Citrus Sinensis ID: 019459

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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
Protein Sequence
MSQSSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH
Secondary Structure (PSIPRED)
ccccccccccccccccHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
msqssgesgggpdfhlpdevlaviptdpydqlDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLnddnssaetvdigtcdqpvpraypdkdggnngytahhsfngstdmgntvDEVSrntaqrfsltpyitprltptgtpkvistsvsprgysvagspkrtsgtmsptktqndgrislsswypssqqssaanspprgrslpgrtpridgkeFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAEEifgtdnkdLYLYFQGLLNRNVH
Flexible Loop (DISEMBL)
msqssgesgggpdfhLPDEVLAVIPTDPYDQLDLARKITSMAIasrvskletetgtmrqMLYEKDRLICELEERLSHVQKVYQeadsklkifIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSlnddnssaetvdIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAqrfsltpyitprltptgtpkvistsvsprgysvagspkrtsgtmsptktqndGRISLSSWYPSsqqssaanspprgrslpgrtpridgKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAeeifgtdnkdlYLYFQgllnrnvh
Low Complexity Region (SEG)
MSQSSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRIslsswypssqqssaansppRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH
Disordered region (IsUnstruct)
***************LPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNA************************************************************************************************TPYI*****************************************************************************************LSYEQFSAFLASIK*****************EIFGTDNKDLYLYFQGLLN****
Disordered Region (DISOPRED)
****************PDEVLAVIPTDPYDQLDLARKITSMAIA*********************************************************************************************************************************************************************************************************************************************QARSRLSYEQFSAFLASIKE****************EIFGTDNKDLYLYFQGLLN****
Disordered Region (DISEMBL)
**********GPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRFSLTPYITPRLTPTGTPKVIS****************************DGRISLSSW******************LPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH
Disordered Region (DISPRO)
*************FHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQS*******************************************************************T****P**********************************************************************IDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNR***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSQSSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASxxxxxxxxxxxxxxxxxxxxxFGTDNKDLYLYFQGLLNRNVH
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	340	2.2.26 [Sep-21-2011]
Q93W28	337	Uncharacterized protein A	no	no	0.908	0.916	0.426	9e-64

>sp|Q93W28|Y4554_ARATH Uncharacterized protein At4g15545 OS=Arabidopsis thaliana GN=At4g15545 PE=1 SV=1

 Score =  244 bits (622), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 146/342 (42%), Positives = 206/342 (60%), Gaps = 33/342 (9%)

Query: 10  GGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLIC 69
           G   F LPDE+L V+P+DP++QLD+ARKITS+A+++RVS LE+E+  +R++L EK++   
Sbjct: 18  GSRSFDLPDELLQVLPSDPFEQLDVARKITSIALSTRVSALESESSDLRELLAEKEKEFE 77

Query: 70  ELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQ 129
           EL+  +  ++    +A  KL +   +   L +E  SL+ T + L RD++KLE F++ LM 
Sbjct: 78  ELQSHVESLEASLSDAFHKLSLADGEKENLIRENASLSNTVKRLQRDVSKLEGFRKTLMM 137

Query: 130 SLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVS---RN 186
           SL DD+ +A T  I    +P P      D       + HS   S      ++  +    N
Sbjct: 138 SLQDDDQNAGTTQI--IAKPTP-----NDDDTPFQPSRHSSIQSQQASEAIEPAATDNEN 190

Query: 187 TAQRFSLT---PYI----TPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQ- 238
            A + SL+   P +    TPRLTP G+P ++S S +P+  S   SP+R S + + T+   
Sbjct: 191 DAPKPSLSASLPLVSQTTTPRLTPPGSPPILSASGTPKTTSRPISPRRHSVSFATTRGMF 250

Query: 239 NDGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLAS 298
           +D R S+S   P SQ                RT R+DGKEFFRQ RSRLSYEQF AFL +
Sbjct: 251 DDTRSSISISEPGSQT--------------ART-RVDGKEFFRQVRSRLSYEQFGAFLGN 295

Query: 299 IKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           +K+LNA KQTREETLRKAEEIFG DN+DLY+ F+GL+ RN H
Sbjct: 296 VKDLNAHKQTREETLRKAEEIFGGDNRDLYVIFEGLITRNAH 337

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	340
255544664	345	conserved hypothetical protein [Ricinus	0.985	0.971	0.782	1e-148
224094224	337	predicted protein [Populus trichocarpa]	0.970	0.979	0.768	1e-143
225465079	342	PREDICTED: uncharacterized protein LOC10	1.0	0.994	0.736	1e-140
224081441	340	predicted protein [Populus trichocarpa]	0.988	0.988	0.743	1e-135
356526425	339	PREDICTED: uncharacterized protein LOC10	0.988	0.991	0.732	1e-128
356556654	339	PREDICTED: uncharacterized protein LOC10	0.991	0.994	0.732	1e-128
54310820	336	putative protein [Avicennia marina]	0.967	0.979	0.715	1e-128
449464648	332	PREDICTED: uncharacterized protein LOC10	0.976	1.0	0.705	1e-123
297844578	325	hypothetical protein ARALYDRAFT_471850 [	0.935	0.978	0.656	1e-120
147815259	380	hypothetical protein VITISV_010986 [Viti	0.914	0.818	0.648	1e-116

>gi|255544664|ref|XP_002513393.1| conserved hypothetical protein [Ricinus communis] gi|223547301|gb|EEF48796.1| conserved hypothetical protein [Ricinus communis]

 Score =  531 bits (1368), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 263/336 (78%), Positives = 295/336 (87%), Gaps = 1/336 (0%)

Query: 6   GESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKD 65
           G   GGPDFHLPDE+LAVIPTDPYDQLDLARKITSMAIASRVSKLE ETG M+Q +YEKD
Sbjct: 10  GVGAGGPDFHLPDEILAVIPTDPYDQLDLARKITSMAIASRVSKLEAETGRMKQKMYEKD 69

Query: 66  RLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKR 125
           R+I ELEE++SH+Q+ YQEA+S+LKI +DDN KLA ERDS AM+ + L+RDLAKLETFKR
Sbjct: 70  RVIYELEEKVSHLQRAYQEAESRLKITLDDNMKLANERDSFAMSVKKLTRDLAKLETFKR 129

Query: 126 QLMQSLNDDN-SSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVS 184
           QLMQSLNDDN S  ETVDI TCDQ VP+AY DKD G NG+TA +S++GSTD G+T  + S
Sbjct: 130 QLMQSLNDDNLSQTETVDIVTCDQSVPKAYSDKDEGMNGFTAQNSYSGSTDTGSTTSDAS 189

Query: 185 RNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRIS 244
           R   QRF++TPYITPRLTPTGTPK+IS+SVSPRG+S AGSP++TSGT SPT+ Q DGR  
Sbjct: 190 RLAMQRFAITPYITPRLTPTGTPKIISSSVSPRGFSTAGSPQKTSGTTSPTRPQYDGRTV 249

Query: 245 LSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNA 304
            SSWYPSSQQSSAANSPPRGR +P RTPRIDGKEFFRQARSRLSYEQFSAFLA+IKELNA
Sbjct: 250 FSSWYPSSQQSSAANSPPRGRPMPARTPRIDGKEFFRQARSRLSYEQFSAFLANIKELNA 309

Query: 305 QKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           QKQTREETLRKAEEIFGTDNKDLYL FQGLLNRN+ 
Sbjct: 310 QKQTREETLRKAEEIFGTDNKDLYLSFQGLLNRNIQ 345

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094224|ref|XP_002310098.1| predicted protein [Populus trichocarpa] gi|118488461|gb|ABK96045.1| unknown [Populus trichocarpa] gi|222853001|gb|EEE90548.1| predicted protein [Populus trichocarpa]

 Score =  513 bits (1321), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 255/332 (76%), Positives = 291/332 (87%), Gaps = 2/332 (0%)

Query: 10  GGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLIC 69
           GG DF LPDE+LAVIP DPYDQLDLARKITSMAIASRVS LE+E G M+Q +++KDR+I 
Sbjct: 7   GGTDFSLPDEILAVIPMDPYDQLDLARKITSMAIASRVSYLESERGRMKQRMFDKDRIIF 66

Query: 70  ELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQ 129
           EL E+L H+Q+V QE++SKL + +D+N KL+KE+DSLAMTA+ L RDLAKLETFKRQLMQ
Sbjct: 67  ELREKLGHLQRVCQESESKLSLALDENVKLSKEKDSLAMTAKKLGRDLAKLETFKRQLMQ 126

Query: 130 SLNDDNSS-AETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTA 188
           SL+DDNSS AETVDIGTCDQ VPRAY +KD G N Y AHH+FNGSTDMGNT DE  R+  
Sbjct: 127 SLSDDNSSQAETVDIGTCDQSVPRAYSEKDEGMNVYVAHHNFNGSTDMGNT-DEAPRHAG 185

Query: 189 QRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRISLSSW 248
           QR+S+TPYITPRLTP+GTPK+ISTS SP+GYS AGSP++TSG  SPTK Q DGR SLSSW
Sbjct: 186 QRYSITPYITPRLTPSGTPKIISTSASPKGYSAAGSPQKTSGATSPTKPQYDGRASLSSW 245

Query: 249 YPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQT 308
           YPSSQQSSAANSPPRG  +PGR PR+DGKEFFRQARSRLSYEQFSAFLA+IK+LN Q+QT
Sbjct: 246 YPSSQQSSAANSPPRGHPIPGRAPRVDGKEFFRQARSRLSYEQFSAFLANIKKLNGQEQT 305

Query: 309 REETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           REETLRKAEEIFGTDNKDLY  F+GLLNRN+H
Sbjct: 306 REETLRKAEEIFGTDNKDLYFSFRGLLNRNIH 337

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465079|ref|XP_002266129.1| PREDICTED: uncharacterized protein LOC100261617 [Vitis vinifera] gi|296082687|emb|CBI21692.3| unnamed protein product [Vitis vinifera]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 252/342 (73%), Positives = 291/342 (85%), Gaps = 2/342 (0%)

Query: 1   MSQSSG-ESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQ 59
           MSQ+S   SG GPDF++ D++LAVIPTDPYDQLDLARKITSMAIASRVSKLE+E G +RQ
Sbjct: 1   MSQNSNYNSGSGPDFNITDDILAVIPTDPYDQLDLARKITSMAIASRVSKLESEVGRLRQ 60

Query: 60  MLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK 119
           M+YEKDR+  +LEE++S +++ YQE++S+LK+ ID+N +L+KERDSLAMTA+ + RDLAK
Sbjct: 61  MMYEKDRVAFDLEEKVSQLERAYQESESRLKMVIDENTRLSKERDSLAMTAKKMGRDLAK 120

Query: 120 LETFKRQLMQSLNDDNSS-AETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGN 178
           LETFKRQLMQSL+DDNSS  ETVDIGTCDQ +P+AYPD D G NGY  +   +G T+  N
Sbjct: 121 LETFKRQLMQSLSDDNSSQTETVDIGTCDQSIPKAYPDIDDGTNGYVVNQPLSGFTEYRN 180

Query: 179 TVDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQ 238
           + DE SR   QRFS+TPYITPR TP+GTPK+ ST  SPRGYS   SP +TSG  SPTK+Q
Sbjct: 181 STDEASRLAVQRFSVTPYITPRFTPSGTPKIFSTGGSPRGYSAVASPNKTSGATSPTKSQ 240

Query: 239 NDGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLAS 298
            DGR +LSSWYPSSQQSSAANSPPR R LP RTPRIDGKEFFRQARSRLSYEQFSAFLA+
Sbjct: 241 YDGRGALSSWYPSSQQSSAANSPPRARPLPARTPRIDGKEFFRQARSRLSYEQFSAFLAN 300

Query: 299 IKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           IKELNAQKQ+REETLRKAEEIFGTDNKDLYL FQGLLNRN H
Sbjct: 301 IKELNAQKQSREETLRKAEEIFGTDNKDLYLSFQGLLNRNPH 342

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081441|ref|XP_002306412.1| predicted protein [Populus trichocarpa] gi|222855861|gb|EEE93408.1| predicted protein [Populus trichocarpa]

 Score =  487 bits (1253), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 252/339 (74%), Positives = 292/339 (86%), Gaps = 3/339 (0%)

Query: 5   SGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEK 64
           S  + GG DF LPDE+LAVIP DPY+QLDLARKITSMAIASRVS LE+E G M+Q + EK
Sbjct: 2   SQHTTGGTDFSLPDEILAVIPLDPYEQLDLARKITSMAIASRVSNLESEMGRMKQKMLEK 61

Query: 65  DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFK 124
           D +I EL+E+L ++Q+V QE++SKL + +D+N KL+KERDSLAMTA+ L RDLAKLETFK
Sbjct: 62  DHIIFELQEKLGNLQRVCQESESKLSLTLDENVKLSKERDSLAMTAKKLGRDLAKLETFK 121

Query: 125 RQLMQSLNDDNSS-AETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDM--GNTVD 181
           RQLMQSL+DD+SS AE+VDIGTCDQ VPR YPDKD G NGY  HHSF+G TD+   N++D
Sbjct: 122 RQLMQSLSDDSSSQAESVDIGTCDQSVPRVYPDKDEGMNGYVTHHSFSGCTDIRNNNSID 181

Query: 182 EVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDG 241
           E SR+  QRFS+TPYITPR TPTGTP +ISTSVSP+GYS AGSP+RTSG  SPTK Q D 
Sbjct: 182 EASRHAGQRFSITPYITPRRTPTGTPNIISTSVSPKGYSAAGSPQRTSGATSPTKPQYDK 241

Query: 242 RISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKE 301
           + SLSSWYPSSQQSSAANSPPRGR++PGR PR+DGKEFFRQARSRLSYEQFSAFLA+IK+
Sbjct: 242 QASLSSWYPSSQQSSAANSPPRGRAIPGRPPRMDGKEFFRQARSRLSYEQFSAFLANIKK 301

Query: 302 LNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           LN Q+QTREETLRKA EIFGT+NKDLYL FQGLLNRN+H
Sbjct: 302 LNGQEQTREETLRKAGEIFGTENKDLYLSFQGLLNRNIH 340

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526425|ref|XP_003531818.1| PREDICTED: uncharacterized protein LOC100799281 [Glycine max]

 Score =  464 bits (1194), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 247/337 (73%), Positives = 278/337 (82%), Gaps = 1/337 (0%)

Query: 4   SSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYE 63
           SS  +G   DF LPDE+L+VIPTDPY QLDLARKITSMAIASRVS LE++   +RQ L E
Sbjct: 2   SSQGTGSVVDFDLPDEILSVIPTDPYQQLDLARKITSMAIASRVSSLESDASRLRQKLLE 61

Query: 64  KDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETF 123
           KDR+I +LE+RLS + +   + DS L   +++N KL+KERD LA T + LSRD AKLETF
Sbjct: 62  KDRIILDLEDRLSSLTRASHQTDSTLNTALNENIKLSKERDQLAATVKKLSRDFAKLETF 121

Query: 124 KRQLMQSLNDDNSS-AETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDE 182
           K+QLMQSL DDN+S AET+DIGTCDQ VP+AYPDKD   +GY  HHS+NG  D+G T DE
Sbjct: 122 KKQLMQSLTDDNASHAETIDIGTCDQSVPKAYPDKDDDGSGYMVHHSYNGPADVGKTNDE 181

Query: 183 VSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGR 242
            SR + QRFSLTPYITPRLTPTGTPKVIST+ SPR YS AGSPK+TSG  SPTK   DGR
Sbjct: 182 ASRYSGQRFSLTPYITPRLTPTGTPKVISTAGSPREYSAAGSPKKTSGATSPTKLPYDGR 241

Query: 243 ISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKEL 302
            SLSSWY SSQQSSAANSPP GRSLP RTP+IDGKEFFRQARSRLSYEQFSAFLA+IKEL
Sbjct: 242 TSLSSWYSSSQQSSAANSPPWGRSLPVRTPKIDGKEFFRQARSRLSYEQFSAFLANIKEL 301

Query: 303 NAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNV 339
           NAQKQTREETLRKA+EIFG+DNKDLYL FQGLLNRN 
Sbjct: 302 NAQKQTREETLRKADEIFGSDNKDLYLSFQGLLNRNA 338

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556654|ref|XP_003546638.1| PREDICTED: uncharacterized protein LOC100790987 [Glycine max]

 Score =  464 bits (1193), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 249/340 (73%), Positives = 279/340 (82%), Gaps = 3/340 (0%)

Query: 1   MSQSSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQM 60
           MSQ    +G   DF LPDE+L+VIPTDPY QLDLARKITSMAIASRVS LE++   +RQ 
Sbjct: 1   MSQQG--TGSVVDFDLPDEILSVIPTDPYQQLDLARKITSMAIASRVSSLESDASRLRQK 58

Query: 61  LYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL 120
           L EKDR+I +LE+RLS + +   ++DS L   +++N KL KERD LA T + LSRD AKL
Sbjct: 59  LLEKDRIILDLEDRLSSLTRASHQSDSTLNTALNENIKLTKERDQLAATVKKLSRDFAKL 118

Query: 121 ETFKRQLMQSLNDDNS-SAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNT 179
           ETFK+QLMQSL DDN+  AET DIGTCDQ VP+AYPDKD   +G  AHHS+NG  D+G T
Sbjct: 119 ETFKKQLMQSLTDDNALHAETTDIGTCDQSVPKAYPDKDDDRSGNMAHHSYNGPADVGKT 178

Query: 180 VDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQN 239
            DE SR + QRFSLTPYITPRLTPTGTPKVIST+ SPRGYS A SPK+TSG  SPTK   
Sbjct: 179 NDEASRYSGQRFSLTPYITPRLTPTGTPKVISTAGSPRGYSAAVSPKKTSGFTSPTKLPY 238

Query: 240 DGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASI 299
           DGR SLSSWY SSQQSSAANSPPRGRSLPGRTP+IDGKEFFRQARSRLSYEQFSAFLA+I
Sbjct: 239 DGRTSLSSWYSSSQQSSAANSPPRGRSLPGRTPKIDGKEFFRQARSRLSYEQFSAFLANI 298

Query: 300 KELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNV 339
           KELNAQKQTREETLRKA+EIFG+DNKDLYL FQGLLNRN 
Sbjct: 299 KELNAQKQTREETLRKADEIFGSDNKDLYLSFQGLLNRNA 338

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|54310820|gb|AAV33647.1| putative protein [Avicennia marina]

 Score =  462 bits (1190), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 239/334 (71%), Positives = 279/334 (83%), Gaps = 5/334 (1%)

Query: 9   GGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLI 68
           GG PDF LPDE+L+V+PTDPYDQLDLARKITSMAIASRV+KLETE GT+RQ L EKD LI
Sbjct: 6   GGAPDFDLPDEILSVMPTDPYDQLDLARKITSMAIASRVTKLETEAGTLRQRLREKDELI 65

Query: 69  CELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLM 128
            ELE+++S +   +Q+A+ +LKI  +DN KL KERDSLA+TA  L+RDLAKLE FKRQLM
Sbjct: 66  QELEDKVSQLDGAHQDAELRLKILREDNMKLLKERDSLALTANKLNRDLAKLEAFKRQLM 125

Query: 129 QSLNDDNSS--AETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRN 186
           QSLN++NS    ETVDIGT DQ VP+AY   D   NGYT HHS++GST+  +  D+VS+ 
Sbjct: 126 QSLNEENSKQQTETVDIGTYDQTVPKAYYTGD-EPNGYTKHHSYSGSTESASLNDDVSKQ 184

Query: 187 TAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRISLS 246
           T Q+ S+TPYI+PRLTPTGTPKVISTSVSPR YS AGSP++TSG  SPT+  ++GR SLS
Sbjct: 185 TGQKHSITPYISPRLTPTGTPKVISTSVSPRRYSAAGSPQKTSGITSPTR--HEGRGSLS 242

Query: 247 SWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQK 306
           SWYPSSQQSSAANSPPR R LP R P IDGKEFFRQARSRLS EQF +FLA++KELNAQ+
Sbjct: 243 SWYPSSQQSSAANSPPRARPLPARAPGIDGKEFFRQARSRLSLEQFGSFLANVKELNAQR 302

Query: 307 QTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           Q+REETLRKAEEIFG DNKDLY+ FQGLLNRN+H
Sbjct: 303 QSREETLRKAEEIFGMDNKDLYISFQGLLNRNIH 336

Source: Avicennia marina

Species: Avicennia marina

Genus: Avicennia

Family: Acanthaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464648|ref|XP_004150041.1| PREDICTED: uncharacterized protein LOC101220153 [Cucumis sativus] gi|449502508|ref|XP_004161660.1| PREDICTED: uncharacterized protein LOC101229610 [Cucumis sativus]

 Score =  448 bits (1152), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 240/340 (70%), Positives = 281/340 (82%), Gaps = 8/340 (2%)

Query: 1   MSQSSGESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQM 60
           MSQSSG     PDF+LPDE+LAVIPTDPYDQLDLARKITSMAIASRVS LE E   M+Q 
Sbjct: 1   MSQSSG-----PDFNLPDEILAVIPTDPYDQLDLARKITSMAIASRVSNLEAEMIRMKQK 55

Query: 61  LYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL 120
           L EK++ I +L+E++SH++   QEA+S+LKI +DDN +L++ERDSL+MT++ L RDLAKL
Sbjct: 56  LKEKEKTIYDLQEKMSHLEHANQEAESRLKIALDDNTRLSRERDSLSMTSKKLGRDLAKL 115

Query: 121 ETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTV 180
           ETFKRQLMQSL+D++S  ETVDIGTCDQ VP+AY DKD   NG+ A HSF GST+  +T+
Sbjct: 116 ETFKRQLMQSLSDESSQTETVDIGTCDQAVPKAYTDKDEVTNGH-ATHSFGGSTETRSTI 174

Query: 181 DEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQND 240
            E  ++  QRFS +PYITPRLTP+ TPK+ISTSVSPRGYS   SP+  SG+ SPTK   D
Sbjct: 175 VE-GKHIGQRFS-SPYITPRLTPSATPKIISTSVSPRGYSTVASPQIMSGSTSPTKHSYD 232

Query: 241 GRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIK 300
           GRI+LS WYPSSQQSSAA+SPPR R L GR  R+DGKEFFR ARSRLS EQFSAFL++IK
Sbjct: 233 GRIALSPWYPSSQQSSAASSPPRSRQLSGRPARVDGKEFFRLARSRLSLEQFSAFLSNIK 292

Query: 301 ELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           ELNA KQTREETLRKAEEIFGTDNKDL+L FQGLLNRNVH
Sbjct: 293 ELNAHKQTREETLRKAEEIFGTDNKDLFLSFQGLLNRNVH 332

