDELIQMLQNELDK   65 (72)
T ss_dssp             HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666653          3444556778888888888888888888764

>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=91.71  E-value=3.7  Score=39.69  Aligned_cols=111  Identities=13%  Similarity=0.095  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------hhHHHHHHHhHHhh
Q 018954          154 ELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAA------------------EKDSLIKSTQLQLS  215 (348)
Q Consensus       154 El~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qla------------------eKe~likStq~QLs  215 (348)
                      ...+|++++.+++.++..=.+-   .......++....++++.+..+.                  .=...++....++.
T Consensus       450 ~~e~l~~e~~~~~~~i~~l~~~---~~~~~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  526 (597)
T 3oja_B          450 GNEQLEAEVNELRAEVQQLTNE---QIQQEQLLQGLHAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRETQ  526 (597)
T ss_dssp             ----CCHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHTTCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhhhhhhhcCccccccCCHHHHHHHHHHHHHhhhhhhHHHHH
Confidence            4456777877776655433333   23344555556666666555444                  11122223333444


Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          216 DAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       216 daki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      ..+....+++..+++++.|+..-.++.+..+..+..+..|+..+++.+..+-
T Consensus       527 ~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~  578 (597)
T 3oja_B          527 ARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLE  578 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            5555566677777888888888888888888888888888887766665544

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=91.38  E-value=2.3  Score=35.82  Aligned_cols=37  Identities=27%  Similarity=0.425  Sum_probs=20.6

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 018954          161 QVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLI  207 (348)
Q Consensus       161 QVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~li  207 (348)
                      +|++|+.+|-..+++|..          -+..+|+|+.+++.++.-+
T Consensus        25 ei~~L~~~L~~AEeaL~~----------Kq~~idelk~ei~q~~~~l   61 (110)
T 2v4h_A           25 QLEDLRQQLQQAEEALVA----------KQELIDKLKEEAEQHKIVM   61 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
Confidence            555666666555555544          3445566666666555533

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=90.83  E-value=3.4  Score=50.04  Aligned_cols=117  Identities=14%  Similarity=0.246  Sum_probs=70.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhHH----HH-------HHHHHHHHHHHHHHHHHHH------------------------
Q 018954          151 EIEELVALREQVEDLQRKMFEKDE----LL-------KSLESSKSQVNAVHLKLDE------------------------  195 (348)
Q Consensus       151 d~eEl~~LreQVeeLqkKL~EKDe----lL-------kSae~~~~em~a~~akvDE------------------------  195 (348)
                      -.+.+..|++++.++|.+|.+|..    +|       ..|+.-+..+.+..+++.+                        
T Consensus      1932 t~~~V~~l~~~L~~~~~~L~~k~~ea~~~l~~i~~~~~~ae~~k~~v~~~~~~~~~~~~ei~~~k~~~e~dL~~A~Pa~P 2011 (3245)
T 3vkg_A         1932 TEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEPTGP 2011 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------C
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCh
Confidence            445677777777777777766632    21       2333333333333333322                        


Q ss_pred             HHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHhh
Q 018954          196 LKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGLI  267 (348)
Q Consensus       196 Lr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~it  267 (348)
                      +|..|++=+.-+..++.+|..++.+|++.++.|++|+-+.-....+.++|+.+++.++.-+..=..++.+|+
T Consensus      2012 kr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~ 2083 (3245)
T 3vkg_A         2012 LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLN 2083 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            233444444555566666777777777777777777777766677777777777777777666666665555

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=90.60  E-value=3.7  Score=36.16  Aligned_cols=60  Identities=32%  Similarity=0.355  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQ  211 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq  211 (348)
                      -.||..||...+-+|+++---|.+|+--.+-.++-+.=--|+-||.--|-|||+.+.|+-
T Consensus        59 QKEi~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDiRKLrELEADLKEKDsMVe~LT  118 (167)
T 4gkw_A           59 QKEIGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDMRKLGELEADLKEKDSMVESLT  118 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhHHHHHHHHhHHhhhhHHHHHHH
Confidence            358999999999999999888999987777777777777889999999999999998864

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

Probab=90.26  E-value=2.7  Score=35.79  Aligned_cols=97  Identities=15%  Similarity=0.082  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhh--HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhh
Q 018954          153 EELVALREQVEDLQRKMFEK--DE-------LLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLAD  223 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EK--De-------lLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~Lad  223 (348)
                      +-|..+=.-|++-=+.+...  -.       +.=.|=+.-.++-.++..+++|..++.+++.=|.++-.+|-.+++++..
T Consensus        28 e~L~~vA~~vd~km~ei~~~~~~~~l~~~r~aVLaALNiadEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~  107 (138)
T 3hnw_A           28 EYLQRVASYINNKITEFNKEESYRRMSAELRTDMMYLNIADDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAES  107 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555533  22       2223333457777888888888888888888888888888888777777


Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHH
Q 018954          224 KQAALEKSQWEAMTVSRKAEKLQEEV  249 (348)
Q Consensus       224 KqAaLEKlewEa~tsn~Kve~LQ~dl  249 (348)
                      -...+++|+.++-.-..++-+|+..+
T Consensus       108 ~~~e~~~l~~~~~~l~~~~~~le~~~  133 (138)
T 3hnw_A          108 SAKEIKELKSEINKYQKNIVKLETEL  133 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777666655555555554443

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=90.14  E-value=6.2  Score=31.64  Aligned_cols=37  Identities=14%  Similarity=0.163  Sum_probs=21.3

Q ss_pred             HhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHH
Q 018954          210 TQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQ  246 (348)
Q Consensus       210 tq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ  246 (348)
                      ++.+|.+++.+|-+..-.+...|-|+..-|+|+--|.
T Consensus        63 ~ee~L~ea~~kLee~ek~~~~aE~ev~~L~RriqllE   99 (101)
T 3u1c_A           63 VLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            4555556666555555555566666666666655443

>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}

Probab=90.05  E-value=0.85  Score=38.24  Aligned_cols=52  Identities=25%  Similarity=0.369  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 018954          153 EELVALREQVEDLQRKMFEKDEL---------LKSLESSKSQVNAVHLKLDELKRLAAEKD  204 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDel---------LkSae~~~~em~a~~akvDELr~qlaeKe  204 (348)
                      +|+-...-|+---++||-+=...         ..++.+....+++++.||.||++++|+.=
T Consensus        42 ~Ei~~~E~QL~iArQKLkdAe~~~E~DPDevNK~tl~~R~~~Vsalq~KiaeLKrqLAd~v  102 (107)
T 2k48_A           42 ENITAHEQQLVTARQKLKDAEKAVEVDPDDVNKSTLQNRRAAVSTLETKLGELKRQLADLV  102 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666667776544332         34566667888999999999999988753

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

Probab=88.68  E-value=5.6  Score=33.80  Aligned_cols=64  Identities=17%  Similarity=0.212  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHH
Q 018954          152 IEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAK  218 (348)
Q Consensus       152 ~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdak  218 (348)
                      -+|+..++++++.|...+-+++   +.+..++.++..++-+++++++++.+-..=+..+|-++....
T Consensus        67 adEl~k~~~~~~~L~~~l~~~~---kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le  130 (138)
T 3hnw_A           67 ADDYFKAKKMADSLSLDIENKD---KEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLE  130 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3588888899988888887764   455666778888888888888887776666666666655443

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

Probab=88.49  E-value=5  Score=30.82  Aligned_cols=75  Identities=13%  Similarity=0.125  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHh
Q 018954          187 NAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEGL  266 (348)
Q Consensus       187 ~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~i  266 (348)
                      .++..||-.|+.+.       ..++..+..+..+|-+.....++++-|+..-++|+.-|++|++..+..+......++..
T Consensus         2 ~~ikkKm~~lk~e~-------d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLeea   74 (81)
T 1ic2_A            2 DAIKKKMQMLKLDK-------ENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLELA   74 (81)
T ss_dssp             CHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555443       23455566666677777778889999999999999999999999999999888888765


Q ss_pred             hh
Q 018954          267 IK  268 (348)
Q Consensus       267 t~  268 (348)
                      .+
T Consensus        75 ek   76 (81)
T 1ic2_A           75 DK   76 (81)
T ss_dssp             GG
T ss_pred             HH
Confidence            53

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=87.83  E-value=1.1  Score=38.67  Aligned_cols=34  Identities=29%  Similarity=0.366  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhh
Q 018954          188 AVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKL  221 (348)
Q Consensus       188 a~~akvDELr~qlaeKe~likStq~QLsdaki~L  221 (348)
                      .+..+++.|+.++.||+.+|.+.|.||.+-|..+
T Consensus       100 ~~e~r~~~L~~ql~e~e~ll~~lq~QL~~LK~v~  133 (135)
T 2e7s_A          100 AIEILNKRLTEQLREKDMLLDTLTLQLKNLKKVM  133 (135)
T ss_dssp             HHHHHHHHHHHTTTHHHHCC--------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3577888999999999999999999998877643

>2p22_C Protein SRN2; endosome, trafficking complex, VPS23, VPS28, VPS37, MVB12; 2.70A {Saccharomyces cerevisiae} PDB: 2caz_C 2f66_C

Probab=87.26  E-value=16  Score=32.65  Aligned_cols=88  Identities=10%  Similarity=0.090  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhh-------hhHHHHHHHHHHHHHHhhhHHHHHHHHHhhh
Q 018954          180 ESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKL-------ADKQAALEKSQWEAMTVSRKAEKLQEEVESM  252 (348)
Q Consensus       180 e~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~L-------adKqAaLEKlewEa~tsn~Kve~LQ~dl~sm  252 (348)
                      .+..+++..+...++++|.++-++=.-++++..+.+.....+       =.-.+.+++|+-.|..+...++.|.+....-
T Consensus        75 ~s~ae~ll~l~~~Le~~r~~l~~~l~~~~~L~~~~~~k~q~~~~~ls~~~sp~~L~~~L~~a~~e~eeeS~~l~~~F~~~  154 (192)
T 2p22_C           75 RDQFKQLEENFEDLHEQKDKVQALLENARILESKYVASWQDYHSEFSKKYGDIALKKKLEQNTKKLDEESSQLETTTRSI  154 (192)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHHHHHHHHSCSCC
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            444455556666666666666666666666666665544333       1235778999999999999999999998764


Q ss_pred             --hhhHHHHHHHHHHhh
Q 018954          253 --QGEMSSFMQIFEGLI  267 (348)
Q Consensus       253 --~~EIsslm~~fe~it  267 (348)
                        +-++..|...|..+.
T Consensus       155 ~~e~dv~~Fl~~y~~~R  171 (192)
T 2p22_C          155 DSADDLDQFIKNYLDIR  171 (192)
T ss_dssp             CCHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHH
Confidence              567889988886544

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=87.11  E-value=9  Score=29.69  Aligned_cols=54  Identities=13%  Similarity=0.224  Sum_probs=33.8

Q ss_pred             HHhhHHHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHHHHHHHHHH
Q 018954          212 LQLSDAKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMSSFMQIFEG  265 (348)
Q Consensus       212 ~QLsdaki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~  265 (348)
                      .++.+.+..++...+.|.++..+.-.-.+--..|=+==-.++.||++.++++++
T Consensus        26 ~~~~~~q~~i~~lE~eL~~~r~e~~~q~~EYq~LlnvK~~Ld~EIatYRkLLEG   79 (84)
T 1gk4_A           26 VEAANYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYRKLLEG   79 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHcC
Confidence            355666666666666666666665444433333333333578999999999874

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

Probab=87.11  E-value=4  Score=35.96  Aligned_cols=60  Identities=18%  Similarity=0.165  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHHH
Q 018954          176 LKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWEA  235 (348)
Q Consensus       176 LkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewEa  235 (348)
                      +..++.+..+...+..+|..|...+.+|..++..+|.++.--++.+.-.+..+.+||-|-
T Consensus        67 ~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN  126 (152)
T 3a7p_A           67 LNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEH  126 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            557888889999999999999999999999999999999999999998888888888764

>4fi5_A Nucleoprotein; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.20A {Hantaan virus}

Probab=87.05  E-value=1.5  Score=37.03  Aligned_cols=56  Identities=21%  Similarity=0.270  Sum_probs=41.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Q 018954          150 KEIEELVALREQVEDLQRKMFEKDEL---------LKSLESSKSQVNAVHLKLDELKRLAAEKDS  205 (348)
Q Consensus       150 kd~eEl~~LreQVeeLqkKL~EKDel---------LkSae~~~~em~a~~akvDELr~qlaeKe~  205 (348)
                      +--+|+....-|+---++||.+=...         ..++......+++++.||+||++++|+.=+
T Consensus        26 eLq~Ei~~~E~QL~~ArQKLkdA~~~~e~DPDevNK~tl~~R~~~Vs~lq~KiaeLKrqLAd~va   90 (113)
T 4fi5_A           26 ELQREINAHEGQLVIARQKVRDAEKQYEKDPDELNKRTLTDREGVAVSIQAKIDELKRQLADRIA   90 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34457777777888888888654443         346667778999999999999999988643

>2ic6_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 1.15A {Sin nombre virus}