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844578|ref|XP_002890170.1| hypothetical protein ARALYDRAFT_471850 [Arabidopsis lyrata subsp. lyrata] gi|297336012|gb|EFH66429.1| hypothetical protein ARALYDRAFT_471850 [Arabidopsis lyrata subsp. lyrata]

 Score =  439 bits (1128), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 216/329 (65%), Positives = 265/329 (80%), Gaps = 11/329 (3%)

Query: 13  DFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELE 72
           DF LP+EVL+VIP DP++QLDLARKITSMAIASRVS L++E   +RQ L EK+ ++ ELE
Sbjct: 7   DFELPEEVLSVIPMDPFEQLDLARKITSMAIASRVSNLDSEVVELRQKLLEKESVVRELE 66

Query: 73  ERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLN 132
           E+ S +++  +EADS+LK+ ++DN  L KE+DSLA T   L+RDLAKLETFKRQL++SL+
Sbjct: 67  EKSSRLERDCREADSRLKVVLEDNMNLTKEKDSLAKTVTKLTRDLAKLETFKRQLIKSLS 126

Query: 133 DDNS-SAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRF 191
           D++    E VDI TCDQ VP+ + D+    N ++  H+++GSTD+ N + E S+ T  +F
Sbjct: 127 DESGPQTEPVDIRTCDQSVPKDHADE--RTNAHSIKHAYSGSTDLNNPIVEASKYTGNKF 184

Query: 192 SLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRISLSSWYPS 251
           S+TPYI+PRLTPT TPK+ISTSVSPRGYS AGSPKRTSG +SPTK         + WYP 
Sbjct: 185 SMTPYISPRLTPTATPKIISTSVSPRGYSAAGSPKRTSGAVSPTKA--------TLWYPL 236

Query: 252 SQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREE 311
           SQQSSAANSPPR R+LP RTPR+DGKEFFRQARSRLSYEQFS+FLA+IKELNAQKQTREE
Sbjct: 237 SQQSSAANSPPRNRTLPARTPRMDGKEFFRQARSRLSYEQFSSFLANIKELNAQKQTREE 296

Query: 312 TLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           TLRKA+EIFG DNKDLYL FQGLLNRN+ 
Sbjct: 297 TLRKADEIFGGDNKDLYLSFQGLLNRNMR 325

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147815259|emb|CAN74429.1| hypothetical protein VITISV_010986 [Vitis vinifera]

 Score =  425 bits (1093), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 221/341 (64%), Positives = 260/341 (76%), Gaps = 30/341 (8%)

Query: 1   MSQSSG-ESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQ 59
           MSQ+S   SG GPDF++ D++LAVIPTDPYDQLDLARKITSMAIASRVSKLE+E G +RQ
Sbjct: 69  MSQNSNYNSGSGPDFNITDDILAVIPTDPYDQLDLARKITSMAIASRVSKLESEVGRLRQ 128

Query: 60  MLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK 119
           M+YEKDR+  +LEE++S +++ YQE++S+LK+ ID+N +L+KERDSLAMTA+ + RDLAK
Sbjct: 129 MMYEKDRVAFDLEEKVSQLERAYQESESRLKMVIDENTRLSKERDSLAMTAKKMGRDLAK 188

Query: 120 LETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNT 179
                              ETVDIGTCDQ +P+AYPD D G NGY  +   +G T+  N+
Sbjct: 189 -----------------QTETVDIGTCDQSIPKAYPDIDDGTNGYVVNQPLSGFTEYRNS 231

Query: 180 VDEVSRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQN 239
            DE SR   QRFS+TPYITPR TP+GTPK+ ST  SPRGYS   SP +TSG  SPTK+Q 
Sbjct: 232 TDEASRLAVQRFSVTPYITPRFTPSGTPKIFSTGGSPRGYSAVASPNKTSGATSPTKSQY 291

Query: 240 DGRISLSSWYPSSQQSSAANSPPRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASI 299
           DGR +LSSWYPSSQQSSAANSPPR R LPG              +SRLSYEQFSAFLA+I
Sbjct: 292 DGRGALSSWYPSSQQSSAANSPPRARPLPG------------SEKSRLSYEQFSAFLANI 339

Query: 300 KELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
           KELNAQKQ+REETLRKAEEIFGTDNKDLYL FQGLLNRN H
Sbjct: 340 KELNAQKQSREETLRKAEEIFGTDNKDLYLSFQGLLNRNPH 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	340
TAIR|locus:2017933	325	AT1G16520 "AT1G16520" [Arabido	0.932	0.975	0.618	2.7e-100
TAIR|locus:505006472	337	AT4G15545 "AT4G15545" [Arabido	0.923	0.931	0.409	1.4e-57
TAIR|locus:2205230	310	AT1G56080 "AT1G56080" [Arabido	0.602	0.661	0.524	3.7e-48

TAIR|locus:2017933 AT1G16520 "AT1G16520" [Arabidopsis thaliana (taxid:3702)]

 Score = 995 (355.3 bits), Expect = 2.7e-100, P = 2.7e-100
 Identities = 203/328 (61%), Positives = 248/328 (75%)

Query:    13 DFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELE 72
             DF LP+EVL+VIP DP++QLDLARKITSMAIASRVS L++E   +RQ L  K+ ++ ELE
Sbjct:     7 DFELPEEVLSVIPMDPFEQLDLARKITSMAIASRVSNLDSEVVELRQKLLGKESVVRELE 66

Query:    73 ERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLN 132
             E+ S +++  +EADS+LK+ ++DN  L KE+DSLAMT   L+RDLAKLETFKRQL++SL+
Sbjct:    67 EKASRLERDCREADSRLKVVLEDNMNLTKEKDSLAMTVTKLTRDLAKLETFKRQLIKSLS 126

Query:   133 DDNS-SAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSRNTAQRF 191
             D++    E VDI TCDQP   +YP KDG  N ++   +++GSTD  N V E S+ T  +F
Sbjct:   127 DESGPQTEPVDIRTCDQP--GSYPGKDGRINAHSIKQAYSGSTDTNNPVVEASKYTGNKF 184

Query:   192 SLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRIXXXXXXXX 251
             S+T YI+PRLTPT TPK+ISTSVSPRGYS AGSPKRTSG +SPTK               
Sbjct:   185 SMTSYISPRLTPTATPKIISTSVSPRGYSAAGSPKRTSGAVSPTKA--------TLWYPS 236

Query:   252 XXXXXXXXXXXRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELNAQKQTREE 311
                        R R+LP RTPR+DGKEFFRQARSRLSYEQFS+FLA+IKELNAQKQTREE
Sbjct:   237 SQQSSAANSPPRNRTLPARTPRMDGKEFFRQARSRLSYEQFSSFLANIKELNAQKQTREE 296

Query:   312 TLRKAEEIFGTDNKDLYLYFQGLLNRNV 339
             TLRKA+EIFG +NKDLYL FQGLLNRN+
Sbjct:   297 TLRKADEIFGEENKDLYLSFQGLLNRNM 324

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:505006472 AT4G15545 "AT4G15545" [Arabidopsis thaliana (taxid:3702)]

 Score = 592 (213.5 bits), Expect = 1.4e-57, P = 1.4e-57
 Identities = 138/337 (40%), Positives = 197/337 (58%)

Query:    10 GGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLIC 69
             G   F LPDE+L V+P+DP++QLD+ARKITS+A+++RVS LE+E+  +R++L EK++   
Sbjct:    18 GSRSFDLPDELLQVLPSDPFEQLDVARKITSIALSTRVSALESESSDLRELLAEKEKEFE 77

Query:    70 ELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQ 129
             EL+  +  ++    +A  KL +   +   L +E  SL+ T + L RD++KLE F++ LM 
Sbjct:    78 ELQSHVESLEASLSDAFHKLSLADGEKENLIRENASLSNTVKRLQRDVSKLEGFRKTLMM 137

Query:   130 SLNDDNSSAETVDIGTCDQPVPRA-----YPDKDGGNNGYTAHHSFN-GSTDMGNTVDEV 183
             SL DD+ +A T  I    +P P        P +        A  +    +TD  N   + 
Sbjct:   138 SLQDDDQNAGTTQI--IAKPTPNDDDTPFQPSRHSSIQSQQASEAIEPAATDNENDAPKP 195

Query:   184 SRNTAQRFSLTPYITPRLTPTGTPKVISTSVSPRGYSVAGSPKRTSGTMSPTKTQNDGRI 243
             S + +    ++   TPRLTP G+P ++S S +P+  S   SP+R S + + T+   D   
Sbjct:   196 SLSASLPL-VSQTTTPRLTPPGSPPILSASGTPKTTSRPISPRRHSVSFATTRGMFDD-- 252

Query:   244 XXXXXXXXXXXXXXXXXXXRGRSLPGRTPRIDGKEFFRQARSRLSYEQFSAFLASIKELN 303
                                   S   RT R+DGKEFFRQ RSRLSYEQF AFL ++K+LN
Sbjct:   253 -----------TRSSISISEPGSQTART-RVDGKEFFRQVRSRLSYEQFGAFLGNVKDLN 300

Query:   304 AQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRNVH 340
             A KQTREETLRKAEEIFG DN+DLY+ F+GL+ RN H
Sbjct:   301 AHKQTREETLRKAEEIFGGDNRDLYVIFEGLITRNAH 337

GO:0006833 "water transport" evidence=RCA

GO:0009637 "response to blue light" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0010155 "regulation of proton transport" evidence=RCA

GO:0042744 "hydrogen peroxide catabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2205230 AT1G56080 "AT1G56080" [Arabidopsis thaliana (taxid:3702)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 116/221 (52%), Positives = 148/221 (66%)

Query:     7 ESGGGPDFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDR 66
             +SGG  DF+L DE+LAVIPTDPYDQLDLARKITSMAIASRVS LE++   +RQ L EKDR
Sbjct:     3 QSGG--DFNLSDEILAVIPTDPYDQLDLARKITSMAIASRVSNLESQVSGLRQKLLEKDR 60

Query:    67 LICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQ 126
             L+ ELE+R+S  +++Y EADS LK  +D+N KL +ERDSLA+TA+ L RD AKLE FKRQ
Sbjct:    61 LVHELEDRVSSFERLYHEADSSLKNVVDENMKLTQERDSLAITAKKLGRDYAKLEAFKRQ 120

Query:   127 LMQSLNDDN-SSAETVDIGTCDQPVPRAYPDKDGGNNGYTAHHSFNGSTDMGNTVDEVSR 185
             LMQSLNDDN S  ET D+    + VPR    KD  +NG     S++ +  +       S 
Sbjct:   121 LMQSLNDDNPSQTETADV----RMVPRG---KDENSNG-----SYSNNEGLSEARQRQSM 168

Query:   186 NTAQRFSLTPYITPRLTPTG-TPKVISTSVSPRGYSVAGSP 225
                   + TP  TP++  T  +P+  S + SP+ +S A SP
Sbjct:   169 TPQFSPAFTPSGTPKILSTAASPRSYSAASSPKLFSGAASP 209

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

---

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	340
PF02671	47	PAH: Paired amphipathic helix repeat; InterPro: IP	97.06
PF06637	442	PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 Th	97.05
PRK10884	206	SH3 domain-containing protein; Provisional	96.65
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.57
PRK11637	428	AmiB activator; Provisional	96.51
PRK11637	428	AmiB activator; Provisional	96.17
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	95.9
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.82
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.68
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	95.64
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.36
PF10186	302	Atg14: UV radiation resistance protein and autopha	95.34
PRK09039	343	hypothetical protein; Validated	95.31
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	94.81
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	94.81
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	94.74
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.66
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	94.6
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	94.45
COG2433	652	Uncharacterized conserved protein [Function unknow	94.44
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	94.21
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	94.2
PRK02224	880	chromosome segregation protein; Provisional	94.05
PF10205	102	KLRAQ: Predicted coiled-coil domain-containing pro	94.03
PF11180	192	DUF2968: Protein of unknown function (DUF2968); In	93.97
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	93.93
PHA02562	562	46 endonuclease subunit; Provisional	93.87
PRK03918	880	chromosome segregation protein; Provisional	93.66
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.62
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	93.56
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	93.52
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	93.39
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	93.33
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	92.87
COG4026	290	Uncharacterized protein containing TOPRIM domain,	92.73
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	92.52
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	92.42
KOG3990	305	consensus Uncharacterized conserved protein [Funct	92.41
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	92.4
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	92.38
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	92.36
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	92.21
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	92.2
PRK10884	206	SH3 domain-containing protein; Provisional	92.18
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	92.14
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.13
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	91.95
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	91.75
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	91.73
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	91.71
PRK02224	880	chromosome segregation protein; Provisional	91.46
KOG1103	561	consensus Predicted coiled-coil protein [Function	91.46
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	91.21
PHA02562	562	46 endonuclease subunit; Provisional	91.17
PF10186	302	Atg14: UV radiation resistance protein and autopha	91.03
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	90.84
PF00038	312	Filament: Intermediate filament protein; InterPro:	90.74
PRK09039	343	hypothetical protein; Validated	90.71
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.67
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	90.59
COG4942	420	Membrane-bound metallopeptidase [Cell division and	90.54
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	90.53
TIGR02231	525	conserved hypothetical protein. This family consis	90.36
PRK10698	222	phage shock protein PspA; Provisional	90.18
PF04899	70	MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 Th	90.08
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	89.86
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	89.84
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	89.8
KOG0963	629	consensus Transcription factor/CCAAT displacement	89.72
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	89.7
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	89.59
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	89.42
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	89.29
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	89.29
PF11594	106	Med28: Mediator complex subunit 28; InterPro: IPR0	89.24
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	89.23
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.18
PF00038	312	Filament: Intermediate filament protein; InterPro:	89.15
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	89.02
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	88.6
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	88.45
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	88.35
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	88.26
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	88.24
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	88.22
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	88.2
KOG4204	231	consensus Histone deacetylase complex, SIN3 compon	88.19
KOG0288	459	consensus WD40 repeat protein TipD [General functi	88.15
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	88.14
PF11068	131	YlqD: YlqD protein; InterPro: IPR021297 This bacte	88.11
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	88.05
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	87.93
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	87.89
KOG0933	1174	consensus Structural maintenance of chromosome pro	87.75
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	87.72
COG4942	420	Membrane-bound metallopeptidase [Cell division and	87.56
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	87.51
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	87.26
COG5602	1163	SIN3 Histone deacetylase complex, SIN3 component [	87.1
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	87.01
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	87.0
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	86.96
KOG0249	916	consensus LAR-interacting protein and related prot	86.95
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	86.78
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	86.75
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	86.48
KOG4010	208	consensus Coiled-coil protein TPD52 [General funct	86.45
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	86.39
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	86.35
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	86.26
KOG4398	359	consensus Predicted coiled-coil protein [General f	86.18
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	86.1
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	86.05
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	85.72
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	85.45
PF14662	193	CCDC155: Coiled-coil region of CCDC155	85.39
KOG1962	216	consensus B-cell receptor-associated protein and r	85.38
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	85.36
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	84.98
PRK04863	1486	mukB cell division protein MukB; Provisional	84.87
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	84.85
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	84.66
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	84.59
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	84.55
PRK13169	110	DNA replication intiation control protein YabA; Re	84.54
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	84.48
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	84.46
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	84.41
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	84.09
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	84.08
KOG0963	629	consensus Transcription factor/CCAAT displacement	84.06
PRK10803	263	tol-pal system protein YbgF; Provisional	84.06
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	83.94
PF04100	383	Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007	83.92
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	83.64
PF14932	256	HAUS-augmin3: HAUS augmin-like complex subunit 3	83.62
KOG0288	459	consensus WD40 repeat protein TipD [General functi	83.61
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	83.52
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	83.49
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	83.43
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	83.34
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	83.12
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	82.74
PRK04863	1486	mukB cell division protein MukB; Provisional	82.73
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	82.3
PLN03188	1320	kinesin-12 family protein; Provisional	82.25
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	82.2
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	82.07
KOG3433	203	consensus Protein involved in meiotic recombinatio	81.94
PF04201	162	TPD52: Tumour protein D52 family; InterPro: IPR007	81.88
PF11740	120	KfrA_N: Plasmid replication region DNA-binding N-t	81.76
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	81.65
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	81.65
KOG3650	120	consensus Predicted coiled-coil protein [General f	81.51
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	81.39
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	81.34
cd07638	200	BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of	81.12
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	80.8
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	80.68
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	80.56
PRK01156	895	chromosome segregation protein; Provisional	80.36
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	80.31
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	80.06
PF14817	632	HAUS5: HAUS augmin-like complex subunit 5	80.05
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	80.03

>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat

Probab=97.06  E-value=0.0019  Score=46.09  Aligned_cols=46  Identities=22%  Similarity=0.420  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhh
Q 019459          289 YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLL  335 (340)
Q Consensus       289 YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL  335 (340)
                      .|.|.+||..++.++.++.+++|...++.++|+. |+||...|...|
T Consensus         1 p~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~-hpdLl~~F~~Fl   46 (47)
T PF02671_consen    1 PEVYNEFLKILNDYKKGRISRSEVIEEVSELLRG-HPDLLEEFNRFL   46 (47)
T ss_dssp             HHHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT--HHHHHHHHHHS
T ss_pred             ChHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcc-CHHHHHHHHhhC
Confidence            3789999999999999999999999999999985 889999998764

The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....

>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals

Probab=97.05  E-value=0.0074  Score=61.23  Aligned_cols=72  Identities=26%  Similarity=0.353  Sum_probs=46.9

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------HHHHHHHHhHHHHHHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQ----------------------EADSKLKIFIDDNAKLAKERDSL  106 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~----------------------e~~~rl~~a~de~~kL~~E~~sL  106 (340)
                      +.|.=++.||..+.+..++..+||.+-..+|..|+                      |..-.-..|++|++.|.||||+|
T Consensus       282 Kveelar~Lr~~I~~VarENs~LqrQKle~e~~l~a~qeakek~~KEAqareaklqaec~rQ~qlaLEEKaaLrkerd~L  361 (442)
T PF06637_consen  282 KVEELARSLRAGIERVARENSDLQRQKLEAEQGLQASQEAKEKAGKEAQAREAKLQAECARQTQLALEEKAALRKERDSL  361 (442)
T ss_pred             HHHHHHHHHhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555554444432                      22223346899999999999999


Q ss_pred             HHHHHHHhhhHHHH
Q 019459          107 AMTARNLSRDLAKL  120 (340)
Q Consensus       107 a~TvKKL~RDvaKL  120 (340)
                      +..+-...|.++.|
T Consensus       362 ~keLeekkreleql  375 (442)
T PF06637_consen  362 AKELEEKKRELEQL  375 (442)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99998888888763

PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=96.65  E-value=0.026  Score=52.68  Aligned_cols=68  Identities=21%  Similarity=0.269  Sum_probs=40.3

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      ...|+-+||.|+..|+++|++-+..   +..+...++..+.+++.......++|.+|.+|...+.+.+..|
T Consensus        91 ~~~rlp~le~el~~l~~~l~~~~~~---~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l  158 (206)
T PRK10884         91 LRTRVPDLENQVKTLTDKLNNIDNT---WNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAA  158 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4578889999999999999886533   3445555555555544444444444444444444444443333

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

Probab=96.57  E-value=0.045  Score=49.72  Aligned_cols=79  Identities=15%  Similarity=0.231  Sum_probs=48.0

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-HHHHhhhHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMT-ARNLSRDLAKL  120 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~T-vKKL~RDvaKL  120 (340)
                      +...++..|+.++..|+.++.+.+..|.++++-+..|..+|+-.+..++.+++...+|.+||+.|+.- +++-++|..+|
T Consensus       113 ~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm~~k~~eAe~m  192 (194)
T PF08614_consen  113 EKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWMQRKAQEAERM  192 (194)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455666666666666666666666666666666666666666666666666666677777776543 34444444443

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.

>PRK11637 AmiB activator; Provisional

Probab=96.51  E-value=0.039  Score=55.36  Aligned_cols=87  Identities=14%  Similarity=0.189  Sum_probs=52.5

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQ  126 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~  126 (340)
                      ...++.++..+.+++.+....+.++++++..++.+|..+..++.....+..++.+|-+.|...++.+..++++++.--+.
T Consensus        49 l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~  128 (428)
T PRK11637         49 LKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAA  128 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444455555556666666666666666666666777777777777777777777776665555


Q ss_pred             HHhhccc
Q 019459          127 LMQSLND  133 (340)
Q Consensus       127 LmqSLqe  133 (340)
                      +|..+..
T Consensus       129 rlra~Y~  135 (428)
T PRK11637        129 QLDAAFR  135 (428)
T ss_pred             HHHHHHH
Confidence            6665544

>PRK11637 AmiB activator; Provisional

Probab=96.17  E-value=0.11  Score=52.31  Aligned_cols=71  Identities=8%  Similarity=0.128  Sum_probs=31.4

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      .++.++..+++++.+....|.+++.++..++.+|...+.+|..+.++...+.++-+.+-..+.+|+.++++
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~  114 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAK  114 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444433

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=95.90  E-value=0.16  Score=44.03  Aligned_cols=72  Identities=24%  Similarity=0.368  Sum_probs=41.0

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH----HHHHHHHHHHHHhhhHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAK----ERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~----E~~sLa~TvKKL~RDvaKL  120 (340)
                      .|+..+.+|+.+++++++.+..++.+...++..+......++...||..||..    =+.....-+||-.+++.||
T Consensus        70 ~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~~~~tq~~~e~rkke~E~~kL  145 (151)
T PF11559_consen   70 RLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQQRKTQYEHELRKKEREIEKL  145 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555666666666666666666666666666666666666666555432    2333444455555555554

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

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

Probab=95.82  E-value=0.21  Score=44.01  Aligned_cols=95  Identities=17%  Similarity=0.246  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHHHHHHHHH
Q 019459           37 KITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFI---DDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        37 kIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~---de~~kL~~E~~sLa~TvKKL  113 (340)
                      |+=.-+...|+..+|+.+..|-+...+++..|..|+.|+..||..|..+..+|..+.   ++..+....+.+|---|.-|
T Consensus         6 k~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~L   85 (143)
T PF12718_consen    6 KLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLL   85 (143)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHH
Confidence            444456778999999999999999999999999999999999999999888886654   33344444444444444444


Q ss_pred             hhhHHHHHHHHHHHHhhc
Q 019459          114 SRDLAKLETFKRQLMQSL  131 (340)
Q Consensus       114 ~RDvaKLE~FKk~LmqSL  131 (340)
                      -.+|...+.==+.....|
T Consensus        86 Eeele~ae~~L~e~~ekl  103 (143)
T PF12718_consen   86 EEELEEAEKKLKETTEKL  103 (143)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444444433333333333

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 [].