Probab=87.02  E-value=1.4  Score=35.08  Aligned_cols=51  Identities=24%  Similarity=0.365  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018954          153 EELVALREQVEDLQRKMFEKDEL---------LKSLESSKSQVNAVHLKLDELKRLAAEK  203 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDel---------LkSae~~~~em~a~~akvDELr~qlaeK  203 (348)
                      +|+-...-|+---++||-+=...         ..++......+++++.||.+|++++|+.
T Consensus        12 ~e~~~~E~QL~~A~QKLkdA~~~~e~DPDevNK~~~~~R~~~V~~lq~Ki~elkrqlAd~   71 (78)
T 2ic6_A           12 DNITLHEQRLVTTRQKLKDAERAVELDPDDVNKSTLQSRRAAVSALETKLGELKRELADL   71 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555565433222         3345555688888888888888888875

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=86.82  E-value=14  Score=31.67  Aligned_cols=109  Identities=18%  Similarity=0.232  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHHHHHHHH
Q 018954          155 LVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAALEKSQWE  234 (348)
Q Consensus       155 l~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaLEKlewE  234 (348)
                      |.....++++..+..-|-+..++.+++..   ..-..+|+.|-.+|.+-....+.+-.-..++--+|+--..-|++.+--
T Consensus        19 l~~a~~kLeeaek~adE~eR~~k~lE~r~---~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~dLeraeeR   95 (147)
T 2b9c_A           19 LATALQKLEEAEKAADESERGMKVIESRA---QKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEER   95 (147)
T ss_dssp             TTHHHHHHHHHHHHHHHHTHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh---cccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            44566778888888888887777776653   344556777777777767777777777888888999999999999999


Q ss_pred             HHHhhhHHHHHHHHHhhhhhhHHHHHHHHHHh
Q 018954          235 AMTVSRKAEKLQEEVESMQGEMSSFMQIFEGL  266 (348)
Q Consensus       235 a~tsn~Kve~LQ~dl~sm~~EIsslm~~fe~i  266 (348)
                      +-....|+-.|+++|..+..-+-+|....++-
T Consensus        96 ae~aE~k~~eLEeeL~~~~~nlKsLE~~eeka  127 (147)
T 2b9c_A           96 AELSEGKCAELEEELKTVTNNLKSLEDKVEEL  127 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHH
Confidence            99999999999999999999999987766543

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

Probab=86.17  E-value=23  Score=33.57  Aligned_cols=31  Identities=19%  Similarity=0.293  Sum_probs=14.4

Q ss_pred             HHHHhhhHHHHHHHHHhhhhhhHHHHHHHHH
Q 018954          234 EAMTVSRKAEKLQEEVESMQGEMSSFMQIFE  264 (348)
Q Consensus       234 Ea~tsn~Kve~LQ~dl~sm~~EIsslm~~fe  264 (348)
                      ++-.-.+|+++|++++-.+..+|.-+.+.++
T Consensus       437 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  467 (471)
T 3mq9_A          437 EKAQGQKKVEELEGEITTLNHKLQDASAEVE  467 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344555555544444444444444443

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=85.12  E-value=13  Score=29.57  Aligned_cols=52  Identities=10%  Similarity=0.150  Sum_probs=25.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhh
Q 018954          171 EKDELLKSLESSKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLA  222 (348)
Q Consensus       171 EKDelLkSae~~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~La  222 (348)
                      |||.++.-++....++..+......+-.++..=-.=|+.++.+|-.+...|.
T Consensus        17 e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~   68 (101)
T 3u59_A           17 DKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVK   68 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666665555555544444444443333333444444444443333

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=84.22  E-value=6.2  Score=30.88  Aligned_cols=15  Identities=20%  Similarity=0.627  Sum_probs=12.5

Q ss_pred             hhhhhHHHHHHHHHH
Q 018954          251 SMQGEMSSFMQIFEG  265 (348)
Q Consensus       251 sm~~EIsslm~~fe~  265 (348)
                      .++.||++.++++++
T Consensus        67 ~Le~EIatYRkLLEG   81 (86)
T 1x8y_A           67 ALDMEIHAYRKLLEG   81 (86)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHcC
Confidence            578899999998875

>2ic9_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 2.00A {Sin nombre virus}

Probab=83.69  E-value=2.8  Score=34.57  Aligned_cols=52  Identities=23%  Similarity=0.334  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 018954          153 EELVALREQVEDLQRKMFEKDEL---------LKSLESSKSQVNAVHLKLDELKRLAAEKD  204 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDel---------LkSae~~~~em~a~~akvDELr~qlaeKe  204 (348)
                      +|+-...-|+---++||-+=...         ..++.+....+++++.||.+|++++|+.=
T Consensus        12 ~e~~~~E~QL~~A~QKLkdA~~~~e~DPDevNk~~~~~R~~~V~~lq~Ki~elkr~lAd~v   72 (96)
T 2ic9_A           12 DNITLHEQRLVTTRQKLKDAERAVELDPDDVNKSTLQSRRAAVSALETKLGELKRELADLI   72 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555666666666443322         33455556888888888888888888753