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=95.68  E-value=0.33  Score=43.16  Aligned_cols=91  Identities=15%  Similarity=0.152  Sum_probs=71.7

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      -+.-+|-+||+|.......+..=-....--++-+..|+..+...+..++....|-..|.+||..|.....+.+.-|.-||
T Consensus        21 sle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE  100 (140)
T PF10473_consen   21 SLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELE  100 (140)
T ss_pred             hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46678888888887766655444444444566677788888888888988888999999999999999999999999999


Q ss_pred             HHHHHHHhhcc
Q 019459          122 TFKRQLMQSLN  132 (340)
Q Consensus       122 ~FKk~LmqSLq  132 (340)
                      ...-.+-.-|+
T Consensus       101 ~~~~~~~~~l~  111 (140)
T PF10473_consen  101 SLNSSLENLLQ  111 (140)
T ss_pred             HHhHHHHHHHH
Confidence            98776655554

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>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=95.64  E-value=0.18  Score=40.08  Aligned_cols=63  Identities=27%  Similarity=0.359  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           56 TMRQMLYEKDRLICELEERLSHV---QKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        56 ~LR~~laEKd~~i~~Lq~r~~~l---e~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .|-..|+|||..|++|++....|   +..+..+--+|+....+   +.++.+.|...+.++..++..|+
T Consensus         2 sl~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e---~e~~~~~l~~~~~~~e~~~~~l~   67 (74)
T PF12329_consen    2 SLEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKE---LEKQIKELKKKLEELEKELESLE   67 (74)
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            46778999999999999655544   44444444444443333   33444444444444444444443

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.

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

Probab=95.36  E-value=0.2  Score=45.55  Aligned_cols=89  Identities=27%  Similarity=0.386  Sum_probs=51.9

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      ++.||..+..++..|+.++.++...|.+|+..+..|+..+.+....|.--...++.|..|-.+|-.+..-|..-+.+|+.
T Consensus        93 l~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~  172 (194)
T PF08614_consen   93 LAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEE  172 (194)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56788888888999999999988888888888888888888777777777777777777777777777777777777776


Q ss_pred             HHHHHHhhc
Q 019459          123 FKRQLMQSL  131 (340)
Q Consensus       123 FKk~LmqSL  131 (340)
                      =-+.|++-+
T Consensus       173 En~~Lv~Rw  181 (194)
T PF08614_consen  173 ENRELVERW  181 (194)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665543

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.

>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=95.34  E-value=0.45  Score=44.13  Aligned_cols=92  Identities=18%  Similarity=0.268  Sum_probs=64.0

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH--
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK--  119 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK--  119 (340)
                      .....+..++..+..||..+.+....|.++++++..+..+|..-...|....+...++.+....+.+.++.+.+.+.+  
T Consensus        60 ~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  139 (302)
T PF10186_consen   60 QLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQ  139 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566777777788888888888888888888888888888888777754555555556666666666666666555  


Q ss_pred             --HHHHHHHHHhhccc
Q 019459          120 --LETFKRQLMQSLND  133 (340)
Q Consensus       120 --LE~FKk~LmqSLqe  133 (340)
                        |..=++.|++.|..
T Consensus       140 ~~l~~~r~~l~~~l~~  155 (302)
T PF10186_consen  140 SQLARRRRQLIQELSE  155 (302)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence              55566777776643

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

>PRK09039 hypothetical protein; Validated

Probab=95.31  E-value=0.32  Score=48.30  Aligned_cols=91  Identities=11%  Similarity=0.164  Sum_probs=71.8

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh-hhHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS-RDLAKL  120 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~-RDvaKL  120 (340)
                      ....|+..|+.+...++...+|....|.-|+.+++.|..+|....+.|..+++........-+.|..-+.++- +.+..|
T Consensus       113 ~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l  192 (343)
T PRK09039        113 AAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQEL  192 (343)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456777788888888888888888888888888888888888888888877777777777777766666654 448889


Q ss_pred             HHHHHHHHhhcc
Q 019459          121 ETFKRQLMQSLN  132 (340)
Q Consensus       121 E~FKk~LmqSLq  132 (340)
                      +.||..+..-|.
T Consensus       193 ~~~~~~~~~~l~  204 (343)
T PRK09039        193 NRYRSEFFGRLR  204 (343)
T ss_pred             HHhHHHHHHHHH
Confidence            999999977775

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=94.81  E-value=0.96  Score=37.27  Aligned_cols=87  Identities=15%  Similarity=0.196  Sum_probs=76.4

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQ  126 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~  126 (340)
                      +-+||.+...++..+..|-..+..|++++..|+.....++.+...|.-....|..|+..|-..+.|=+.-+.+|...=+.
T Consensus         5 L~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~Ks~~~i~~L~~~E~~   84 (96)
T PF08647_consen    5 LVSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSKSSELIEQLKETEKE   84 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            55789999999999999999999999999999999999999999988888888888888888888888888888877777


Q ss_pred             HHhhccc
Q 019459          127 LMQSLND  133 (340)
Q Consensus       127 LmqSLqe  133 (340)
                      +++.|.+
T Consensus        85 ~~~~l~~   91 (96)
T PF08647_consen   85 FVRKLKN   91 (96)
T ss_pred             HHHHHHH
Confidence            7766643

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

Probab=94.81  E-value=0.52  Score=50.03  Aligned_cols=86  Identities=21%  Similarity=0.298  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHH------hhhhHhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 019459           33 DLARKITSMAIASR------VSKLETETGTMRQMLYEKDRL-------ICELEERLSHVQKVYQEADSKLKIFIDDNAKL   99 (340)
Q Consensus        33 dlArkIts~A~atR------Vs~LE~E~~~LR~~laEKd~~-------i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL   99 (340)
                      -=||+|+.-+-+.|      +.+|+.|+..||.++.++...       +.+...+++.++.++.-+..+.+..+||...|
T Consensus        95 ~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~L  174 (546)
T KOG0977|consen   95 ATARKLLDETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRL  174 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            34677777765544      567888888888888888443       44556777888888888999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhHH
Q 019459          100 AKERDSLAMTARNLSRDLA  118 (340)
Q Consensus       100 ~~E~~sLa~TvKKL~RDva  118 (340)
                      .+||..|-..+..+..+++
T Consensus       175 k~en~rl~~~l~~~r~~ld  193 (546)
T KOG0977|consen  175 KAENSRLREELARARKQLD  193 (546)
T ss_pred             HHHhhhhHHHHHHHHHHHH
Confidence            9999999888877765444

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

Probab=94.74  E-value=0.71  Score=44.37  Aligned_cols=45  Identities=20%  Similarity=0.259  Sum_probs=22.1

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIF   92 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a   92 (340)
                      .++++|..+++..+.+++-.+.+|+.+|..++..+++.+.|+..+
T Consensus        34 ~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~   78 (239)
T COG1579          34 KKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRA   78 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444555555555555555555555555555544444443

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=94.66  E-value=0.55  Score=40.77  Aligned_cols=68  Identities=21%  Similarity=0.286  Sum_probs=50.4

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      ..|+..+.+|+..+..-...+..|+++++.+++.+..+..+.++       |.++...+..++|.+..||.||..
T Consensus        55 e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~-------l~~~~~~~~~~~k~~kee~~klk~  122 (151)
T PF11559_consen   55 EDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQ-------LQKQLKSLEAKLKQEKEELQKLKN  122 (151)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666677777777777777777777777766       888888888888888888888764

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

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

Probab=94.60  E-value=0.68  Score=44.52  Aligned_cols=88  Identities=24%  Similarity=0.311  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 019459           34 LARKITSMAIASRVSKLETETGTMRQMLYEKDRLIC--ELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR  111 (340)
Q Consensus        34 lArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~--~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK  111 (340)
                      ++..|.=-.|-.-|+++|.|+..+|.++..=...+.  --+..++.|+.+++.+..|...+.+|...|.++...|...++
T Consensus        48 ~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~  127 (239)
T COG1579          48 EALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIE  127 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666677889999999999999998764333221  123445555555555555555555555555544444444444


Q ss_pred             HHhhhHHHHH
Q 019459          112 NLSRDLAKLE  121 (340)
Q Consensus       112 KL~RDvaKLE  121 (340)
                      -|...+.++|
T Consensus       128 ~l~~~~~~~e  137 (239)
T COG1579         128 DLKERLERLE  137 (239)
T ss_pred             HHHHHHHHHH
Confidence            4444444433

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

Probab=94.45  E-value=0.21  Score=57.04  Aligned_cols=93  Identities=24%  Similarity=0.305  Sum_probs=68.3

Q ss_pred             HHHHHhhhhHhHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQML-----------------YEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERD  104 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~l-----------------aEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~  104 (340)
                      ||.+++..+|..+...|..|                 .+-.+.|.++++++.++|..|.+....+..|--|.+-|++|.+
T Consensus      1198 ay~s~f~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~~~ 1277 (1758)
T KOG0994|consen 1198 AYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQREFN 1277 (1758)
T ss_pred             hhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHHHH
Confidence            78888888888777777655                 3344555566666677777777777777777788899999999


Q ss_pred             HHHHHHHHHhhhHHHHH---------HHHHHHHhhcccc
Q 019459          105 SLAMTARNLSRDLAKLE---------TFKRQLMQSLNDD  134 (340)
Q Consensus       105 sLa~TvKKL~RDvaKLE---------~FKk~LmqSLqeD  134 (340)
                      .|-.|+|.|.-.+.||.         ..+..--||++-+
T Consensus      1278 ~l~~~~keL~e~~~~ik~sdi~GA~~~~r~a~~~s~ea~ 1316 (1758)
T KOG0994|consen 1278 GLLTTYKELREQLEKIKESDILGAFNSTRHAYEQSAEAE 1316 (1758)
T ss_pred             HHHHHHHHHHHHHHHhhccCchhHHHHHHHHHHHHHHHH
Confidence            99999999999888864         3445555565433

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.44  E-value=0.63  Score=50.03  Aligned_cols=88  Identities=22%  Similarity=0.306  Sum_probs=69.7

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEAD---SKLKIFIDDNAKLAKERDSLAMTARNLSRDL  117 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~---~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv  117 (340)
                      +++-.+|.+||.|+..|+..+-|.++.|+.|+.+++.+...+.+--   -.+.+-..+..+|.++-..=...|.-|.|.+
T Consensus       425 ~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l  504 (652)
T COG2433         425 KKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKL  504 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4778889999999999999999999999999999999888766322   1233344566778777777788889999999


Q ss_pred             HHHHHHHHHHH
Q 019459          118 AKLETFKRQLM  128 (340)
Q Consensus       118 aKLE~FKk~Lm  128 (340)
                      ++|+..++-..
T Consensus       505 ~~l~k~~~lE~  515 (652)
T COG2433         505 AELRKMRKLEL  515 (652)
T ss_pred             HHHHHHHhhhh
Confidence            99888877433

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=94.21  E-value=0.95  Score=48.06  Aligned_cols=72  Identities=15%  Similarity=0.243  Sum_probs=49.8

Q ss_pred             HHHHHHHhhhhHhHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 019459           40 SMAIASRVSKLETETGTMRQMLYE--KDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR  111 (340)
Q Consensus        40 s~A~atRVs~LE~E~~~LR~~laE--Kd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK  111 (340)
                      -.++..++..||.|+..|.++|..  .+..+..|++++..++..+.++...+....++...|.++...|...++
T Consensus       393 ~~~~~~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  466 (650)
T TIGR03185       393 KSQLLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLD  466 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466778889999999999999975  346777777777777777777766666555555555444444444443

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.

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

Probab=94.20  E-value=1.6  Score=38.90  Aligned_cols=86  Identities=15%  Similarity=0.297  Sum_probs=51.3

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ..-.+...|+.|...+...+.+....+..+++-...+...+.+..+++....++..++.+|-..|-+.++.+.+.+.+++
T Consensus        85 ~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~  164 (191)
T PF04156_consen   85 ELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDSREEVQELR  164 (191)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555566666666666666666666666666666666666666666666666666666666666644444445554444


Q ss_pred             HHHHHH
Q 019459          122 TFKRQL  127 (340)
Q Consensus       122 ~FKk~L  127 (340)
                      ...+.+
T Consensus       165 ~~~~~~  170 (191)
T PF04156_consen  165 SQLERL  170 (191)
T ss_pred             HHHHHH
Confidence            444443

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 [].

>PRK02224 chromosome segregation protein; Provisional

Probab=94.05  E-value=1.4  Score=47.74  Aligned_cols=18  Identities=11%  Similarity=0.135  Sum_probs=7.3

Q ss_pred             HhhhhHhHHHHHHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYE   63 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laE   63 (340)
                      -...++..+..|+..|.+
T Consensus       181 ~~~~~~~~~~~~~~~l~~  198 (880)
T PRK02224        181 VLSDQRGSLDQLKAQIEE  198 (880)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333444444444444333

>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif

Probab=94.03  E-value=0.84  Score=38.90  Aligned_cols=72  Identities=17%  Similarity=0.237  Sum_probs=60.5

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +|=.|-.+||++..--...+-+=|.+...|...|..-++.|+..++|+.-|.=-|+.|..-|--|+-++...
T Consensus         2 kla~eYsKLraQ~~vLKKaVieEQ~k~~~L~e~Lk~ke~~LRk~eqE~dSL~FrN~QL~kRV~~LQ~El~~~   73 (102)
T PF10205_consen    2 KLAQEYSKLRAQNQVLKKAVIEEQAKNAELKEQLKEKEQALRKLEQENDSLTFRNQQLTKRVEVLQEELEES   73 (102)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            466788999999998888888889999999999999999999988888888888888877777777776633

This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.

>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function

Probab=93.97  E-value=1.1  Score=42.08  Aligned_cols=78  Identities=18%  Similarity=0.290  Sum_probs=68.8

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      .|--+||++..-+...+++-+.....|+.-+.-...+=++..++-.++.+|-..|..|+..+-..+.+|+|.|.-|+.
T Consensus       105 irR~~LeAQka~~eR~ia~~~~ra~~LqaDl~~~~~Q~~~va~~Q~q~r~ea~aL~~e~~aaqaQL~~lQ~qv~~Lq~  182 (192)
T PF11180_consen  105 IRRAQLEAQKAQLERLIAESEARANRLQADLQIARQQQQQVAARQQQARQEAQALEAERRAAQAQLRQLQRQVRQLQR  182 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466788888888888888888888888888888888888888999999999999999999999999999999998874

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=93.93  E-value=0.93  Score=35.77  Aligned_cols=61  Identities=26%  Similarity=0.279  Sum_probs=36.9

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMT  109 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~T  109 (340)
                      +||+++..||..|.--.+.+.-.+.-...|-.+=..+-.+|..|-+++.+|..|++.|..-
T Consensus         2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen    2 KLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788888887777555555555444444444444445555666666666666666666544

>PHA02562 46 endonuclease subunit; Provisional

Probab=93.87  E-value=0.74  Score=46.91  Aligned_cols=10  Identities=30%  Similarity=0.511  Sum_probs=4.2

Q ss_pred             HHHHHHHHHH
Q 019459          293 SAFLASIKEL  302 (340)
Q Consensus       293 saFLANIKEL  302 (340)
                      ..|+.-|+++
T Consensus       516 ~~~~~~l~~~  525 (562)
T PHA02562        516 KALLSILDSL  525 (562)
T ss_pred             HHHHHHHHhC
Confidence            3344444444

>PRK03918 chromosome segregation protein; Provisional

Probab=93.66  E-value=2.1  Score=46.12  Aligned_cols=32  Identities=19%  Similarity=0.209  Sum_probs=16.3

Q ss_pred             cCCCCchhhhHHHHHHHHHHHHHHhhhhHhHH
Q 019459           23 VIPTDPYDQLDLARKITSMAIASRVSKLETET   54 (340)
Q Consensus        23 vLP~DPyEQLdlArkIts~A~atRVs~LE~E~   54 (340)
                      ++-.|-|+++.-.-+-....+..++..|+..+
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  185 (880)
T PRK03918        154 ILGLDDYENAYKNLGEVIKEIKRRIERLEKFI  185 (880)
T ss_pred             HhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555554444444445555555555544

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

Probab=93.62  E-value=1.2  Score=43.94  Aligned_cols=80  Identities=25%  Similarity=0.334  Sum_probs=39.3

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH-------HHHHHHHHHHHHHHHHHh
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDN-------AKLAKERDSLAMTARNLS  114 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~-------~kL~~E~~sLa~TvKKL~  114 (340)
                      ++-..+..||.|...|.+.|.+-+....+|.+.+..|+.++.+.+..-.....+.       ..+.+|+++|-+.+.-+.
T Consensus        47 ~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~  126 (314)
T PF04111_consen   47 ELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYAS  126 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555566666666655555555555555555555554444433332222222       233355555555555555


Q ss_pred             hhHHHHH
Q 019459          115 RDLAKLE  121 (340)
Q Consensus       115 RDvaKLE  121 (340)
                      ..|+||+
T Consensus       127 ~~L~~L~  133 (314)
T PF04111_consen  127 NQLDRLR  133 (314)
T ss_dssp             HHHHCHH
T ss_pred             HHHHHHH
Confidence            5544443

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.

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

Probab=93.56  E-value=1.6  Score=38.51  Aligned_cols=79  Identities=16%  Similarity=0.260  Sum_probs=51.4

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRL----------ICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR  111 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~----------i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK  111 (340)
                      ++-.|+..||.++..+..+|.+-...          ...|..||..||..|..+..+|..+.+........-+-+-..|+
T Consensus        39 sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~  118 (143)
T PF12718_consen   39 SLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVK  118 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            46677888888877777766543322          34577788888888888888887766665555555555555555


Q ss_pred             HHhhhHHHH
Q 019459          112 NLSRDLAKL  120 (340)
Q Consensus       112 KL~RDvaKL  120 (340)
                      .|......+
T Consensus       119 ~le~~~~~~  127 (143)
T PF12718_consen  119 ALEQERDQW  127 (143)
T ss_pred             HHHhhHHHH
Confidence            555444433

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 [].

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=93.52  E-value=1  Score=49.71  Aligned_cols=61  Identities=23%  Similarity=0.374  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 019459           37 KITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAK   98 (340)
Q Consensus        37 kIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~k   98 (340)
                      |++--||+.. -+-|+|+..|+++|..--..-..+++||+.||.+|-++-..|+.+.||++.
T Consensus        10 kvaeeav~gw-ekae~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq   70 (769)
T PF05911_consen   10 KVAEEAVSGW-EKAEAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQ   70 (769)
T ss_pred             HHHHHHHhhH-HHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHH
Confidence            6677777654 467999999999999999999999999999999999999999999999843

The function of this family is unknown.

>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure

Probab=93.39  E-value=0.43  Score=38.87  Aligned_cols=47  Identities=21%  Similarity=0.272  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           69 CELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        69 ~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      .+|..++-.|+..|.+.-+|.....+|+.||..||.-|..-|..|..
T Consensus        19 ~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~   65 (80)
T PF10224_consen   19 EELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMS   65 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666888899999999999999999999999999999999988865

The exact function is unknown.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=93.33  E-value=1.4  Score=48.17  Aligned_cols=61  Identities=15%  Similarity=0.178  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           61 LYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        61 laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      +.+.+..+.++++++..++..+.+....+.....+...|.++.+.|...+..+...+.+++
T Consensus       863 ~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~l~  923 (1164)
T TIGR02169       863 KEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELK  923 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444444444444444444444444444433

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.

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

Probab=92.87  E-value=1.6  Score=46.60  Aligned_cols=92  Identities=16%  Similarity=0.256  Sum_probs=63.2

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------------
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR-------------  111 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK-------------  111 (340)
                      +|...|+-..++|+..+..=..-..++..+-..++..|.....-+..-++|.++|+++++.|-+.|.             
T Consensus       259 ~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn  338 (581)
T KOG0995|consen  259 GKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMN  338 (581)
T ss_pred             chHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            3444444444444444444444455555555666677777777788888999999999999988875             


Q ss_pred             ----HHhhhHHHHHHHHHHHHhhccccCC
Q 019459          112 ----NLSRDLAKLETFKRQLMQSLNDDNS  136 (340)
Q Consensus       112 ----KL~RDvaKLE~FKk~LmqSLqeD~~  136 (340)
                          +|.|+|.|++.=+-.|++.+-+.+.
T Consensus       339 ~Er~~l~r~l~~i~~~~d~l~k~vw~~~l  367 (581)
T KOG0995|consen  339 LERNKLKRELNKIQSELDRLSKEVWELKL  367 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence                4677888888777888887766655

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=92.73  E-value=2.4  Score=41.13  Aligned_cols=90  Identities=23%  Similarity=0.331  Sum_probs=64.4

Q ss_pred             hhHHHHHHHHHHHHH-------Hhh---hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 019459           31 QLDLARKITSMAIAS-------RVS---KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLA  100 (340)
Q Consensus        31 QLdlArkIts~A~at-------RVs---~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~  100 (340)
                      -++|.||=.-+|+..       ||-   -|-.....+|.+|.|-...-.+|.+++..||..+.+.+.||+...-||..|.
T Consensus       104 D~elvrkEl~nAlvRAGLktL~~v~~~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~Le  183 (290)
T COG4026         104 DVELVRKELKNALVRAGLKTLQRVPEYMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLE  183 (290)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            357888888888753       221   2334455667777777788888999999999999999999999666666666


Q ss_pred             HHHHHHHHHHHHHhhhHHHH
Q 019459          101 KERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus       101 ~E~~sLa~TvKKL~RDvaKL  120 (340)
                      ++.+.|-.-|-+|..-.+.|
T Consensus       184 E~~~~l~~ev~~L~~r~~EL  203 (290)
T COG4026         184 EMLKKLPGEVYDLKKRWDEL  203 (290)
T ss_pred             HHHHhchhHHHHHHHHHHHh
Confidence            66666666666665555444

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=92.52  E-value=2.1  Score=46.53  Aligned_cols=9  Identities=22%  Similarity=0.844  Sum_probs=4.3

Q ss_pred             HHHHHHhhC
Q 019459          313 LRKAEEIFG  321 (340)
Q Consensus       313 L~KA~eIFG  321 (340)
                      +..|+.|||
T Consensus      1155 ~~~~d~~~~ 1163 (1179)
T TIGR02168      1155 MEVADQLYG 1163 (1179)
T ss_pred             HHHhhhHee
Confidence            344555554

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.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=92.42  E-value=2.1  Score=46.84  Aligned_cols=11  Identities=18%  Similarity=0.374  Sum_probs=6.4

Q ss_pred             HHHHHHHHhhC
Q 019459          311 ETLRKAEEIFG  321 (340)
Q Consensus       311 ETL~KA~eIFG  321 (340)
                      .++..|+.++|
T Consensus      1138 ~~~~~~d~~~~ 1148 (1164)
T TIGR02169      1138 PMIEYADRAIG 1148 (1164)
T ss_pred             HHHHhcceeEe
Confidence            45556666665

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.

>KOG3990 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.41  E-value=0.51  Score=46.17  Aligned_cols=35  Identities=29%  Similarity=0.545  Sum_probs=31.9

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKV   81 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~   81 (340)
                      +.+|+.||++|+..|++||.+|-+-.++++.|-..
T Consensus       227 i~~lkeeia~Lkk~L~qkdq~ileKdkqisnLKad  261 (305)
T KOG3990|consen  227 IQKLKEEIARLKKLLHQKDQLILEKDKQISNLKAD  261 (305)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHhhhhhhhccCcc
Confidence            56899999999999999999999999999987663

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=92.40  E-value=4.8  Score=35.87  Aligned_cols=52  Identities=13%  Similarity=0.349  Sum_probs=24.8

Q ss_pred             hhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           29 YDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQE   84 (340)
Q Consensus        29 yEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e   84 (340)
                      ||||    +|-...+..++..=..|+.+||.....-=+.+...++++..+...+..
T Consensus        44 FeqL----kien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~   95 (177)
T PF13870_consen   44 FEQL----KIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELER   95 (177)
T ss_pred             HHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666    444555555555555555555554444444444444444433333333

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

Probab=92.38  E-value=1.7  Score=42.60  Aligned_cols=20  Identities=25%  Similarity=0.456  Sum_probs=10.2

Q ss_pred             HHHHhhhhHhHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLY   62 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~la   62 (340)
                      +..|-..|+.|+..||+...
T Consensus       182 l~~~~~~L~~e~~~Lk~~~~  201 (325)
T PF08317_consen  182 LRERKAELEEELENLKQLVE  201 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            34445555555555555443

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=92.36  E-value=3.2  Score=43.56  Aligned_cols=101  Identities=22%  Similarity=0.167  Sum_probs=59.1

Q ss_pred             hhhhHHHHHHHHHHHHHHhhhhHh-HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH-------HHhH
Q 019459           29 YDQLDLARKITSMAIASRVSKLET-ETGTMRQMLYEKDRLICE-------LEERLSHVQKVYQEADSKL-------KIFI   93 (340)
Q Consensus        29 yEQLdlArkIts~A~atRVs~LE~-E~~~LR~~laEKd~~i~~-------Lq~r~~~le~~L~e~~~rl-------~~a~   93 (340)
                      ..||+=-|+--.    .+++++|- ++..+|+.+.++-....+       ++...-.+|.-|++.+.|+       ..-.
T Consensus       327 ~sqleSqr~y~e----~~~~e~~qsqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~~  402 (493)
T KOG0804|consen  327 TSQLESQRKYYE----QIMSEYEQSQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKEER  402 (493)
T ss_pred             hhhhhHHHHHHH----HHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            367777776655    66666666 777777776666554444       3333333444444444444       4445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhccc
Q 019459           94 DDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLND  133 (340)
Q Consensus        94 de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLqe  133 (340)
                      |+|++|.++.+....++||+++...+.-.=|.--++-|||
T Consensus       403 E~n~~l~knq~vw~~kl~~~~e~~~~~~~s~d~~I~dLqE  442 (493)
T KOG0804|consen  403 EENKKLIKNQDVWRGKLKELEEREKEALGSKDEKITDLQE  442 (493)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666677777777777777776665554444444444444

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

Probab=92.21  E-value=2.5  Score=40.30  Aligned_cols=82  Identities=23%  Similarity=0.368  Sum_probs=60.8

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH-------HHHHHHHHHHHHHHh
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKL-------AKERDSLAMTARNLS  114 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL-------~~E~~sLa~TvKKL~  114 (340)
                      -|.-|+-.+|.|..+.+..|.+..+-|..|.++.-.++.+-.....+-..+.+++..|       .+|+..|..-+..+.
T Consensus         9 Ele~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~   88 (246)
T PF00769_consen    9 ELEERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAE   88 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567899999999999999999999999999998888777777666666666666555       457778888888888


Q ss_pred             hhHHHHHHH
Q 019459          115 RDLAKLETF  123 (340)
Q Consensus       115 RDvaKLE~F  123 (340)
                      ..+++|+.=
T Consensus        89 ~~i~~l~ee   97 (246)
T PF00769_consen   89 AEIARLEEE   97 (246)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888877654

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.

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

Probab=92.20  E-value=1.9  Score=39.62  Aligned_cols=76  Identities=24%  Similarity=0.365  Sum_probs=37.2

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh-hHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR-DLAKLETFKR  125 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R-DvaKLE~FKk  125 (340)
                      .++..+.+|..++.+....|.+|++++..+...-.++..|-. .+++...|.+|+..|...+.++.+ |-.+++..|+
T Consensus        66 ~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~-~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~  142 (188)
T PF03962_consen   66 KRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREE-LLEELEELKKELKELKKELEKYSENDPEKIEKLKE  142 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            445555666666666666666666666655444444433332 234444444444444444443322 3334444444

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=92.18  E-value=1.5  Score=41.01  Aligned_cols=73  Identities=10%  Similarity=0.188  Sum_probs=47.2

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDL  117 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv  117 (340)
                      ++-..+..|+.+...+++...   ...++|++++..++....+...+..+..++.+++.+|++.|......+.+++
T Consensus        97 ~le~el~~l~~~l~~~~~~~~---~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~  169 (206)
T PRK10884         97 DLENQVKTLTDKLNNIDNTWN---QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI  169 (206)
T ss_pred             HHHHHHHHHHHHHHHHHhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556677777777777665543   4555666666666666666666666666666667777777766666666554

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=92.14  E-value=6.1  Score=32.88  Aligned_cols=67  Identities=19%  Similarity=0.250  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           65 DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        65 d~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      ...-..|++.+..++.-|.+.+++...|+..-..=.+.+......+++|..++..|...+..+..-|
T Consensus        38 ~~~e~~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k~~ei~~l~~~l~~l~~~~~k~e~~l  104 (126)
T PF13863_consen   38 EKKEQELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEKEAEIKKLKAELEELKSEISKLEEKL  104 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344567777788888888888888888887777777777777777777777777777666665544

>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=92.13  E-value=4.2  Score=38.20  Aligned_cols=46  Identities=15%  Similarity=0.210  Sum_probs=21.2

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKI   91 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~   91 (340)
                      |+.++..|...|.+.+..-.+.+..|+.....++..+.....++..
T Consensus        43 ~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~   88 (251)
T PF11932_consen   43 RIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELAS   88 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444433

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.

>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=3.2  Score=38.88  Aligned_cols=79  Identities=18%  Similarity=0.224  Sum_probs=70.7

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      +..-.|+..||..+...+..+.+-++...+...|+..++..|..+..|+..+......|..+-..+.+.+|.|.--..+
T Consensus        88 ~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~  166 (237)
T PF00261_consen   88 QSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEK  166 (237)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            4567899999999999999999999999999999999999999999999999999999999999998888877654443

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 ....

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

Probab=91.75  E-value=3.4  Score=36.75  Aligned_cols=72  Identities=18%  Similarity=0.314  Sum_probs=47.7

Q ss_pred             hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           50 LETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        50 LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ++.|+..+.+.+.+-.+.+.++++++..++..+.....-.....++......+-+++...++.+.+++..|.
T Consensus        79 ~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen   79 LQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             hhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444666666666666666666666666666666666666555556666666666666677777777666666

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 [].

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

Probab=91.73  E-value=3.7  Score=40.25  Aligned_cols=34  Identities=26%  Similarity=0.372  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           56 TMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        56 ~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      .||+.|++-+..|.++++.+..++.+|.+.++++
T Consensus       213 ~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i  246 (325)
T PF08317_consen  213 ALRQELAEQKEEIEAKKKELAELQEELEELEEKI  246 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444433333333333333333333

>smart00787 Spc7 Spc7 kinetochore protein

Probab=91.71  E-value=3.1  Score=41.21  Aligned_cols=56  Identities=18%  Similarity=0.185  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 019459           53 ETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAM  108 (340)
Q Consensus        53 E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~  108 (340)
                      |..++|.+|++-+..|...+.+++.++.+|++.++++....+++..+..+-+.+-.
T Consensus       205 eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~  260 (312)
T smart00787      205 ELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEK  260 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56677778888888888888888888888888888887777777777766666655

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

>PRK02224 chromosome segregation protein; Provisional

Probab=91.46  E-value=4.2  Score=44.12  Aligned_cols=41  Identities=24%  Similarity=0.235  Sum_probs=19.7

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADS   87 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~   87 (340)
                      +..|+..+..++..+.++.+.+.+|++++..|+..+.+...
T Consensus       518 ~~~l~~~~~~~~e~le~~~~~~~~l~~e~~~l~~~~~~~~~  558 (880)
T PRK02224        518 REDLEELIAERRETIEEKRERAEELRERAAELEAEAEEKRE  558 (880)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444455555555555555555555544443

>KOG1103 consensus Predicted coiled-coil protein [Function unknown]

Probab=91.46  E-value=7.8  Score=40.02  Aligned_cols=79  Identities=22%  Similarity=0.200  Sum_probs=60.1

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH---
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL---  120 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL---  120 (340)
                      .+||+++|.|+..-|..-.+-   .++.++.+++++-+.....+.|..-+.-+.-|.+|+.+|-.+||.|.-|...|   
T Consensus       219 ksr~~k~eee~aaERerglqt---eaqvek~i~EfdiEre~LRAel~ree~r~K~lKeEmeSLkeiVkdlEA~hQh~~pN  295 (561)
T KOG1103|consen  219 KSRTKKGEEEAAAERERGLQT---EAQVEKLIEEFDIEREFLRAELEREEKRQKMLKEEMESLKEIVKDLEADHQHLRPN  295 (561)
T ss_pred             ccccCCChHHHHHHHhhccch---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcCcc
Confidence            478888888887666544333   34556667777777777788888877777889999999999999999888765   


Q ss_pred             HHHHH
Q 019459          121 ETFKR  125 (340)
Q Consensus       121 E~FKk  125 (340)
                      |.+|+
T Consensus       296 eqLk~  300 (561)
T KOG1103|consen  296 EQLKG  300 (561)
T ss_pred             ccccC
Confidence            56666

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

Probab=91.21  E-value=5.7  Score=46.13  Aligned_cols=114  Identities=22%  Similarity=0.269  Sum_probs=75.9

Q ss_pred             CchhHHh-cCCCCchhhhHHHHHHHHH---------------HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           16 LPDEVLA-VIPTDPYDQLDLARKITSM---------------AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQ   79 (340)
Q Consensus        16 Lp~eils-vLP~DPyEQLdlArkIts~---------------A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le   79 (340)
                      |-+|||. +||.+|.+=.+|+-+|-..               +=..|+..|++|+.+-|....+-.....+.++-+...|
T Consensus      1497 vA~~vL~l~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad 1576 (1758)
T KOG0994|consen 1497 VAEEVLALELPLTPEQIQQLTGEIQERVASLPNVDAILSRTKGDIARAENLQSEAERARSRAEDVKGQAEDVVEALEEAD 1576 (1758)
T ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            4456665 6999999888888777543               23578999999999999887777666777777777666


Q ss_pred             HHHHHHHH-------HHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH----HHHHHHHHh
Q 019459           80 KVYQEADS-------KLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL----ETFKRQLMQ  129 (340)
Q Consensus        80 ~~L~e~~~-------rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL----E~FKk~Lmq  129 (340)
                      +++..+..       -+..|.+...|..+|-..--.++...+..|++|    |.+|...||
T Consensus      1577 ~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~q 1637 (1758)
T KOG0994|consen 1577 VAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQ 1637 (1758)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            66555544       445555555666666655444444444555544    456666665

>PHA02562 46 endonuclease subunit; Provisional

Probab=91.17  E-value=3.7  Score=41.96  Aligned_cols=35  Identities=11%  Similarity=0.162  Sum_probs=14.2

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHV   78 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~l   78 (340)
                      ..|+..|+.++..+|..+.+..+.+..|+.++..|
T Consensus       336 ~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l  370 (562)
T PHA02562        336 SKKLLELKNKISTNKQSLITLVDKAKKVKAAIEEL  370 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444333333333333333

>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=91.03  E-value=8  Score=35.88  Aligned_cols=88  Identities=16%  Similarity=0.191  Sum_probs=46.9

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ....|+..|+.++..+|..+.++.+.+.++++.+......|...........+...++.++-..+-..+.+|.+.+.+--
T Consensus        67 ~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~r  146 (302)
T PF10186_consen   67 ELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLARRR  146 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34667777777777777777777777777777777666666522222222222233333333333333444444444433


Q ss_pred             HHHHHHHh
Q 019459          122 TFKRQLMQ  129 (340)
Q Consensus       122 ~FKk~Lmq  129 (340)
                      ...=..+.
T Consensus       147 ~~l~~~l~  154 (302)
T PF10186_consen  147 RQLIQELS  154 (302)
T ss_pred             HHHHHHHH
Confidence            33333333

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

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

Probab=90.84  E-value=9.7  Score=38.42  Aligned_cols=101  Identities=17%  Similarity=0.235  Sum_probs=71.8

Q ss_pred             hhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-----------------
Q 019459           31 QLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFI-----------------   93 (340)
Q Consensus        31 QLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~-----------------   93 (340)
                      .|.-...-|..|+..||...+.--..|--++.+-...|++++.-+..|+.++.+-..-|+.|.                 
T Consensus       237 dl~~Q~~~vn~al~~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~L~~ai~~k~~~lkvaqTRL~~R~~RP~vElcrD  316 (384)
T PF03148_consen  237 DLRAQADAVNAALRKRIHETQEAKNELEWQLKKTLQEIAEMEKNIEDLEKAIRDKEGPLKVAQTRLENRTQRPNVELCRD  316 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhHhcCCchHHHHh
Confidence            344445667889999998666666666666666666666666666666666665555544433                 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           94 DDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        94 de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      .-+..|.+|-..|..++.+|+.-|...+..-+.|....
T Consensus       317 ~~q~~L~~Ev~~l~~~i~~L~~~L~~a~~~l~~L~~~~  354 (384)
T PF03148_consen  317 PPQYGLIEEVKELRESIEALQEKLDEAEASLQKLERTR  354 (384)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22478999999999999999999999998888887653

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

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

Probab=90.74  E-value=3.9  Score=38.91  Aligned_cols=42  Identities=14%  Similarity=0.234  Sum_probs=19.5

Q ss_pred             hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           50 LETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKI   91 (340)
Q Consensus        50 LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~   91 (340)
                      +|.|+..||.+|.+=-...+.|+-.+..+..++.+...|+..
T Consensus        52 ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~   93 (312)
T PF00038_consen   52 YEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEE   93 (312)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444

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 ....

>PRK09039 hypothetical protein; Validated

Probab=90.71  E-value=2.3  Score=42.39  Aligned_cols=48  Identities=17%  Similarity=0.232  Sum_probs=24.6

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFI   93 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~   93 (340)
                      .|..|-.||..||.+|+.=+..|.+++++....+..+.+...+|..|+
T Consensus       138 ~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~  185 (343)
T PRK09039        138 QVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVAL  185 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555555555555555555555555555544444444433

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

Probab=90.67  E-value=2.1  Score=46.67  Aligned_cols=43  Identities=30%  Similarity=0.388  Sum_probs=36.9

Q ss_pred             HHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           38 ITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQK   80 (340)
Q Consensus        38 Its~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~   80 (340)
                      -...+...|+..||.|+.+||..|..|++.+..|++.+.+|-.
T Consensus       538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~  580 (697)
T PF09726_consen  538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRK  580 (697)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455788999999999999999999999999999998864443

; GO: 0016021 integral to membrane

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=90.59  E-value=2.5  Score=40.62  Aligned_cols=34  Identities=29%  Similarity=0.395  Sum_probs=30.9

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKV   81 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~   81 (340)
                      ..|+.++..|.+++.|-..+|..|+.-+..++..
T Consensus         2 ~~lq~~l~~l~~~~~~~~~L~~kLE~DL~~~~~~   35 (248)
T PF08172_consen    2 EELQKELSELEAKLEEQKELNAKLENDLAKVQAS   35 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            5789999999999999999999999999998854

These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane

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

Probab=90.54  E-value=2.6  Score=43.59  Aligned_cols=64  Identities=19%  Similarity=0.287  Sum_probs=27.3

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      +||.++..|...+..=++.+.+.+..+..++..+.+.+.+|...+.+.   .+.+..|+..+..++|
T Consensus        63 kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~---r~qr~~La~~L~A~~r  126 (420)
T COG4942          63 KLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE---REQRRRLAEQLAALQR  126 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHh
Confidence            333333333333333333333333333333333344444443322222   3445566666666665

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

Probab=90.53  E-value=6.9  Score=36.67  Aligned_cols=73  Identities=22%  Similarity=0.236  Sum_probs=39.4

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           43 IASRVSKLETETGTMRQMLYEK-------DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEK-------d~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      +-+|+..||.++..+...|..-       ......+++++..|+..|.++..|.-.|.....+|.++.+.|-..+.+...
T Consensus       139 ~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~  218 (237)
T PF00261_consen  139 AESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKE  218 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555321       122344555566666666666666666666666666666666555544443

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 ....

>TIGR02231 conserved hypothetical protein

Probab=90.36  E-value=3  Score=43.09  Aligned_cols=81  Identities=14%  Similarity=0.157  Sum_probs=58.5

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHhHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVY------------------QEADSKLKIFIDDNAKLAKER  103 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L------------------~e~~~rl~~a~de~~kL~~E~  103 (340)
                      +...+|..|+.++..|+.++++-...+..++.++.-|+.--                  .+..+-+....++..+|..+.
T Consensus        68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (525)
T TIGR02231        68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTED  147 (525)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            35558888888888888888888888888888887776643                  222333333445667777888


Q ss_pred             HHHHHHHHHHhhhHHHHHH
Q 019459          104 DSLAMTARNLSRDLAKLET  122 (340)
Q Consensus       104 ~sLa~TvKKL~RDvaKLE~  122 (340)
                      ..|...+++|.+.+++|+.
T Consensus       148 ~~~~~~~~~~~~~l~~l~~  166 (525)
T TIGR02231       148 REAERRIRELEKQLSELQN  166 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888754

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.

>PRK10698 phage shock protein PspA; Provisional

Probab=90.18  E-value=5.6  Score=37.35  Aligned_cols=94  Identities=17%  Similarity=0.182  Sum_probs=44.3

Q ss_pred             CchhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH------------
Q 019459           27 DPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID------------   94 (340)
Q Consensus        27 DPyEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d------------   94 (340)
                      ||..-|++.           +..+|.++..+|+.++.=-..-..++.++..++....+-..+-..|++            
T Consensus        24 DP~k~l~q~-----------i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~   92 (222)
T PRK10698         24 DPQKLVRLM-----------IQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALI   92 (222)
T ss_pred             CHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            666555554           334455555555555443333334444444444444333333333332            


Q ss_pred             -------HHHHHHHHHHHHHHHHHHHhhhHHHH-------HHHHHHHHhhc
Q 019459           95 -------DNAKLAKERDSLAMTARNLSRDLAKL-------ETFKRQLMQSL  131 (340)
Q Consensus        95 -------e~~kL~~E~~sLa~TvKKL~RDvaKL-------E~FKk~LmqSL  131 (340)
                             ....|..+.+....+|.+|..++.+|       ++=|.+|+.-.
T Consensus        93 ~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~  143 (222)
T PRK10698         93 EKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQALMLRH  143 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   22333444555555665555555544       44455565443

>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids []

Probab=90.08  E-value=3  Score=33.26  Aligned_cols=53  Identities=21%  Similarity=0.322  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           69 CELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        69 ~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .+-.++....+.++.+....+..+..+++.|..-.+.|...|..|+..|.+|.
T Consensus        17 ~~y~~q~~~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~~Ls~ql~rLs   69 (70)
T PF04899_consen   17 QSYEKQQQEWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQRLSEQLERLS   69 (70)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34455666777778888888888888889999999999999999999999884

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

Probab=89.86  E-value=3.7  Score=46.82  Aligned_cols=34  Identities=24%  Similarity=0.312  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           98 KLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        98 kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      .+..++....+-.+-|.+.|.|||..-..|-..+
T Consensus       391 ~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~  424 (1074)
T KOG0250|consen  391 ELGSELEERENKLEQLKKEVEKLEEQINSLREEL  424 (1074)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555666666777777777777444444333

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=89.84  E-value=1.8  Score=36.76  Aligned_cols=49  Identities=22%  Similarity=0.394  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           67 LICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        67 ~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      .+.+|++++..+-.++.+....+...++||+.|.-||..|-..+.++..
T Consensus         9 ~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    9 RLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4566666777777777777777778888888888888877766666554

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=89.80  E-value=9.4  Score=34.89  Aligned_cols=94  Identities=19%  Similarity=0.224  Sum_probs=47.3

Q ss_pred             CchhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HhHH
Q 019459           27 DPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLK------------IFID   94 (340)
Q Consensus        27 DPyEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~------------~a~d   94 (340)
                      ||...|+.+.+           .+|.++..+|..++.--.....|+.++..++....+-..+..            .|+.
T Consensus        23 DP~~~l~q~ir-----------d~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~   91 (221)
T PF04012_consen   23 DPEKMLEQAIR-----------DMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQ   91 (221)
T ss_pred             CHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            67766666543           444444444444444444444444444444444433333333            3444


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           95 DNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        95 e~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      ++..+..+...|..++..+...+.+|+..-+.|-..|
T Consensus        92 ~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl  128 (221)
T PF04012_consen   92 RKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKL  128 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555666666666666666555555544444

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

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

Probab=89.72  E-value=4.4  Score=43.81  Aligned_cols=86  Identities=20%  Similarity=0.265  Sum_probs=45.0

Q ss_pred             hhHHHHHHHHHHHH--------HHhhhhHhHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 019459           31 QLDLARKITSMAIA--------SRVSKLETETGTMRQMLYEKD--------RLICELEERLSHVQKVYQEADSKLKIFID   94 (340)
Q Consensus        31 QLdlArkIts~A~a--------tRVs~LE~E~~~LR~~laEKd--------~~i~~Lq~r~~~le~~L~e~~~rl~~a~d   94 (340)
                      +.+++-|+.-+-+.        +||--||.|+..||.+++.-.        ..|+.+...+.+.|...++...-+.+   
T Consensus       227 dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~---  303 (629)
T KOG0963|consen  227 DEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIER---  303 (629)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHH---
Confidence            45566666554332        688899999999998875311        22333333333333333333322221   


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           95 DNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        95 e~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      .++-|++|+...+++|.+|.+.+..
T Consensus       304 ~~~S~~~e~e~~~~qI~~le~~l~~  328 (629)
T KOG0963|consen  304 LEASLVEEREKHKAQISALEKELKA  328 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555555555555555544

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=89.70  E-value=4.1  Score=49.17  Aligned_cols=92  Identities=22%  Similarity=0.286  Sum_probs=78.1

Q ss_pred             hhhHHHHHHHH-----HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 019459           30 DQLDLARKITS-----MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERD  104 (340)
Q Consensus        30 EQLdlArkIts-----~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~  104 (340)
                      |.++++-.|..     -+..+.=.+||+++..|...|+|......-..+|+-.+...+......|+...+.+.+|-..|.
T Consensus      1696 e~~E~~e~i~~~~~~~s~l~~~KrklE~~i~~l~~elee~~~~~~~~~Er~kka~~~a~~~~~el~~Eq~~~~~le~~k~ 1775 (1930)
T KOG0161|consen 1696 ELEELAERVNELNAQNSSLTAEKRKLEAEIAQLQSELEEEQSELRAAEERAKKAQADAAKLAEELRKEQETSQKLERLKK 1775 (1930)
T ss_pred             HHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            44455555544     4566777899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhHHHHH
Q 019459          105 SLAMTARNLSRDLAKLE  121 (340)
Q Consensus       105 sLa~TvKKL~RDvaKLE  121 (340)
                      +|-.+||-|.--+..+|
T Consensus      1776 ~LE~~~kdLq~rL~e~E 1792 (1930)
T KOG0161|consen 1776 SLERQVKDLQLRLDEAE 1792 (1930)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999998875544444

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

Probab=89.59  E-value=20  Score=34.73  Aligned_cols=33  Identities=9%  Similarity=0.163  Sum_probs=14.6

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERL   75 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~   75 (340)
                      +..++..|+.++..++.++..-...+..+++++
T Consensus       142 ~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l  174 (423)
T TIGR01843       142 LRAQLELILAQIKQLEAELAGLQAQLQALRQQL  174 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444455544444444444444333333333

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.