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=82.32  E-value=17  Score=28.85  Aligned_cols=86  Identities=13%  Similarity=0.157  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhHHHHHHHhHHhhHHHHhhhhHHHHH
Q 018954          153 EELVALREQVEDLQRKMFEKDELLKSLES----SKSQVNAVHLKLDELKRLAAEKDSLIKSTQLQLSDAKIKLADKQAAL  228 (348)
Q Consensus       153 eEl~~LreQVeeLqkKL~EKDelLkSae~----~~~em~a~~akvDELr~qlaeKe~likStq~QLsdaki~LadKqAaL  228 (348)
                      .=+.+|+-+.+....+.-.-+.-++.++.    ...+|.+++.++--|..++-       -++.+|.+++.+|-...-..
T Consensus         9 kKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld-------~~~e~l~~a~~kLe~~ek~~   81 (101)
T 3u59_A            9 KKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVE-------KYSESVKEAQEKLEQAEKKA   81 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555554444444444443    35677777777776666654       36667778887777777777


Q ss_pred             HHHHHHHHHhhhHHHHH
Q 018954          229 EKSQWEAMTVSRKAEKL  245 (348)
Q Consensus       229 EKlewEa~tsn~Kve~L  245 (348)
                      ...|-||..-|+|+--|
T Consensus        82 ~~AE~evasLnRriqll   98 (101)
T 3u59_A           82 TDAEAEVASLNRRIQLV   98 (101)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            88888888888877644

>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1

Probab=81.47  E-value=3.9  Score=34.98  Aligned_cols=37  Identities=27%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhhhHH
Q 018954          217 AKIKLADKQAALEKSQWEAMTVSRKAEKLQEEVESMQGEMS  257 (348)
Q Consensus       217 aki~LadKqAaLEKlewEa~tsn~Kve~LQ~dl~sm~~EIs  257 (348)
                      ++-.|.-|+|-||+|+    .-+.|++.|+..++.++.+|+
T Consensus        49 ~qsele~k~aeLe~le----eL~~ki~eL~~kvA~le~e~~   85 (125)
T 2pms_C           49 LQSKLDAKKAKLSKLE----ELSDKIDELDAEIAKLEDQLK   85 (125)
T ss_dssp             HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH----HHHhHHHHHHHHHHHHHHHHH
Confidence            4455778888899881    234455555555555555544

>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1

Probab=81.40  E-value=4.1  Score=34.87  Aligned_cols=51  Identities=24%  Similarity=0.289  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHhH-H------hhHHHHhhhhHHHHHHHHHHHHH
Q 018954          186 VNAVHLKLDELKRLAAEKDSLIKSTQL-Q------LSDAKIKLADKQAALEKSQWEAM  236 (348)
Q Consensus       186 m~a~~akvDELr~qlaeKe~likStq~-Q------Lsdaki~LadKqAaLEKlewEa~  236 (348)
                      +..++.+||+|...+|+=+--|.-.+. .      +...+-.|+.|+|-|+|.|-++.
T Consensus        63 leeL~~ki~eL~~kvA~le~e~~~~e~~~~~~~~~~e~le~~la~KkAEleKtqa~Ld  120 (125)
T 2pms_C           63 LEELSDKIDELDAEIAKLEDQLKAAEENNNVEDYFKEGLEKTIAAKKAELEKTEADLK  120 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCC----CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667777777777766655553322 1      45567889999999999886654

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=81.21  E-value=13  Score=31.33  Aligned_cols=53  Identities=26%  Similarity=0.310  Sum_probs=41.6

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018954          148 SEKEIEELVALREQVEDLQRKMFEKDELLKSLESSKSQVNAVHLKLDELKRLA  200 (348)
Q Consensus       148 ~~kd~eEl~~LreQVeeLqkKL~EKDelLkSae~~~~em~a~~akvDELr~ql  200 (348)
                      +..++.|+-.|..++....+.|.+|...+.-++..+.+..+...+|.=|+.|+
T Consensus        19 ~~~~~~ei~~L~~~L~~AEeaL~~Kq~~idelk~ei~q~~~~lE~I~vLkaQv   71 (110)
T 2v4h_A           19 SHMASMQLEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQA   71 (110)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHH
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566689999999999999999999888888887777766666777676665

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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

No hit with probability above 80.00