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

Probab=89.42  E-value=2.7  Score=45.89  Aligned_cols=87  Identities=20%  Similarity=0.301  Sum_probs=55.7

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-------HHHHHhhhHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAM-------TARNLSRDLAKLE  121 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~-------TvKKL~RDvaKLE  121 (340)
                      +||+|+.+||..|.-......||+.+++.|+..=..+..-|.+...||+-|+.....|..       ++.-|.|-|+-..
T Consensus       422 rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~  501 (697)
T PF09726_consen  422 RLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEER  501 (697)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999998888775445555566655555555554333332       2222333333333


Q ss_pred             HHHHHHHhhccccC
Q 019459          122 TFKRQLMQSLNDDN  135 (340)
Q Consensus       122 ~FKk~LmqSLqeD~  135 (340)
                      .-|..|=+.|++|-
T Consensus       502 ~~R~~lEkQL~eEr  515 (697)
T PF09726_consen  502 RQRASLEKQLQEER  515 (697)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33444445555554

; GO: 0016021 integral to membrane

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

Probab=89.29  E-value=5.3  Score=45.49  Aligned_cols=37  Identities=24%  Similarity=0.320  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCCh
Q 019459          289 YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNK  325 (340)
Q Consensus       289 YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNk  325 (340)
                      .|+|.....-..+|+.+++.-++.+.+..+.+..-++
T Consensus       969 iee~e~~~~r~~~l~~~~~dl~~a~~~l~~~i~~~d~ 1005 (1163)
T COG1196         969 IEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELDK 1005 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555544444444444433333

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

Probab=89.29  E-value=16  Score=33.85  Aligned_cols=82  Identities=17%  Similarity=0.218  Sum_probs=62.0

Q ss_pred             HHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Q 019459           40 SMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQK---VYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRD  116 (340)
Q Consensus        40 s~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~---~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RD  116 (340)
                      .......|..+..|..+|+.-|..-...+.+|++++...+.   .|..+.+|+....++...|.-|...|-.-+.+|.++
T Consensus        43 e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~E  122 (201)
T PF13851_consen   43 EERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQE  122 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555677788888888888888888888888887776654   566788888888888877777777777777777777


Q ss_pred             HHHHH
Q 019459          117 LAKLE  121 (340)
Q Consensus       117 vaKLE  121 (340)
                      -.-|.
T Consensus       123 rdeL~  127 (201)
T PF13851_consen  123 RDELY  127 (201)
T ss_pred             HHHHH
Confidence            66554

>PF11594 Med28: Mediator complex subunit 28; InterPro: IPR021640 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]

Probab=89.24  E-value=3.1  Score=35.75  Aligned_cols=57  Identities=23%  Similarity=0.426  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHHHHHHh--------hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           32 LDLARKITSMAIASRV--------SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSK   88 (340)
Q Consensus        32 LdlArkIts~A~atRV--------s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~r   88 (340)
                      |||||..=+--+-.|.        ..|+-|+..||..|+-|+.++..+.+++...+.-|.|++..
T Consensus        14 lD~aRq~e~~FlqKr~~LS~~kpe~~lkEEi~eLK~ElqRKe~Ll~Kh~~kI~~w~~lL~d~~~~   78 (106)
T PF11594_consen   14 LDVARQMEAFFLQKRFELSAYKPEQVLKEEINELKEELQRKEQLLQKHYEKIDYWEKLLSDAQNQ   78 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            8999998887777665        46889999999999999999999999999999988887653

It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Subunit Med28 of the Mediator may function as a scaffolding protein within Mediator by maintaining the stability of a submodule within the head module, and components of this submodule act together in a gene-regulatory programme to suppress smooth muscle cell differentiation. Thus, mammalian Mediator subunit Med28 functions as a repressor of smooth muscle-cell differentiation, which could have implications for disorders associated with abnormalities in smooth muscle cell growth and differentiation, including atherosclerosis, asthma, hypertension, and smooth muscle tumours [].

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=89.23  E-value=3.8  Score=43.02  Aligned_cols=63  Identities=21%  Similarity=0.214  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHHHHHHHHHhh
Q 019459           53 ETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID-DNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        53 E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d-e~~kL~~E~~sLa~TvKKL~R  115 (340)
                      ++..||.++++-......|.++-+.|....+..+.|+.+|++ +...|.+|+..|...+-+|..
T Consensus        67 ~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~  130 (472)
T TIGR03752        67 EVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQG  130 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555555555566655542 233444444444444333333

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>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=89.18  E-value=1.8  Score=34.32  Aligned_cols=51  Identities=22%  Similarity=0.349  Sum_probs=41.7

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIF   92 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a   92 (340)
                      .++...-++..-|.+||+++.+-+..|.+|..+++.++..+.....++..+
T Consensus        23 kLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~~~   73 (74)
T PF12329_consen   23 KLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLKRA   73 (74)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            456666777778888999998888889999988888888888888888653

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.

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

Probab=89.15  E-value=17  Score=34.58  Aligned_cols=79  Identities=16%  Similarity=0.189  Sum_probs=50.0

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH----HHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDD----NAKLAKERDSLAMTARNLSRDLAKLETFK  124 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de----~~kL~~E~~sLa~TvKKL~RDvaKLE~FK  124 (340)
                      .+-.|+..+|.++..-...+..|+.+...|+..+.+...++..-.++    ...|..|...|-..+....++...|-..|
T Consensus       213 ~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ey~~Ll~~K  292 (312)
T PF00038_consen  213 SAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREEYQAEIAELEEELAELREEMARQLREYQELLDVK  292 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666667777777777777777777777777776666543332    34555666666666666666666666666


Q ss_pred             HHH
Q 019459          125 RQL  127 (340)
Q Consensus       125 k~L  127 (340)
                      -.|
T Consensus       293 ~~L  295 (312)
T PF00038_consen  293 LAL  295 (312)
T ss_dssp             HHH
T ss_pred             HhH
Confidence            544

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 ....

>smart00787 Spc7 Spc7 kinetochore protein

Probab=89.02  E-value=8.6  Score=38.11  Aligned_cols=49  Identities=20%  Similarity=0.282  Sum_probs=23.5

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhccc
Q 019459           85 ADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLND  133 (340)
Q Consensus        85 ~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLqe  133 (340)
                      +..+|.....+.+...++-..+-.++..|+-+|...+.=|..+...|++
T Consensus       209 lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~  257 (312)
T smart00787      209 AKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAE  257 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444445555555555555555555555554443

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

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

Probab=88.60  E-value=5.2  Score=40.63  Aligned_cols=41  Identities=12%  Similarity=0.261  Sum_probs=27.0

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVY   82 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L   82 (340)
                      .+..++..||.+...|+....++.-.+.+|++++..++..+
T Consensus       251 ~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l  291 (498)
T TIGR03007       251 ELDGRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQK  291 (498)
T ss_pred             chHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHH
Confidence            34566777777777777766666666666666666666554

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.

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

Probab=88.45  E-value=16  Score=35.40  Aligned_cols=48  Identities=15%  Similarity=0.231  Sum_probs=26.8

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLK   90 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~   90 (340)
                      +..+...+++++..++.+++.-...+..++.++..++..+..+..++.
T Consensus       135 ~~~~~~~~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~  182 (423)
T TIGR01843       135 FESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELE  182 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555666666655555666666666655555554444443

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=88.35  E-value=6  Score=39.40  Aligned_cols=93  Identities=12%  Similarity=0.153  Sum_probs=57.0

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHH--------------
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID-DNAKLAKERDSL--------------  106 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d-e~~kL~~E~~sL--------------  106 (340)
                      .+.+++..||.+...|+....++.-.+-+|+.+++.++..|.+.-.++....+ +...+....+.|              
T Consensus       258 ~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l  337 (444)
T TIGR03017       258 NLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAEIKKVTSSVGTNSRILKQREAELREALENQKAKVLEL  337 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46678888888888888888888888888888888888877654444332221 111111222222              


Q ss_pred             ---HHHHHHHhhhHHHHHHHHHHHHhhcccc
Q 019459          107 ---AMTARNLSRDLAKLETFKRQLMQSLNDD  134 (340)
Q Consensus       107 ---a~TvKKL~RDvaKLE~FKk~LmqSLqeD  134 (340)
                         ......|.||++--+..=..|++.+++-
T Consensus       338 ~~~~~~~~~L~r~~~~~~~~y~~ll~r~~e~  368 (444)
T TIGR03017       338 NRQRDEMSVLQRDVENAQRAYDAAMQRYTQT  368 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               2344566666666666666666666543

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.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=88.26  E-value=5.3  Score=44.27  Aligned_cols=64  Identities=25%  Similarity=0.366  Sum_probs=55.2

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLA  107 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa  107 (340)
                      ..++..+-+|...|...|.+|++.|.+|.+.-+.+|..+.+...||..++-||.-|.=|-..|.
T Consensus        98 ~~~l~~~~~e~~~l~~~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~  161 (769)
T PF05911_consen   98 SKRLAESAAENSALSKALQEKEKLIAELSEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLS  161 (769)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567788888999999999999999999999999999999999999998888877766555543

The function of this family is unknown.

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

Probab=88.24  E-value=12  Score=42.15  Aligned_cols=37  Identities=16%  Similarity=0.243  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           82 YQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        82 L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      +.+....+..++..+.++.++|.+|..+|-++.|...
T Consensus       447 ~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~  483 (980)
T KOG0980|consen  447 YDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAG  483 (980)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555556666666666666666655443

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=88.22  E-value=11  Score=40.18  Aligned_cols=75  Identities=19%  Similarity=0.238  Sum_probs=39.6

Q ss_pred             CchhHHhcCCCCchhhhHHHHH---------HHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           16 LPDEVLAVIPTDPYDQLDLARK---------ITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEAD   86 (340)
Q Consensus        16 Lp~eilsvLP~DPyEQLdlArk---------Its~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~   86 (340)
                      |-+.|-.+|=-|++++|.-=-+         +....+..++..||.++..+..++.+....+..++.++..++..+.+..
T Consensus       171 l~~Ai~~LlGl~~~~~L~~dl~~~~~~~~~~~~~~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~  250 (650)
T TIGR03185       171 LKEAIEVLLGLDLIDRLAGDLTNVLRRRKKSELPSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLE  250 (650)
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555566666632111         1122344556666666666666666666666666666666666555555


Q ss_pred             HHHH
Q 019459           87 SKLK   90 (340)
Q Consensus        87 ~rl~   90 (340)
                      .++.
T Consensus       251 ~~~~  254 (650)
T TIGR03185       251 KKFR  254 (650)
T ss_pred             HHHH
Confidence            5443

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.

>TIGR02977 phageshock_pspA phage shock protein A

Probab=88.20  E-value=10  Score=35.26  Aligned_cols=24  Identities=33%  Similarity=0.439  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           97 AKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        97 ~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      ..|..+-+.+..+|.+|.+.|.+|
T Consensus       102 ~~l~~~~~~~~~~v~~l~~~l~~L  125 (219)
T TIGR02977       102 EALERELAAVEETLAKLQEDIAKL  125 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555544

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]

Probab=88.19  E-value=1.9  Score=41.04  Aligned_cols=65  Identities=20%  Similarity=0.390  Sum_probs=58.4

Q ss_pred             CCccchHHHHHHHHhcCC--HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhhc
Q 019459          271 TPRIDGKEFFRQARSRLS--YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLN  336 (340)
Q Consensus       271 ~~rvDGKEFFRQARsRLS--YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL~  336 (340)
                      -+--|..-|.+.++.++.  .|-|..||.-.|++=||+-.+.+...+..|+|-. |.||...|...|=
T Consensus        17 ~t~~DAlsYl~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~vi~rv~eLfK~-h~~Ll~gfN~fLP   83 (231)
T KOG4204|consen   17 LTLDDALAYLKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPGVIARVKELLKG-HPDLLLGFNTFLP   83 (231)
T ss_pred             CChHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHcc-CHHHHHHHHhhCc
Confidence            367789999999999886  5679999999999999999999999999999964 7899999988764

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=88.15  E-value=5.3  Score=41.57  Aligned_cols=69  Identities=17%  Similarity=0.156  Sum_probs=38.9

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      -.-.|++|...+++++.+|+.++.+||+...+|-..+....+-.+.-..+...+-+++-.+.+-+++|+
T Consensus        35 q~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~~r~~~eir~~~  103 (459)
T KOG0288|consen   35 QLVILRAESRAIKAKLQEKELELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLRIRSLNEIRELR  103 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334567777777777777777777777777666655555444444333333333333333444444443

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

Probab=88.14  E-value=6.2  Score=40.08  Aligned_cols=91  Identities=12%  Similarity=0.135  Sum_probs=62.1

Q ss_pred             HHhhhhHhHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH---HHH
Q 019459           45 SRVSKLETETGTMRQMLYEKD--------------RLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERD---SLA  107 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd--------------~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~---sLa  107 (340)
                      -+|-.|..++..|++++.+.-              ..+.+|+.++..++.++.....++....++.+++..+-.   .+.
T Consensus       275 P~v~~l~~qi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~  354 (498)
T TIGR03007       275 PDVIATKREIAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLEARVAELTARIERLESLLRTIPEVE  354 (498)
T ss_pred             hHHHHHHHHHHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHH
Confidence            456777888888888776531              234556667777777776666666665555555555544   345


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHhhccccC
Q 019459          108 MTARNLSRDLAKLETFKRQLMQSLNDDN  135 (340)
Q Consensus       108 ~TvKKL~RDvaKLE~FKk~LmqSLqeD~  135 (340)
                      .+...|.||+.-.+..=..|++.+++-.
T Consensus       355 ~el~~L~Re~~~~~~~Y~~l~~r~eea~  382 (498)
T TIGR03007       355 AELTQLNRDYEVNKSNYEQLLTRRESAE  382 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778999999988888888888776643

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.

>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function

Probab=88.11  E-value=4.3  Score=35.70  Aligned_cols=67  Identities=21%  Similarity=0.306  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcc
Q 019459           64 KDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLN  132 (340)
Q Consensus        64 Kd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLq  132 (340)
                      |+.+..+|++++..+|.+|++..-.+++++.|+.+-.-  ..+.+--...+...++++..|+.|.+-|+
T Consensus        18 K~~l~~~l~~~i~~~d~el~QLefq~kr~~~e~~~~~~--~~~~~i~~q~~~e~~~r~e~k~~l~~ql~   84 (131)
T PF11068_consen   18 KEELLQELQEQIQQLDQELQQLEFQGKRMIKEIKKQNA--QQIQSIQQQFEQEKQERLEQKNQLLQQLE   84 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcch--hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67889999999999999999999999887777543211  24444445667777788888888776663

; PDB: 4DCI_C.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=88.05  E-value=9.3  Score=34.12  Aligned_cols=73  Identities=19%  Similarity=0.275  Sum_probs=48.8

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      +.+....|+.|...||..-..=+......++||+.||....+...-|...++++.++.++   +...|-.|..++.
T Consensus        64 lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~E~ek~q~~e~---~~~~ve~L~~ql~  136 (140)
T PF10473_consen   64 LTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEKEQEKVQLKEE---SKSAVEMLQKQLK  136 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHh
Confidence            445566678888888755444455555666679999998888888888888886555544   4445555555443

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>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=87.93  E-value=9.2  Score=40.95  Aligned_cols=80  Identities=25%  Similarity=0.301  Sum_probs=60.0

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEER-----------LSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMT  109 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r-----------~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~T  109 (340)
                      -+..-||.+|..|+..+-.-|.|+...-.-|+.+           ++...+.|+|..+.|+.+..|+++|..||.-|..-
T Consensus       367 e~~k~~ie~L~~el~~~e~~lqEer~E~qkL~~ql~ke~D~n~vqlsE~~rel~Elks~lrv~qkEKEql~~EkQeL~~y  446 (546)
T PF07888_consen  367 EADKDEIEKLSRELQMLEEHLQEERMERQKLEKQLGKEKDCNRVQLSENRRELQELKSSLRVAQKEKEQLQEEKQELLEY  446 (546)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444578888888877766666655555455443           45566777788888999999999999999999999


Q ss_pred             HHHHhhhHHHH
Q 019459          110 ARNLSRDLAKL  120 (340)
Q Consensus       110 vKKL~RDvaKL  120 (340)
                      |++|..-+.++
T Consensus       447 i~~Le~r~~~~  457 (546)
T PF07888_consen  447 IERLEQRLDKV  457 (546)
T ss_pred             HHHHHHHHHHh
Confidence            99888877776

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 [].

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

Probab=87.89  E-value=4.1  Score=37.46  Aligned_cols=97  Identities=20%  Similarity=0.304  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhhhhHhH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 019459           37 KITSMAIASRVSKLETE---------------------TGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDD   95 (340)
Q Consensus        37 kIts~A~atRVs~LE~E---------------------~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de   95 (340)
                      .|++|.|+-=|..|=.|                     ...++.++.+=...+..+++++..|+..|.++ ...+...++
T Consensus        26 gI~~~~VKdvlq~LvDDglV~~EKiGssn~YWsFps~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~-~~~r~~~~e  104 (188)
T PF03962_consen   26 GIVSMSVKDVLQSLVDDGLVHVEKIGSSNYYWSFPSQAKQKRQNKLEKLQKEIEELEKKIEELEEKIEEA-KKGREESEE  104 (188)
T ss_pred             CCchhhHHHHHHHHhccccchhhhccCeeEEEecChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcccccHH
Confidence            46677777766666554                     44566666666666677777777777766666 333444466


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcccc
Q 019459           96 NAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLNDD  134 (340)
Q Consensus        96 ~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLqeD  134 (340)
                      -.+|.++...|...++.|...++++...=-..++-+.++
T Consensus       105 R~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~  143 (188)
T PF03962_consen  105 REELLEELEELKKELKELKKELEKYSENDPEKIEKLKEE  143 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            677777777777777777777766554444445544443

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

>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=87.75  E-value=4  Score=46.45  Aligned_cols=86  Identities=15%  Similarity=0.286  Sum_probs=71.9

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      +-.-.+.|++|++.|+.++..-......+++.+.....-+.+.+.++.-.+-+.+++..|+....-.+|||..+|.|++.
T Consensus       841 ~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~e~~~~e~~~~~l~~kkle~e~~~~~~  920 (1174)
T KOG0933|consen  841 LEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVTKLES  920 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHHHHHHHHhhcccchHHHHHhHHHHhhh
Confidence            34556778888888888888777777888888888888888888888888889999999999999999999999999998


Q ss_pred             HHHHHH
Q 019459          123 FKRQLM  128 (340)
Q Consensus       123 FKk~Lm  128 (340)
                      =++..-
T Consensus       921 e~~~~~  926 (1174)
T KOG0933|consen  921 EKANAR  926 (1174)
T ss_pred             hHHHHH
Confidence            776543

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

Probab=87.72  E-value=6.9  Score=42.29  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=14.4

Q ss_pred             HHHHhhhhHhHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLY   62 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~la   62 (340)
                      ...||..||..+..|+.+++
T Consensus        48 ~~~~V~eLE~sL~eLk~q~~   67 (617)
T PF15070_consen   48 DISRVQELERSLSELKNQMA   67 (617)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            45677777777777777766

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

Probab=87.56  E-value=6  Score=41.08  Aligned_cols=70  Identities=19%  Similarity=0.278  Sum_probs=44.5

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      -|..+...|+.++..++.+.+..-..|++.+.++|..+...+..|....++..++.+..+.+-..+++|.
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~  107 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALE  107 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHH
Confidence            5566667777777777777666666666666666666666666666655555555555555555555443

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=87.51  E-value=6.4  Score=47.62  Aligned_cols=75  Identities=23%  Similarity=0.328  Sum_probs=59.7

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      ....++|.|+..|+.++.+.+..+..++.....++..+......+..-.|.+.||.+|+..|-..++.|.-||+.
T Consensus       929 ~~~~~~~~e~~~l~~~~~~~E~~~~k~~~Ek~~~e~~~~~l~~e~~~~~e~~~kL~kekk~lEe~~~~l~~~l~~ 1003 (1930)
T KOG0161|consen  929 RKKRKLEQEVQELKEQLEELELTLQKLELEKNAAENKLKNLEEEINSLDENISKLSKEKKELEERIRELQDDLQA 1003 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566677778888888888888888888888888888888888888888888888888888888887777754

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

Probab=87.26  E-value=14  Score=36.41  Aligned_cols=83  Identities=16%  Similarity=0.193  Sum_probs=44.5

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETF  123 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~F  123 (340)
                      ..-+..++.|+..|.+.-.+....+.+|++....++.++.+....+....++.++.-++.+.+....-.+..+..-|++-
T Consensus        42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q  121 (314)
T PF04111_consen   42 EEDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQ  121 (314)
T ss_dssp             HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556666666666666566666666666666666665555555555555555555555555544444444444444


Q ss_pred             HHH
Q 019459          124 KRQ  126 (340)
Q Consensus       124 Kk~  126 (340)
                      ...
T Consensus       122 ~~~  124 (314)
T PF04111_consen  122 YEY  124 (314)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

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.

>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]

Probab=87.10  E-value=6.1  Score=44.65  Aligned_cols=61  Identities=20%  Similarity=0.408  Sum_probs=51.4

Q ss_pred             HHHHHHHHhcCC--HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhhccc
Q 019459          277 KEFFRQARSRLS--YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNRN  338 (340)
Q Consensus       277 KEFFRQARsRLS--YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL~R~  338 (340)
                      --|.-.+|.|+.  .|+|-.||-..+-.---..+=.|....+.++|. +++|||.+|..+|--|
T Consensus       273 I~~vnkVK~r~~~~pe~y~~fl~~Lrtyq~~qr~i~ev~~~Vt~lfa-~~PdLleeFk~FLPd~  335 (1163)
T COG5602         273 IIFVNKVKVRFQNNPEMYYDFLDSLRTYQMKQRSIQEVYARVTKLFA-EAPDLLEEFKEFLPDS  335 (1163)
T ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHHHhhhccHHHHHHHHHHHHh-hChHHHHHHHHhCccc
Confidence            457777899987  599999999998876666677889999999997 5899999999998544

>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=87.01  E-value=8.9  Score=41.05  Aligned_cols=46  Identities=22%  Similarity=0.351  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHhhhHHHHH
Q 019459           76 SHVQKVYQEADSKLKIFIDDNAKLA---KERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        76 ~~le~~L~e~~~rl~~a~de~~kL~---~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ..|..++.++.+|+..-.++...|.   .|++.+...+|+++.++..++
T Consensus       209 ~~L~~q~~e~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~  257 (546)
T PF07888_consen  209 ESLKEQLAEARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLE  257 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555554442   344555555566665555555

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=87.00  E-value=13  Score=42.36  Aligned_cols=32  Identities=25%  Similarity=0.384  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 019459           98 KLAKERDSLAMTARNLSRDLAKLETFKRQLMQ  129 (340)
Q Consensus        98 kL~~E~~sLa~TvKKL~RDvaKLE~FKk~Lmq  129 (340)
                      .|......+...++++.+++.++..=...+.+
T Consensus       450 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (1163)
T COG1196         450 ELEEQLEELRDRLKELERELAELQEELQRLEK  481 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455566666666666665554444443

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=86.96  E-value=6.8  Score=41.22  Aligned_cols=76  Identities=18%  Similarity=0.163  Sum_probs=58.6

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLK-IFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~-~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      +..+|..|+.|+..|..+=..=..+...|++|-..++..++.+-+.-+ ...+|+..|.+|+..|...+-.|.+.|.
T Consensus        64 lva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l~  140 (472)
T TIGR03752        64 LVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQRRLA  140 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456777777777777776666666777899999999988888775544 4455889999999999998888877553

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=86.95  E-value=5.5  Score=44.09  Aligned_cols=52  Identities=19%  Similarity=0.174  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Q 019459           79 QKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQS  130 (340)
Q Consensus        79 e~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqS  130 (340)
                      |.-|+.+-..+-+|+|+++.|..|-+++.+.+-.+++|=.||-+|+-.|-+-
T Consensus       201 dErlqlhlkermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e  252 (916)
T KOG0249|consen  201 DERLQLHLKERMAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGE  252 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            3445555666678999999999999999999999999988888888766553

>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function

Probab=86.78  E-value=27  Score=32.61  Aligned_cols=87  Identities=18%  Similarity=0.231  Sum_probs=57.9

Q ss_pred             hHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 019459           32 LDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR  111 (340)
Q Consensus        32 LdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK  111 (340)
                      |+|..+...+||......||+....|...|.+..+.|.++..+=-..+.   ++..+|...+..-..|...|-.+-..+.
T Consensus       123 LeLl~~~g~naW~~~n~~Le~~~~~le~~l~~~k~~ie~vN~~RK~~Q~---~~~~~L~~Le~~W~~~v~kn~eie~a~~  199 (221)
T PF05700_consen  123 LELLSKYGENAWLIHNEQLEAMLKRLEKELAKLKKEIEEVNRERKRRQE---EAGEELRYLEQRWKELVSKNLEIEVACE  199 (221)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788888899999999999999999999999999999998764332222   2333444433333445555555555555


Q ss_pred             HHhhhHHHHH
Q 019459          112 NLSRDLAKLE  121 (340)
Q Consensus       112 KL~RDvaKLE  121 (340)
                      +|.++|..|.
T Consensus       200 ~Le~ei~~l~  209 (221)
T PF05700_consen  200 ELEQEIEQLK  209 (221)
T ss_pred             HHHHHHHHHH
Confidence            5554444443

The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=86.75  E-value=12  Score=34.77  Aligned_cols=81  Identities=16%  Similarity=0.265  Sum_probs=55.2

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH--------HHHHHHHHHHHHHHHHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFI--------DDNAKLAKERDSLAMTARN  112 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~--------de~~kL~~E~~sLa~TvKK  112 (340)
                      .-+.--+.+...|++.||.+|-.....+.+++.++-..|.+|.-+.+.+.+-.        .|-.+|+.+-+.+...+..
T Consensus        57 ~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~  136 (194)
T PF15619_consen   57 AELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQE  136 (194)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHH
Confidence            34555677888999999999999888999999999988888888887776622        2334444444444444444


Q ss_pred             HhhhHHHHH
Q 019459          113 LSRDLAKLE  121 (340)
Q Consensus       113 L~RDvaKLE  121 (340)
                      -.+.+..||
T Consensus       137 ~~~ki~~Le  145 (194)
T PF15619_consen  137 KEKKIQELE  145 (194)
T ss_pred             HHHHHHHHH
Confidence            444444443

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=86.48  E-value=5.5  Score=39.84  Aligned_cols=69  Identities=22%  Similarity=0.331  Sum_probs=46.2

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      .-+.+.|..|=.|+.+||++|+.-.+....-+..+..=+                 ..+..||..|-   +||.+++++-
T Consensus       225 e~~~shI~~Lr~EV~RLR~qL~~sq~e~~~k~~~~~~ee-----------------k~ireEN~rLq---r~L~~E~err  284 (310)
T PF09755_consen  225 ERLSSHIRSLRQEVSRLRQQLAASQQEHSEKMAQYLQEE-----------------KEIREENRRLQ---RKLQREVERR  284 (310)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHH---HHHHHHHHHH
Confidence            446777889999999999998855444444444443333                 33444444443   4788999999


Q ss_pred             HHHHHHHHh
Q 019459          121 ETFKRQLMQ  129 (340)
Q Consensus       121 E~FKk~Lmq  129 (340)
                      |++=|+|--
T Consensus       285 eal~R~lse  293 (310)
T PF09755_consen  285 EALCRHLSE  293 (310)
T ss_pred             HHHHHHHHH
Confidence            999888754

>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]

Probab=86.45  E-value=3.4  Score=38.93  Aligned_cols=35  Identities=34%  Similarity=0.534  Sum_probs=31.6

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLS   76 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~   76 (340)
                      -+.+-+.++|.||..||+-|+-|++|..||..|+-
T Consensus        48 elr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLG   82 (208)
T KOG4010|consen   48 ELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLG   82 (208)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            46778899999999999999999999999999875

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=86.39  E-value=29  Score=36.59  Aligned_cols=77  Identities=26%  Similarity=0.353  Sum_probs=43.5

Q ss_pred             HHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           40 SMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        40 s~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      .-|.+--+..|.+||.+||..|+--.....+                 ++-+-.+|....-+||..|   -+||.+.|.|
T Consensus       248 a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~e-----------------k~~qy~~Ee~~~reen~rl---QrkL~~e~er  307 (552)
T KOG2129|consen  248 AAAEKLHIDKLQAEVERLRTYLSRAQKSYQE-----------------KLMQYRAEEVDHREENERL---QRKLINELER  307 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHhhHHHHHHHH---HHHHHHHHHH
Confidence            3456666778888999888887533222222                 2222222333333333333   2578888888


Q ss_pred             HHHHHHHHHh---hccccCC
Q 019459          120 LETFKRQLMQ---SLNDDNS  136 (340)
Q Consensus       120 LE~FKk~Lmq---SLqeD~~  136 (340)
                      =|++-|+|-.   ||+-|++
T Consensus       308 Realcr~lsEsesslemdee  327 (552)
T KOG2129|consen  308 REALCRMLSESESSLEMDEE  327 (552)
T ss_pred             HHHHHHHhhhhhHHHHHHHH
Confidence            8888888754   3444444

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=86.35  E-value=19  Score=32.03  Aligned_cols=84  Identities=13%  Similarity=0.290  Sum_probs=70.2

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQL  127 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~L  127 (340)
                      -.|.-|...|..++.||...+..|+.++..-=..|.-...+|.....+...|..+-...-..+.++..++.++..=+..+
T Consensus        45 eqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~  124 (177)
T PF13870_consen   45 EQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKL  124 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35777889999999999999999999999888889999999999999998888888888888888888887776655555


Q ss_pred             Hhhc
Q 019459          128 MQSL  131 (340)
Q Consensus       128 mqSL  131 (340)
                      -..+
T Consensus       125 ~~~~  128 (177)
T PF13870_consen  125 RKQN  128 (177)
T ss_pred             HHHH
Confidence            4433

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

Probab=86.26  E-value=18  Score=31.49  Aligned_cols=33  Identities=15%  Similarity=0.288  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           57 MRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        57 LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      |-..|..++-.+..|+.+++.|+.+-..+++-+
T Consensus        21 L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Ei   53 (120)
T PF12325_consen   21 LQSQLRRLEGELASLQEELARLEAERDELREEI   53 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444555555554444444444333

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

>KOG4398 consensus Predicted coiled-coil protein [General function prediction only]

Probab=86.18  E-value=4.5  Score=40.40  Aligned_cols=84  Identities=18%  Similarity=0.230  Sum_probs=65.9

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH---
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDL---  117 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv---  117 (340)
                      |..++|..+||.-|.+=   -.|+...+..|.+..+.++.-+.    |+..-.|.++||+.-|.-|-.-|+|+.-||   
T Consensus         1 ~~~k~~~~~~~~~i~k~---nee~~~~~~~~~k~~e~~qkl~s----r~~~~~ekke~i~r~n~k~~d~v~~~~~~~~~~   73 (359)
T KOG4398|consen    1 MSCKMRIEQLKQTICKG---NEEMEKNSEGLLKTKEKNQKLYS----RAQRHQEKKEKIQRHNRKLGDLVEKKTIDLRSH   73 (359)
T ss_pred             CchhHHHHHHHHHHhcC---cHHHHHhHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhhcchHHHHHHHHHHHH
Confidence            34567777887766644   45666777788877776555443    888888899999999999999999998775   


Q ss_pred             -HHHHHHHHHHHhhc
Q 019459          118 -AKLETFKRQLMQSL  131 (340)
Q Consensus       118 -aKLE~FKk~LmqSL  131 (340)
                       .||+.++++-++-|
T Consensus        74 ~erl~~lr~shi~el   88 (359)
T KOG4398|consen   74 YERLANLRRSHILEL   88 (359)
T ss_pred             HHHHHHHHHHHHHHH
Confidence             79999999988876

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

Probab=86.10  E-value=7.2  Score=44.61  Aligned_cols=88  Identities=22%  Similarity=0.300  Sum_probs=46.8

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .+...+..||.|+.+|..++-+=..+..+.++.+..++..+.+...++.+..-.+.++--|-..|.+|.--..-|+.+|+
T Consensus       658 s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~~~~~~~l~~~~~q~~~~~~~~~~em~el~n~~e~~~~~~~~~~  737 (1074)
T KOG0250|consen  658 SFDDEIEDLEREASRLQKEILELENQRREAEKNLEELEKKLRELSEHIEQIKRRIRKKRAEMTELKNTAEEKQVDISKLE  737 (1074)
T ss_pred             hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchhhhH
Confidence            34455566666666666655555555555555555555555555555555555555555555555554223333444444


Q ss_pred             HHHHHHHh
Q 019459          122 TFKRQLMQ  129 (340)
Q Consensus       122 ~FKk~Lmq  129 (340)
                      ...+.+|.
T Consensus       738 ~l~~ei~~  745 (1074)
T KOG0250|consen  738 DLAREIKK  745 (1074)
T ss_pred             HHHHHHHH
Confidence            44443333

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=86.05  E-value=11  Score=37.94  Aligned_cols=42  Identities=21%  Similarity=0.442  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           78 VQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        78 le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      +.....+..--+...+||++.|..|||....-|-+||..+.-
T Consensus       138 ~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~  179 (319)
T PF09789_consen  138 LREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNY  179 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444445566778899999999999999999999988754

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

Probab=85.72  E-value=23  Score=32.93  Aligned_cols=83  Identities=20%  Similarity=0.296  Sum_probs=51.9

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRL---ICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~---i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      =+.+++.|+..|+.+|..=+..   ...+..|+..++..|.+..-.-..-.+.-.+|.+||+.|-......-.||..==.
T Consensus        63 pL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~  142 (201)
T PF13851_consen   63 PLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTG  142 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556777777777777643322   2234555555555555555555555555566888888888777777777776666


Q ss_pred             HHHHHH
Q 019459          123 FKRQLM  128 (340)
Q Consensus       123 FKk~Lm  128 (340)
                      ||-.|+
T Consensus       143 ~kn~lL  148 (201)
T PF13851_consen  143 LKNLLL  148 (201)
T ss_pred             HHHHHH
Confidence            666554

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=85.45  E-value=16  Score=28.68  Aligned_cols=80  Identities=18%  Similarity=0.289  Sum_probs=43.3

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH
Q 019459           43 IASRVSKLETETGTMRQMLYEKD-----RLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDL  117 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd-----~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv  117 (340)
                      +..++..|+.+...+...+....     ..+...+.-+..|+..+......+       ..+.++-..+-..+....+++
T Consensus        17 ~~~~l~~L~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~l~~~i~~~~~~~-------~~~~~~~~~~r~~l~~a~~~~   89 (123)
T PF02050_consen   17 AEEQLEQLQQERQEYQEQLSESQQGVSVAQLRNYQRYISALEQAIQQQQQEL-------ERLEQEVEQAREELQEARRER   89 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHT-----SGGGHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence            44555566666665555555555     444444455555555444444444       346666666666777777777


Q ss_pred             HHHHHHHHHHHh
Q 019459          118 AKLETFKRQLMQ  129 (340)
Q Consensus       118 aKLE~FKk~Lmq  129 (340)
                      .++|.++..-..
T Consensus        90 k~~e~L~e~~~~  101 (123)
T PF02050_consen   90 KKLEKLKERRRE  101 (123)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777776654433

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=85.39  E-value=12  Score=35.18  Aligned_cols=65  Identities=22%  Similarity=0.293  Sum_probs=33.3

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      .|+.|+..||.-+..=.+....|..+...+|.+-+-..+++..-.++|.||.-|.+-|....+-|
T Consensus        64 ~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL  128 (193)
T PF14662_consen   64 ALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKEL  128 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHH
Confidence            34455555555555555555555555555555555555555555555555555554444444433

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=85.38  E-value=3.8  Score=39.05  Aligned_cols=71  Identities=18%  Similarity=0.315  Sum_probs=39.7

Q ss_pred             HHHHhhhhHh------HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLET------ETGTMRQMLYEK---DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        43 ~atRVs~LE~------E~~~LR~~laEK---d~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      |..+.-.|++      +...+|.++.-.   .+....+.+....|+.+|+.-...|       +++++.++.|-.++..+
T Consensus       119 ll~~l~~l~~~~~~~~~~~~lk~~~~~~~~~~~~~~~~~~~~~kL~~el~~~~~~L-------e~~~~~~~al~Kq~e~~  191 (216)
T KOG1962|consen  119 LLRELATLRANEKAMKENEALKKQLENSSKLEEENDKLKADLEKLETELEKKQKKL-------EKAQKKVDALKKQSEGL  191 (216)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhhhcccchhhhHHHHHhhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHc
Confidence            3444455555      555555555431   2334444455555555555555555       44667777777777777


Q ss_pred             hhhHHHH
Q 019459          114 SRDLAKL  120 (340)
Q Consensus       114 ~RDvaKL  120 (340)
                      ++..++|
T Consensus       192 ~~EydrL  198 (216)
T KOG1962|consen  192 QDEYDRL  198 (216)
T ss_pred             ccHHHHH
Confidence            7777665

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=85.36  E-value=14  Score=30.36  Aligned_cols=68  Identities=16%  Similarity=0.132  Sum_probs=34.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           52 TETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        52 ~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      .|+.++-+.-.+-...+..+...+..+|.-..-.......|..+.-.+-+-+++|.+-+|+|+.-+.|
T Consensus         3 ~EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~K   70 (96)
T PF08647_consen    3 TELVSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSK   70 (96)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444445555555555555555555555555555555555555555555544

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=84.98  E-value=18  Score=36.26  Aligned_cols=94  Identities=23%  Similarity=0.349  Sum_probs=54.1

Q ss_pred             HHHHHHHHhhhhHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------hHHH
Q 019459           39 TSMAIASRVSKLETETGTMR-QMLYEKDRLICELEERLSHVQKVYQEADSKLKI----------------------FIDD   95 (340)
Q Consensus        39 ts~A~atRVs~LE~E~~~LR-~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~----------------------a~de   95 (340)
                      +++.+..|+..|..|-..|= .--.|-..+...|+.|+.+|-.+-.+....|.+                      -..+
T Consensus        78 isN~LlKkl~~l~keKe~L~~~~e~EEE~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~~~q~~  157 (310)
T PF09755_consen   78 ISNTLLKKLQQLKKEKETLALKYEQEEEFLTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKSAKQEE  157 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            56777777777766665552 333334444455555544444333333222221                      1112


Q ss_pred             HHHHHHHHHHHHHH--------HHHHhhhHHHHHHHHHHHHhhcc
Q 019459           96 NAKLAKERDSLAMT--------ARNLSRDLAKLETFKRQLMQSLN  132 (340)
Q Consensus        96 ~~kL~~E~~sLa~T--------vKKL~RDvaKLE~FKk~LmqSLq  132 (340)
                      .++|.+|+--|-+|        |.+|.+.++||++=||.|=..|.
T Consensus       158 le~Lr~EKVdlEn~LE~EQE~lvN~L~Kqm~~l~~eKr~Lq~~l~  202 (310)
T PF09755_consen  158 LERLRREKVDLENTLEQEQEALVNRLWKQMDKLEAEKRRLQEKLE  202 (310)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            23566666666555        67899999999999998877653

>PRK04863 mukB cell division protein MukB; Provisional

Probab=84.87  E-value=22  Score=42.23  Aligned_cols=78  Identities=13%  Similarity=0.130  Sum_probs=39.3

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDR------LICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~------~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      .-|..++.+||.++...+..+..+.+      .+..+...+..|+..+.+...++..+.++...+.+|...+...++.|.
T Consensus       317 ~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLq  396 (1486)
T PRK04863        317 AELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELK  396 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777787777777666554433      233334444444444444444444444444444444444444444443


Q ss_pred             hhHH
Q 019459          115 RDLA  118 (340)
Q Consensus       115 RDva  118 (340)
                      ..++
T Consensus       397 eqLa  400 (1486)
T PRK04863        397 SQLA  400 (1486)
T ss_pred             HHHH
Confidence            3333

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

Probab=84.85  E-value=13  Score=39.97  Aligned_cols=83  Identities=23%  Similarity=0.265  Sum_probs=48.3

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS---RDLAKLETFKR  125 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~---RDvaKLE~FKk  125 (340)
                      .-|.|+..|..+|.+=...|.+++..+..+...+.+....+.....++..|.++......++.=|.   ..|+||+.+-.
T Consensus       325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~kL~~~v~  404 (594)
T PF05667_consen  325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAKLQALVE  404 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            334555666666666666666666666666666666666666666666666666655444443332   45677777666


Q ss_pred             HHHhhc
Q 019459          126 QLMQSL  131 (340)
Q Consensus       126 ~LmqSL  131 (340)
                      .-++.|
T Consensus       405 ~s~~rl  410 (594)
T PF05667_consen  405 ASEQRL  410 (594)
T ss_pred             HHHHHH
Confidence            555544

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=84.66  E-value=9.3  Score=33.97  Aligned_cols=54  Identities=13%  Similarity=0.048  Sum_probs=35.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 019459           51 ETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERD  104 (340)
Q Consensus        51 E~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~  104 (340)
                      -.+...||..+......+...+..+..+..+|..+.+....-...++.|-.+..
T Consensus        18 ~~~~~~l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~~~~~Q~~Lr~~~~   71 (135)
T TIGR03495        18 SQRLRNARADLERANRVLKAQQAELASKANQLIVLLALAKRNEEAQAQLRQQLA   71 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455677777777777777777777777777777666655554455555544433

Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=84.59  E-value=15  Score=36.21  Aligned_cols=70  Identities=23%  Similarity=0.268  Sum_probs=39.7

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           51 ETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        51 E~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      |.|....+.+|..+..+...+++.+...|..+.++..|+...-+....|..|+..|..+|..+.--|.|+
T Consensus       192 e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~sKV~kf  261 (269)
T PF05278_consen  192 EEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKSIKSKVEKF  261 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344444445555555555555555555555555555555555555556677777777777666555443

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=84.55  E-value=19  Score=28.73  Aligned_cols=20  Identities=30%  Similarity=0.546  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 019459           94 DDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        94 de~~kL~~E~~sLa~TvKKL  113 (340)
                      ++|.+|..|+.....-++.|
T Consensus        46 ~en~~L~~e~~~~~~rl~~L   65 (72)
T PF06005_consen   46 EENEQLKQERNAWQERLRSL   65 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34445555555444444443

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=84.54  E-value=5.5  Score=34.25  Aligned_cols=46  Identities=24%  Similarity=0.335  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           68 ICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        68 i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      +.+|++++..+-.++.+....+...++||..|.-||+.|-.-+.++
T Consensus        10 l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169         10 LDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4445555555555555666666667777777777777766555443

>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=84.48  E-value=13  Score=35.44  Aligned_cols=91  Identities=15%  Similarity=0.168  Sum_probs=63.1

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      |..-|..+|.|...|..=-.|++.+..|=...    ..+|++.++-++..+.....+..||+.....+.+|..++.+|..
T Consensus        20 i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h----~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~   95 (230)
T PF10146_consen   20 ILQEVESLENEEKCLEEYRKEMEELLQERMAH----VEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKD   95 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445556666655555555555444333333    33566777777777777778888999999999999999999998


Q ss_pred             HHHHHHhh-ccccCCC
Q 019459          123 FKRQLMQS-LNDDNSS  137 (340)
Q Consensus       123 FKk~LmqS-LqeD~~~  137 (340)
                      +=-.+..+ |.-+...
T Consensus        96 ~in~~R~e~lgl~~Lp  111 (230)
T PF10146_consen   96 EINELRKEYLGLEPLP  111 (230)
T ss_pred             HHHHHHHHHcCCCCCC
Confidence            88888888 7666554

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.

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

Probab=84.46  E-value=20  Score=33.25  Aligned_cols=73  Identities=21%  Similarity=0.248  Sum_probs=34.2

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ++-.+..+|-.++.++......+...+..||.-+.+....+...-.+++..-+|...|..-+.+|+.++...|
T Consensus       107 ~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e  179 (190)
T PF05266_consen  107 KLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAE  179 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555566655333333333333333333333333333333344444555556566666666665554

>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=84.41  E-value=17  Score=36.46  Aligned_cols=98  Identities=18%  Similarity=0.210  Sum_probs=64.5

Q ss_pred             hhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 019459           31 QLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHV----QKVYQEADSKLKIFIDDNAKLAKERDSL  106 (340)
Q Consensus        31 QLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~l----e~~L~e~~~rl~~a~de~~kL~~E~~sL  106 (340)
                      .+.+-..|.--++-.|+..||.|-..||.....=+.....++++-..|    =.+|.+|+..+...-+|.++-.+|+...
T Consensus       153 ~~~~~~~~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQ  232 (306)
T PF04849_consen  153 SLSSQKCIQLEALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQ  232 (306)
T ss_pred             ccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHH
Confidence            334445567778899999999999999988776665544554443333    2456677777766666666666666666


Q ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Q 019459          107 AMTARNLSRDLAKLETFKRQLM  128 (340)
Q Consensus       107 a~TvKKL~RDvaKLE~FKk~Lm  128 (340)
                      -..|-.|...|.+|+.=-|++|
T Consensus       233 QEEIt~LlsqivdlQ~r~k~~~  254 (306)
T PF04849_consen  233 QEEITSLLSQIVDLQQRCKQLA  254 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            6666666666666665555554

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 [].

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=84.09  E-value=11  Score=37.41  Aligned_cols=68  Identities=22%  Similarity=0.325  Sum_probs=41.4

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHhHHHHHHHHH---HHHHHHHHHHHHh
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQK-------VYQEADSKLKIFIDDNAKLAK---ERDSLAMTARNLS  114 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~-------~L~e~~~rl~~a~de~~kL~~---E~~sLa~TvKKL~  114 (340)
                      ++.||.+.+.+++.-..-..-|.+|+.+-..||+       .|.+-.+||++|++-|+=|..   |+.+|..-|.+|.
T Consensus        93 ~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdEke~llesvqRLk  170 (333)
T KOG1853|consen   93 ESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDEKEVLLESVQRLK  170 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4455555554444433333444444444444443       367788999999999988865   5667777766663

>TIGR00606 rad50 rad50

Probab=84.08  E-value=23  Score=40.98  Aligned_cols=62  Identities=15%  Similarity=0.121  Sum_probs=39.3

Q ss_pred             HHHHHHHH-HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 019459           33 DLARKITS-MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID   94 (340)
Q Consensus        33 dlArkIts-~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d   94 (340)
                      .++.+|.. -.|..++..|..++..++..+.+.+..+..|+.++..+...+.+...+....++
T Consensus       875 kl~~~l~~r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  937 (1311)
T TIGR00606       875 QIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNK  937 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333 345666667777777777777777777777777777777777665555544443

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

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

Probab=84.06  E-value=14  Score=40.16  Aligned_cols=72  Identities=19%  Similarity=0.198  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 019459           55 GTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQ  126 (340)
Q Consensus        55 ~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~  126 (340)
                      ..+-..|..||++|..|-.-|..++.++++........+..-++..+.++.-..++|+.-..-+--|..|+-
T Consensus       281 ~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~~sDYeeIK~E  352 (629)
T KOG0963|consen  281 DALGSVLNQKDSEIAQLSNDIERLEASLVEEREKHKAQISALEKELKAKISELEELKEKLNSRSDYEEIKKE  352 (629)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHH
Confidence            344455666666666666666666666666666666655555555555555555555444333444555554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=84.06  E-value=5.3  Score=38.30  Aligned_cols=65  Identities=15%  Similarity=0.280  Sum_probs=33.5

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +.-.||.+||..+.       -+.....+|+.++..|+.++.+.+..+..       +..|-+.|..--|.|..||+++
T Consensus        37 ~~~~r~~~le~~~~-------~~~~~~~~l~~ql~~lq~ev~~LrG~~E~-------~~~~l~~~~~rq~~~y~dld~r  101 (263)
T PRK10803         37 SVEDRVTQLERISN-------AHSQLLTQLQQQLSDNQSDIDSLRGQIQE-------NQYQLNQVVERQKQIYLQIDSL  101 (263)
T ss_pred             chHHHHHHHHHHHH-------hhhHHHHHHHHHHHHHHHHHHHHhhHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence            33455555555544       44444555555555555555555444432       4444444555555566666653

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=83.94  E-value=4.7  Score=42.41  Aligned_cols=51  Identities=10%  Similarity=0.092  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 019459           59 QMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMT  109 (340)
Q Consensus        59 ~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~T  109 (340)
                      .+|+|-.....+|+++++.|..++++....+...++..++|..|+..|..+
T Consensus        69 SALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Q  119 (475)
T PRK13729         69 HATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQ  119 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            345555556666666666665544444444433333333344444444333

>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events []

Probab=83.92  E-value=12  Score=37.81  Aligned_cols=25  Identities=32%  Similarity=0.575  Sum_probs=17.9

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459          107 AMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus       107 a~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      -.+|+.+-+|+.+|..=||+|-+|+
T Consensus        84 E~~V~~it~dIk~LD~AKrNLT~SI  108 (383)
T PF04100_consen   84 EQMVQEITRDIKQLDNAKRNLTQSI  108 (383)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567777777777777777776665

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=83.64  E-value=11  Score=40.54  Aligned_cols=30  Identities=17%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhccccCC
Q 019459          107 AMTARNLSRDLAKLETFKRQLMQSLNDDNS  136 (340)
Q Consensus       107 a~TvKKL~RDvaKLE~FKk~LmqSLqeD~~  136 (340)
                      ......|.||++-.+..=..|++.+++-.-
T Consensus       375 ~~e~~~L~Re~~~~~~~Y~~ll~r~~e~~~  404 (754)
T TIGR01005       375 QVDLDALQRDAAAKRQLYESYLTNYRQAAS  404 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667778887777777777877766543

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.

>PF14932 HAUS-augmin3: HAUS augmin-like complex subunit 3

Probab=83.62  E-value=20  Score=34.27  Aligned_cols=45  Identities=18%  Similarity=0.175  Sum_probs=29.3

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      ..|..||.|+..|+.....+...+..|+.....+-..+.....+.
T Consensus        68 ~~le~Le~el~~l~~~~~~~~~~~~~lq~~~~~~~~~~~~l~~~~  112 (256)
T PF14932_consen   68 EDLEALEEELEALQEYKELYEQLRNKLQQLDSSLSQELSELEGKE  112 (256)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            556788888888877777777777776665555554444444443

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=83.61  E-value=20  Score=37.56  Aligned_cols=46  Identities=20%  Similarity=0.350  Sum_probs=32.0

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhccc
Q 019459           88 KLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLND  133 (340)
Q Consensus        88 rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLqe  133 (340)
                      -|+...+||..|.+|+-.+..|+|-|.+|+-.+|+.+=.+.+-+.+
T Consensus        56 ~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~~r~~~eir~  101 (459)
T KOG0288|consen   56 ELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLRIRSLNEIRE  101 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455666677777777788888888888888877666665543

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=83.52  E-value=25  Score=35.11  Aligned_cols=37  Identities=19%  Similarity=0.308  Sum_probs=20.3

Q ss_pred             CchhhhHHHHHHHHHHHHHHhhhh---HhHHHHHHHHHHH
Q 019459           27 DPYDQLDLARKITSMAIASRVSKL---ETETGTMRQMLYE   63 (340)
Q Consensus        27 DPyEQLdlArkIts~A~atRVs~L---E~E~~~LR~~laE   63 (340)
                      -|..|=+|+.|=.-.=++--+.+|   |.||..||.+|+-
T Consensus        61 TPLQQKEV~iRHLkakLkes~~~l~dRetEI~eLksQL~R  100 (305)
T PF15290_consen   61 TPLQQKEVCIRHLKAKLKESENRLHDRETEIDELKSQLAR  100 (305)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            367788888776554444333333   4455555555544

>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=83.49  E-value=31  Score=32.48  Aligned_cols=8  Identities=38%  Similarity=0.426  Sum_probs=3.5

Q ss_pred             HHHHHHhc
Q 019459          279 FFRQARSR  286 (340)
Q Consensus       279 FFRQARsR  286 (340)
                      -|+.|+..
T Consensus       228 ai~ia~kq  235 (251)
T PF11932_consen  228 AIRIARKQ  235 (251)
T ss_pred             HHHHHhCC
Confidence            34444443

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.

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=83.43  E-value=19  Score=35.48  Aligned_cols=85  Identities=15%  Similarity=0.245  Sum_probs=52.9

Q ss_pred             hcCCCCchhhhHHHHHHHHH---H------HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 019459           22 AVIPTDPYDQLDLARKITSM---A------IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIF   92 (340)
Q Consensus        22 svLP~DPyEQLdlArkIts~---A------~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a   92 (340)
                      .||=+ ..+.+--|+++...   +      .-.+|...+.|...+...|.++...+.++++|+       -++.+||..+
T Consensus       169 ~WLR~-~L~Ei~Ea~e~~~~~~~~e~eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i-------~e~~~rl~~l  240 (269)
T PF05278_consen  169 DWLRS-KLEEILEAKEIYDQHETREEEKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERI-------TEMKGRLGEL  240 (269)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH
Confidence            44433 45555556555432   1      122334444455555555555555555555555       4888889998


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 019459           93 IDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        93 ~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      ..+-.+|.+.-..+...|+|..
T Consensus       241 ~~~~~~l~k~~~~~~sKV~kf~  262 (269)
T PF05278_consen  241 EMESTRLSKTIKSIKSKVEKFH  262 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhc
Confidence            8888999998888888888874

>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=83.34  E-value=36  Score=32.53  Aligned_cols=65  Identities=18%  Similarity=0.324  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 019459           55 GTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETF  123 (340)
Q Consensus        55 ~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~F  123 (340)
                      +.||.++.+=..+..+|.+.++.+|.    -...|..-..|...|..||.+++.-++-.+-|+..||+.
T Consensus         4 ~~ir~K~~~lek~k~~i~~e~~~~e~----ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~i   68 (230)
T PF10146_consen    4 KEIRNKTLELEKLKNEILQEVESLEN----EEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENI   68 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555444444444444443333    223444444555555555555555555555555555543

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.

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=83.12  E-value=29  Score=29.83  Aligned_cols=81  Identities=21%  Similarity=0.260  Sum_probs=42.2

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKR  125 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk  125 (340)
                      .+..|++|+.+++..+.+-...+..+++-+...-....++..+..+-+--.+...++-..|-..+..+...+..|+.-..
T Consensus         4 e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~   83 (132)
T PF07926_consen    4 ELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAEAE   83 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666666666666666666666566655554443333333333333333333444444444433333


Q ss_pred             H
Q 019459          126 Q  126 (340)
Q Consensus       126 ~  126 (340)
                      +
T Consensus        84 ~   84 (132)
T PF07926_consen   84 S   84 (132)
T ss_pred             H
Confidence            3

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=82.74  E-value=6.6  Score=39.38  Aligned_cols=76  Identities=25%  Similarity=0.291  Sum_probs=56.6

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .-+..+|..|+..||++|.|=.--|.-|+++++...........+.  ..+|.++|..+-..+-.+.+-|.|||.-+-
T Consensus        78 re~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~--~~~ere~lV~qLEk~~~q~~qLe~d~qs~l  153 (319)
T PF09789_consen   78 REQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARH--FPHEREDLVEQLEKLREQIEQLERDLQSLL  153 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccc--cchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4577899999999999999999999999999998877666555443  226666666666666666666666665443

>PRK04863 mukB cell division protein MukB; Provisional

Probab=82.73  E-value=18  Score=42.87  Aligned_cols=82  Identities=13%  Similarity=0.208  Sum_probs=44.4

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFK  124 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FK  124 (340)
                      ..+..++.++..|..++.+....+.++++++..++..+.++..++.....+...+..+.+.+...+..+...+++|+.-|
T Consensus       348 ~ei~~l~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~~  427 (1486)
T PRK04863        348 EKIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERAK  427 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555555555555555555555555555555555444445555555555555666666666666554


Q ss_pred             HH
Q 019459          125 RQ  126 (340)
Q Consensus       125 k~  126 (340)
                      ..
T Consensus       428 ~~  429 (1486)
T PRK04863        428 QL  429 (1486)
T ss_pred             HH
Confidence            43

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

Probab=82.30  E-value=11  Score=35.70  Aligned_cols=71  Identities=18%  Similarity=0.256  Sum_probs=49.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           51 ETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        51 E~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .+||-.||.+|.+-.........++..|..++..-+..|.....|......|...|-..|-+|..++++|.
T Consensus        30 ~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~~~Ea~lLrekl~~le~El~~Lr  100 (202)
T PF06818_consen   30 DSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRKKNEAELLREKLGQLEAELAELR  100 (202)
T ss_pred             HhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHHhCHHHHhhhhhhhhHHHHHHHH
Confidence            45667777777766666666666666666666666666666666666777777777777777777777664

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

>PLN03188 kinesin-12 family protein; Provisional

Probab=82.25  E-value=15  Score=42.91  Aligned_cols=82  Identities=20%  Similarity=0.255  Sum_probs=53.3

Q ss_pred             HHHHHHhhhhHhH-----------HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 019459           41 MAIASRVSKLETE-----------TGTMRQMLYEKD---RLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSL  106 (340)
Q Consensus        41 ~A~atRVs~LE~E-----------~~~LR~~laEKd---~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sL  106 (340)
                      +|+|.-++.|-.|           -..|+.||-+-.   +...||==|+-++|.++..+..|...|++|++||-|+    
T Consensus      1158 ~alaae~s~l~~ereker~~~~~enk~l~~qlrdtaeav~aagellvrl~eaeea~~~a~~r~~~~eqe~~~~~k~---- 1233 (1320)
T PLN03188       1158 NALAAEISALKVEREKERRYLRDENKSLQAQLRDTAEAVQAAGELLVRLKEAEEALTVAQKRAMDAEQEAAEAYKQ---- 1233 (1320)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
Confidence            5666666666555           556666664433   3445677777777777777777777777777776654    


Q ss_pred             HHHHHHHhhhH-HHHHHHHHHHHh
Q 019459          107 AMTARNLSRDL-AKLETFKRQLMQ  129 (340)
Q Consensus       107 a~TvKKL~RDv-aKLE~FKk~Lmq  129 (340)
                         +.||.|.- --+.++|..|-.
T Consensus      1234 ---~~klkrkh~~e~~t~~q~~ae 1254 (1320)
T PLN03188       1234 ---IDKLKRKHENEISTLNQLVAE 1254 (1320)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHhh
Confidence               45566665 567777776644

>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=82.20  E-value=21  Score=31.64  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 019459           71 LEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        71 Lq~r~~~le~~L~e~~~rl   89 (340)
                      |...+..|+.++....+||
T Consensus       114 l~~~i~~l~~e~~~l~~kL  132 (169)
T PF07106_consen  114 LREEIEELEEEIEELEEKL  132 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333344

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 [].

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

Probab=82.07  E-value=36  Score=36.92  Aligned_cols=93  Identities=19%  Similarity=0.185  Sum_probs=59.7

Q ss_pred             hhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHhHHHHHHHHH
Q 019459           31 QLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEAD---------SKLKIFIDDNAKLAK  101 (340)
Q Consensus        31 QLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~---------~rl~~a~de~~kL~~  101 (340)
                      |....-|=.+.-|.-||..|-.++..|+.....--+.|.+|+..+..|..++....         ..-.+..++.+.|.+
T Consensus        15 ~ya~~lk~e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~k   94 (617)
T PF15070_consen   15 QYAQQLKEESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRK   94 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHH
Confidence            34444444445578899999999999988776666777777777777766655211         011122335566888


Q ss_pred             HHHHHHHHHHHHhhhHHHHHHH
Q 019459          102 ERDSLAMTARNLSRDLAKLETF  123 (340)
Q Consensus       102 E~~sLa~TvKKL~RDvaKLE~F  123 (340)
                      |...|...++...+|..-|..+
T Consensus        95 ElE~L~~qlqaqv~~ne~Ls~L  116 (617)
T PF15070_consen   95 ELESLEEQLQAQVENNEQLSRL  116 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            8888887777776665554443

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

Probab=81.94  E-value=11  Score=35.49  Aligned_cols=79  Identities=20%  Similarity=0.172  Sum_probs=54.7

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      +.+++...||+++.+++++.+...+-|+-       ...-+.++..|       +..|.++.++|....+-|.-+|+|++
T Consensus        78 ~~ks~~qeLe~~L~~~~qk~~tl~e~~en-------~K~~~e~tEer-------~~el~kklnslkk~~e~lr~el~k~~  143 (203)
T KOG3433|consen   78 DRKSVLQELESQLATGSQKKATLGESIEN-------RKAGREETEER-------TDELTKKLNSLKKILESLRWELAKIQ  143 (203)
T ss_pred             HHHHHHHHHHHHHHHhhhhHhHHHHHHHH-------HHhhhhhhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            67889999999999999998877664433       22222233333       33588888999888888888999987


Q ss_pred             HHHHHHHhhcccc
Q 019459          122 TFKRQLMQSLNDD  134 (340)
Q Consensus       122 ~FKk~LmqSLqeD  134 (340)
                      --+-++..-+..+
T Consensus       144 e~dpqv~~k~~~~  156 (203)
T KOG3433|consen  144 ETDPQVFEKKVHL  156 (203)
T ss_pred             hcCHHHHHHHHHH
Confidence            6555554444333

>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma

Probab=81.88  E-value=16  Score=33.61  Aligned_cols=34  Identities=38%  Similarity=0.572  Sum_probs=30.3

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERL   75 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~   75 (340)
                      .+..-+.++|.||..||+-|+-|.++..+|+.|+
T Consensus        33 eLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkL   66 (162)
T PF04201_consen   33 ELRSELAKVEEEIQTLRQVLAAKERHCAELKRKL   66 (162)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            3555678899999999999999999999999996

Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].

>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions

Probab=81.76  E-value=9.4  Score=31.42  Aligned_cols=64  Identities=14%  Similarity=0.193  Sum_probs=46.3

Q ss_pred             CCCCchhHHhcCCCCchhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           13 DFHLPDEVLAVIPTDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQ   83 (340)
Q Consensus        13 ~f~Lp~eilsvLP~DPyEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~   83 (340)
                      ..+||++|...+       .++...+...|..--...|+.+...+.+.+.+-+....++.+++..|+.++.
T Consensus        56 ~~~lP~~l~~~~-------~~~~~~~~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~e~~  119 (120)
T PF11740_consen   56 APDLPEALQDAL-------AELMARLWEAAQEEAEEELEAARAELEQERAAAEAELAEAEAQAEELEAELA  119 (120)
T ss_pred             ccCCChhHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345566554422       4677788888888888888888888888888888888888887777776654

These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.

>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []

Probab=81.65  E-value=5  Score=30.85  Aligned_cols=35  Identities=9%  Similarity=0.319  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           77 HVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        77 ~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      .||..+......+..       +.+|+..|..+|-++++.|.
T Consensus         4 elEn~~~~~~~~i~t-------vk~en~~i~~~ve~i~envk   38 (55)
T PF05377_consen    4 ELENELPRIESSINT-------VKKENEEISESVEKIEENVK   38 (55)
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence            333333344444555       44444444444444444443

In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].

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

Probab=81.65  E-value=28  Score=37.41  Aligned_cols=91  Identities=22%  Similarity=0.282  Sum_probs=55.1

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------------HHHHHHHHHHH-HHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIF--------------IDDNAKLAKER-DSLAM  108 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a--------------~de~~kL~~E~-~sLa~  108 (340)
                      -.|.+.||+|+.-++.....-+..+..|......|..+|..+...|-+.              ++|..-+.... ..+-.
T Consensus       147 ~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e  226 (546)
T KOG0977|consen  147 LSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEE  226 (546)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHH
Confidence            3455666666666666666666666666666666666665555444332              22222222221 23446


Q ss_pred             HHHHHhhhH--HHHHHHHHHHHhhcccc
Q 019459          109 TARNLSRDL--AKLETFKRQLMQSLNDD  134 (340)
Q Consensus       109 TvKKL~RDv--aKLE~FKk~LmqSLqeD  134 (340)
                      +.++..||.  ..=+-||..|.++|+|=
T Consensus       227 ~~~~~~rd~t~~~r~~F~~eL~~Ai~ei  254 (546)
T KOG0977|consen  227 ERRKARRDTTADNREYFKNELALAIREI  254 (546)
T ss_pred             HHHHHhhcccccchHHHHHHHHHHHHHH
Confidence            677888898  77899999999999653

>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]

Probab=81.51  E-value=7  Score=33.74  Aligned_cols=50  Identities=26%  Similarity=0.355  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           62 YEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        62 aEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      .||.++|.    +|-+|+..|.+..+|.....+||-||..||..|-+-+..|+-
T Consensus        56 EEKaRlIt----QVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQYIeNLMS  105 (120)
T KOG3650|consen   56 EEKARLIT----QVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQYIENLMS  105 (120)
T ss_pred             HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHh
Confidence            56666664    577788889999999999999999999999999998887764

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.39  E-value=14  Score=36.25  Aligned_cols=61  Identities=20%  Similarity=0.351  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           61 LYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        61 laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      +...|..|-++++.+..++.+|...+..+.-+......+.+|++.+-.-+|+|+.+++.|+
T Consensus        33 i~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~   93 (265)
T COG3883          33 IQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK   93 (265)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555666666665555555555555555555555555566666666666666666665553

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

Probab=81.34  E-value=13  Score=40.84  Aligned_cols=24  Identities=21%  Similarity=0.177  Sum_probs=10.8

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHH
Q 019459           87 SKLKIFIDDNAKLAKERDSLAMTA  110 (340)
Q Consensus        87 ~rl~~a~de~~kL~~E~~sLa~Tv  110 (340)
                      .|+..|.|.|++|.+-=+.+.+.+
T Consensus       600 eR~e~a~d~Qe~L~~R~~~vl~~l  623 (717)
T PF10168_consen  600 ERYEEAKDKQEKLMKRVDRVLQLL  623 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444333

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

>cd07638 BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2

Probab=81.12  E-value=16  Score=34.25  Aligned_cols=84  Identities=13%  Similarity=0.179  Sum_probs=67.8

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKR  125 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk  125 (340)
                      +|..+|.++..|+.++..=-    .+-.++-....++.-|.......+.|-.+...+-+..+.+++|...-|..++.++.
T Consensus         3 ~i~~~E~d~~~Le~~l~Kl~----K~~~~~~dag~~~~~a~~~F~~~l~d~~~~~~~De~i~~~l~kF~~~l~ei~~~~~   78 (200)
T cd07638           3 ALEDVEGDVAELELKLDKLV----KLCIGMIDAGKAFCQANKQFMNGIRDLAQYSSKDAVIETSLTKFSDTLQEMINYHT   78 (200)
T ss_pred             hHHHHHhhHHHHHHHHHHHH----HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCcchhhHHHHHHHHHHHHHHHHHHH
Confidence            57889999999998875433    33344555788888899999999999888877888899999999999999999998


Q ss_pred             HHHhhccc
Q 019459          126 QLMQSLND  133 (340)
Q Consensus       126 ~LmqSLqe  133 (340)
                      .|+.-.+.
T Consensus        79 ~L~~q~~~   86 (200)
T cd07638          79 ILFDQAQR   86 (200)
T ss_pred             HHHHHHHH
Confidence            88875543

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP2 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2), also called centaurin beta-2, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=80.80  E-value=46  Score=31.73  Aligned_cols=42  Identities=29%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             CCchhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           26 TDPYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHV   78 (340)
Q Consensus        26 ~DPyEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~l   78 (340)
                      .||..+|+-+.           -.++.+...+|+.+++=-.....|+.++..+
T Consensus        23 EDp~~~l~Q~i-----------rd~~~~l~~ar~~~A~~~a~~k~~e~~~~~~   64 (225)
T COG1842          23 EDPEKMLEQAI-----------RDMESELAKARQALAQAIARQKQLERKLEEA   64 (225)
T ss_pred             cCHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            37776666653           3444555555554444433333333333333

>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12)

Probab=80.68  E-value=33  Score=34.19  Aligned_cols=79  Identities=16%  Similarity=0.243  Sum_probs=50.3

Q ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHH----HhHHHHHHHHHHHHHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADS-----------KLK----IFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        49 ~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~-----------rl~----~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      .|-+.+++++..|.+-.+.|.+|+++|..|..++..-..           .+.    ...+-..+|++=.+.|+..-.+|
T Consensus        71 ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~~~~~~~~~~n~~~~~~~~t~~la~~t~~L~~~~~~l  150 (301)
T PF06120_consen   71 QLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAEKGITENGYIINHLMSQADATRKLAEATRELAVAQERL  150 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888888888888888888888888877732111           111    11222344444445577777777


Q ss_pred             hhhHHHHHHHHHHH
Q 019459          114 SRDLAKLETFKRQL  127 (340)
Q Consensus       114 ~RDvaKLE~FKk~L  127 (340)
                      ++.+.|+..--++|
T Consensus       151 ~q~~~k~~~~q~~l  164 (301)
T PF06120_consen  151 EQMQSKASETQATL  164 (301)
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777776655544

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=80.56  E-value=27  Score=34.81  Aligned_cols=37  Identities=16%  Similarity=0.264  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
Q 019459           54 TGTMRQMLYEKDRLICELEER-------LSHVQKVYQEADSKLK   90 (340)
Q Consensus        54 ~~~LR~~laEKd~~i~~Lq~r-------~~~le~~L~e~~~rl~   90 (340)
                      +..||++|.+....+++|..+       +-.++.++.+....|.
T Consensus       256 i~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~  299 (444)
T TIGR03017       256 IQNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLN  299 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHH
Confidence            344555555555555555443       3344444444444443

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.

>PRK01156 chromosome segregation protein; Provisional

Probab=80.36  E-value=30  Score=38.02  Aligned_cols=45  Identities=13%  Similarity=0.210  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           76 SHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        76 ~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      ..++..+.....++.....+...|..+...|..+|.+|.+.+.++
T Consensus       677 ~~~~~~~~~l~~~l~~l~~~~~~l~~~i~~l~~~~~~l~eel~~~  721 (895)
T PRK01156        677 NDIEDNLKKSRKALDDAKANRARLESTIEILRTRINELSDRINDI  721 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            333333333444444444444445555555555444444444433

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

Probab=80.31  E-value=11  Score=29.33  Aligned_cols=31  Identities=19%  Similarity=0.246  Sum_probs=16.9

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhccccC
Q 019459          105 SLAMTARNLSRDLAKLETFKRQLMQSLNDDN  135 (340)
Q Consensus       105 sLa~TvKKL~RDvaKLE~FKk~LmqSLqeD~  135 (340)
                      .|..+|-+.++++++|+.--+.|..-|.+-.
T Consensus        22 ~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen   22 ELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3555666666667777666666666665543

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

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=80.06  E-value=13  Score=29.40  Aligned_cols=56  Identities=27%  Similarity=0.404  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH----HHHHHHH
Q 019459           65 DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL----ETFKRQL  127 (340)
Q Consensus        65 d~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL----E~FKk~L  127 (340)
                      +..|..||.|+..+++       ++.....++..|..||+..+..+--...+..+|    |++|+.|
T Consensus         4 ea~~~~Lr~rLd~~~r-------k~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el   63 (69)
T PF14197_consen    4 EAEIATLRNRLDSLTR-------KNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKEL   63 (69)
T ss_pred             HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677777666555       555556677779999999988888777776654    5666653

>PF14817 HAUS5: HAUS augmin-like complex subunit 5

Probab=80.05  E-value=31  Score=37.58  Aligned_cols=80  Identities=21%  Similarity=0.248  Sum_probs=57.8

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-------HHHHHHHHHHHHHhhhHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLA-------KERDSLAMTARNLSRDLA  118 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~-------~E~~sLa~TvKKL~RDva  118 (340)
                      |=..|+.||.+||..+.+-|..|..++..++.-|.++..+-+++......+.=|.       .+...|..-.|+|+.-|.
T Consensus        80 ~r~~L~~everLraei~~l~~~I~~~e~e~~~~e~~~~q~~~~~~~~~~k~~LL~Ay~q~c~~~~~~l~e~~~rl~~~~~  159 (632)
T PF14817_consen   80 RRRELEKEVERLRAEIQELDKEIESREREVSRQEASREQMLDKISDSRHKQLLLEAYSQQCEEQRRILREYTKRLQGQVE  159 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6678999999999999999999999999999999888888777666555544333       444555555555555555


Q ss_pred             HHHHHHH
Q 019459          119 KLETFKR  125 (340)
Q Consensus       119 KLE~FKk  125 (340)
                      .|+...|
T Consensus       160 ~~q~~~R  166 (632)
T PF14817_consen  160 QLQDIQR  166 (632)
T ss_pred             HHHHHHh
Confidence            5544433

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=80.03  E-value=12  Score=28.81  Aligned_cols=45  Identities=11%  Similarity=0.243  Sum_probs=33.0

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      .+|.+|.+++..|-.++..=...|..|+.-+..+..+-..++.||
T Consensus         3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN~Rl   47 (56)
T PF04728_consen    3 AKIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARANQRL   47 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            367788888888887777777777777777766666666667666

The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	340
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

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

 Score = 42.9 bits (100), Expect = 1e-04
 Identities = 34/240 (14%), Positives = 67/240 (27%), Gaps = 74/240 (30%)

Query: 16  LPDEVLAVIP----------------TDPYDQLDLARKITSMAIASRVSKLETETGTMRQ 59
           LP EVL   P                 D +  ++  +   +  I S ++ LE      R+
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL--TTIIESSLNVLEPA--EYRK 373

Query: 60  M-----LYEKDRLICELEERLSHV--QKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR- 111
           M     ++     I      LS +    +  +    +            E+     T   
Sbjct: 374 MFDRLSVFPPSAHIP--TILLSLIWFDVIKSDVMVVVNKLHK---YSLVEKQPKESTISI 428

Query: 112 -NLSRDLAKLETFKRQLMQSLNDDNSSAETVDIGTCDQPVPRAYPDKDGG---NNGY--- 164
            ++  +L      +  L +S+         VD       +P+ +   D      + Y   
Sbjct: 429 PSIYLELKVKLENEYALHRSI---------VD---HYN-IPKTFDSDDLIPPYLDQYFYS 475

Query: 165 -TAHHSFNGSTDMGNTVDEVSRNTAQRFSLTP-------YITPRLTPTGTPKVISTSVSP 216
              HH       + N          +R +L         ++  ++    T    S S+  
Sbjct: 476 HIGHH-------LKNI------EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN 522

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	340
2ld7_B	75	Paired amphipathic helix protein SIN3A; transcript	98.04
2cr7_A	80	Paired amphipathic helix protein SIN3B; paired amp	97.49
2czy_A	77	Paired amphipathic helix protein SIN3B; SIN3, PAH1	97.19
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	96.89
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	96.54
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	96.23
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	96.08
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	96.03
1g1e_B	89	SIN3A; four-helix bundle, protein-peptide complex,	95.66
1e91_A	85	Paired amphipathic helix protein SIN3B; eukaryotic	95.35
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	95.26
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	95.2
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	95.05
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	94.85
3bas_A	89	Myosin heavy chain, striated muscle/general contro	94.2
2f05_A	105	Paired amphipathic helix protein SIN3B; helix bund	94.09
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	94.06
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	93.84
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	93.48
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	93.36
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	93.25
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	93.2
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	93.05
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	93.05
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	92.82
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	92.81
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	92.74
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	92.62
4fm3_A	98	Uncharacterized hypothetical protein; PF14346 fami	92.47
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	92.26
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	91.64
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	91.45
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.35
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	91.02
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	90.64
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	90.53
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	90.44
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	90.35
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	90.34
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	90.03
1cii_A	602	Colicin IA; bacteriocin, ION channel formation, tr	89.76
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	89.74
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	89.5
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	89.14
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	89.03
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	88.83
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	88.66
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	88.55
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	88.49
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	88.34
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	88.19
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	87.55
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	87.5
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	87.43
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	87.32
4dci_A	150	Uncharacterized protein; PSI-biology, midwest cent	86.65
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	86.65
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	86.64
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	86.6
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	86.4
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	86.36
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	86.26
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	86.11
3etw_A	119	Adhesin A; antiparallel helix-loop-helix, leucine	85.92
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	85.14
2q6q_A	74	Spindle POLE BODY component SPC42; SPC42P, budding	84.91
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	84.01
3k29_A	169	Putative uncharacterized protein; YSCO, type III s	83.91
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	83.3
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	82.23
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	82.22
2qyw_A	102	Vesicle transport through interaction with T-SNAR	82.22
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	82.2
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	80.91
4dyl_A	406	Tyrosine-protein kinase FES/FPS; structural genomi	80.86
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	80.82

>2ld7_B Paired amphipathic helix protein SIN3A; transcription; NMR {Mus musculus}

Probab=98.04  E-value=1.6e-05  Score=62.12  Aligned_cols=67  Identities=22%  Similarity=0.387  Sum_probs=62.2

Q ss_pred             CCCccchHHHHHHHHhcC-CHHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhhcc
Q 019459          270 RTPRIDGKEFFRQARSRL-SYEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNR  337 (340)
Q Consensus       270 r~~rvDGKEFFRQARsRL-SYEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL~R  337 (340)
                      .....|.-.||.+||.|| +-+-|..||--++-+|.+.-+|.|.+..+..+|| .|+||+..|..+|..
T Consensus         5 k~~~~de~~Ff~kVK~~l~~~~~Y~eFLk~lnlf~q~~Id~~eLv~~V~~~lg-~~pdL~~~Fk~Fl~~   72 (75)
T 2ld7_B            5 KHGVGTESLFFDKVRKALRSAEAYENFLRCLVIFNQEVISRAELVQLVSPFLG-KFPELFNWFKNFLGY   72 (75)
T ss_dssp             TTTSSHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHTTCSCHHHHHHHTHHHHT-TCHHHHHHHHHHHTC
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhcCcCHHHHHHHHHHHHc-cCHHHHHHHHHHcCC
Confidence            346679999999999999 7899999999999999999999999999999999 699999999999864

>2cr7_A Paired amphipathic helix protein SIN3B; paired amphipathic helix repeat, transcriptional repressor, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rmr_A 2rms_A

Probab=97.49  E-value=0.00051  Score=53.90  Aligned_cols=65  Identities=22%  Similarity=0.426  Sum_probs=59.6

Q ss_pred             CccchHHHHHHHHhcCC--HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhhcc
Q 019459          272 PRIDGKEFFRQARSRLS--YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNR  337 (340)
Q Consensus       272 ~rvDGKEFFRQARsRLS--YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL~R  337 (340)
                      +--|...|.+++|.|+.  .+-|..||.-+|.+-+++.+..+....+.++|. +|+||...|...|-.
T Consensus         9 ~~~dA~~yl~~VK~rF~~~p~~Y~~FL~im~~fk~~~~~~~~v~~rV~~Lf~-~hpdLi~gFn~FLP~   75 (80)
T 2cr7_A            9 HVEDALTYLDQVKIRFGSDPATYNGFLEIMKEFKSQSIDTPGVIRRVSQLFH-EHPDLIVGFNAFLPS   75 (80)
T ss_dssp             CSCCSHHHHHHHHHHTSSCHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHGG-GCHHHHHHHHHHSSC
T ss_pred             CHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHc-CCHHHHHHHHHHCcC
Confidence            45589999999999997  699999999999999999999999999999998 689999999988743

>2czy_A Paired amphipathic helix protein SIN3B; SIN3, PAH1, transcriptional repressor, gene regulation; NMR {Mus musculus}

Probab=97.19  E-value=0.001  Score=51.75  Aligned_cols=62  Identities=23%  Similarity=0.466  Sum_probs=57.5

Q ss_pred             chHHHHHHHHhcCC--HHHHHHHHHHHHHHhhccccHHHHHHHHHHhhCCCChhHHHHHHHhhcc
Q 019459          275 DGKEFFRQARSRLS--YEQFSAFLASIKELNAQKQTREETLRKAEEIFGTDNKDLYLYFQGLLNR  337 (340)
Q Consensus       275 DGKEFFRQARsRLS--YEQFsaFLANIKELNAhkQTREETL~KA~eIFG~eNkDLY~~FegLL~R  337 (340)
                      |...|.+++|.|+.  .+-|..||.-+|.+-+++.+..+..+.+.++|. +|+||...|...|-.
T Consensus         6 dA~~yl~~VK~~F~~~p~~Y~~FL~im~~~k~~~~~~~~v~~rv~~Lf~-~hpdLi~gFn~FLP~   69 (77)
T 2czy_A            6 DALTYLDQVKIRFGSDPATYNGFLEIMKEFKSQSIDTPGVIRRVSQLFH-EHPDLIVGFNAFLPL   69 (77)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTT-TCHHHHHHHHTTSCS
T ss_pred             HHHHHHHHHHHHHccChHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHc-CCHHHHHHHHHHCCC
Confidence            67899999999996  689999999999999999999999999999999 689999999988754

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

Probab=96.89  E-value=0.027  Score=47.86  Aligned_cols=79  Identities=14%  Similarity=0.090  Sum_probs=44.0

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +|..+|..|+.++..+...+.+-...+..++.++..++..+.+....+..+.++...+..+...+...+..+...+.++
T Consensus         3 ~~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (284)
T 1c1g_A            3 AIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDA   81 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666666666666666666666666666666666655555555555554444444444444444444444333

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

Probab=96.54  E-value=0.054  Score=43.91  Aligned_cols=80  Identities=14%  Similarity=0.121  Sum_probs=65.1

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .+.-|+..+|.++..+.+...+++..|..|+.|+..+|..|..+..+|..+.+....-.+-...--..|..|||-|.=||
T Consensus        20 ~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~RriqllE   99 (101)
T 3u1c_A           20 NALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            35678888999999999999999999999999999999999999999987755444444444444568999999887776

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

Probab=96.23  E-value=0.046  Score=48.07  Aligned_cols=76  Identities=11%  Similarity=0.151  Sum_probs=56.4

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHhhhHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAM-TARNLSRDLAKL  120 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~-TvKKL~RDvaKL  120 (340)
                      -.+..|+.|...|+.++.+.+..+.+-.+-+..+..+++-.+..++.+++...+|.+||+.|.. -+++-++|.++|
T Consensus        68 ~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RWM~rk~qEAe~M  144 (152)
T 3a7p_A           68 NTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARWLKKTEKETEAM  144 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566777777777777777777777777777777777777777788888888889999988875 356666666554

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

Probab=96.08  E-value=0.066  Score=45.86  Aligned_cols=70  Identities=19%  Similarity=0.179  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 019459           38 ITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        38 Its~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      ++++=|+.-.-++..+...|++++.+++..+++|...+.+++.       ++..+..++.+|.+|++.|-..+++|.
T Consensus        61 LaALNiadEl~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~-------k~e~~~~e~~~l~~~~~~l~~~~~~le  130 (138)
T 3hnw_A           61 MMYLNIADDYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQI-------KAESSAKEIKELKSEINKYQKNIVKLE  130 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556677777888888899999999988888888887665544       555656666778888887777777775

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

Probab=96.03  E-value=0.098  Score=42.16  Aligned_cols=80  Identities=11%  Similarity=0.125  Sum_probs=65.4

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      ...-|+..+|.++..+.....+++..|..|+.|+..++..|-.+..+|..+.+....-.+....--..|..|||-+.=||
T Consensus        20 ~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~~~~AE~evasLnRriqllE   99 (101)
T 3u59_A           20 NAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34568888899999999999999999999999999999999999999988765554444445555568999999887665

>1g1e_B SIN3A; four-helix bundle, protein-peptide complex, transcription; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1s5q_B 1s5r_B 2l9s_B

Probab=95.66  E-value=0.025  Score=45.16  Aligned_cols=63  Identities=16%  Similarity=0.361  Sum_probs=53.5

Q ss_pred             CccchHHHHHHHHhcC--CHHHHHHHHHHHHHHhhcccc-------------HHHHHHHHHHhhCCCChhHHHHHHHhh
Q 019459          272 PRIDGKEFFRQARSRL--SYEQFSAFLASIKELNAQKQT-------------REETLRKAEEIFGTDNKDLYLYFQGLL  335 (340)
Q Consensus       272 ~rvDGKEFFRQARsRL--SYEQFsaFLANIKELNAhkQT-------------REETL~KA~eIFG~eNkDLY~~FegLL  335 (340)
                      +--|...|.+.+|+|.  -.|-|.+||.-.+.+-.++.+             .+|....+.++|. +|.||-..|...|
T Consensus         9 ~~~~A~~YvnkVK~rF~~~p~~Y~~FL~IL~~y~~~~~~~~~~~~~~~~~~~~~~V~~~V~~LF~-~h~DLl~~F~~FL   86 (89)
T 1g1e_B            9 EFNHAINYVNKIKNRFQGQPDIYKAFLEILHTYQKEQRNAKEAGGNYTPALTEQEVYAQVARLFK-NQEDLLSEFGQFL   86 (89)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCSCCHHHHHHHHHHHTT-TCHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHhccCccccccccccccccHHHHHHHHHHHHc-cCHHHHHHHHHHC
Confidence            3447899999999999  588999999999988665433             4899999999999 6899999998776

>1e91_A Paired amphipathic helix protein SIN3B; eukaryotic transcriptional regulation, SIN3, PAH domains, protein-protein interactions; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1pd7_A

Probab=95.35  E-value=0.058  Score=42.61  Aligned_cols=62  Identities=18%  Similarity=0.384  Sum_probs=54.8

Q ss_pred             cchHHHHHHHHhcC--CHHHHHHHHHHHHHHhhcc----------ccHHHHHHHHHHhhCCCChhHHHHHHHhhc
Q 019459          274 IDGKEFFRQARSRL--SYEQFSAFLASIKELNAQK----------QTREETLRKAEEIFGTDNKDLYLYFQGLLN  336 (340)
Q Consensus       274 vDGKEFFRQARsRL--SYEQFsaFLANIKELNAhk----------QTREETL~KA~eIFG~eNkDLY~~FegLL~  336 (340)
                      -|...|.+.+|+|+  -.+-|.+||.-++.+=+++          .|..|....+.++|.. |.||...|...|-
T Consensus         8 ~~A~~yv~kVK~rF~~~p~~Y~~FL~il~~yk~~~~d~~~~~~~~~s~~eV~~~V~~Lf~~-hpDLl~~F~~FLP   81 (85)
T 1e91_A            8 NNAISYVNKIKTRFLDHPEIYRSFLEILHTYQKEQLHTKGRPFRGMSEEEVFTEVANLFRG-QEDLLSEFGQFLP   81 (85)
T ss_dssp             HHHHHHHHHHHHHTSSCHHHHHHHHHHHHHHHHTTCSSSCCCSSCCCHHHHHHHHHHHTSS-CHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHccccccccccccCcHHHHHHHHHHHHcc-CHHHHHHHHHHCc
Confidence            36789999999999  5699999999999998877          4789999999999986 7899999988774

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

Probab=95.26  E-value=0.16  Score=55.67  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           98 KLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        98 kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .|.+||..|-.++-.|+.++.+.+
T Consensus      1027 ~L~~e~~~L~qq~~~l~~~~~~~~ 1050 (1080)
T 2dfs_A         1027 ELKEQNTLLKTEKEELNRRIHDQA 1050 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555555555555554

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

Probab=95.20  E-value=0.023  Score=62.20  Aligned_cols=74  Identities=18%  Similarity=0.243  Sum_probs=25.9

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      ..+||.++..|..+|.++.+...+|++++..++..+++--+.|...+++.+++.+|+..+.+.|+.|..++++|
T Consensus       923 ~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l  996 (1080)
T 2dfs_A          923 HIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKL  996 (1080)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677777777777777766666666666666665555555555555555555555555555555555555444

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

Probab=95.05  E-value=0.13  Score=40.67  Aligned_cols=73  Identities=21%  Similarity=0.240  Sum_probs=48.2

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +.||+|...+-++|.+-.....+|++||..|+..|.++..+=.++..|-.+|.+--|.=+.-+--|.+-++||
T Consensus         2 ~~l~~e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l~e~Ld~KI~eL~elRqgLakL   74 (79)
T 3cvf_A            2 SHMAAEREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRAAQLLDVSLFELSELREGLARL   74 (79)
T ss_dssp             --------CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHh
Confidence            3588898999999999999999999999999998888887776655555555555555555555555555554

>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=94.85  E-value=0.54  Score=39.27  Aligned_cols=62  Identities=21%  Similarity=0.254  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           61 LYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        61 laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      +++.+.....|..+-..|+..|.++..|+..-.+.|..|..++..|-..+..|..|+.-||.
T Consensus        64 l~e~EE~~~~L~~~k~eLe~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led~e~  125 (129)
T 2fxo_A           64 LADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDLEL  125 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555556666666677788888888888888888888888888888888888888877763

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=94.20  E-value=0.73  Score=36.41  Aligned_cols=72  Identities=17%  Similarity=0.176  Sum_probs=63.7

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDL  117 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv  117 (340)
                      -+..++.|+..|+..+..-.....+|+.++..|.....+....|.-|.+...+|.+.+.-|-..++.|+-.|
T Consensus        15 Em~~~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~ql~eaEe~~~~L~~~K~eLE~~l~el~~rl   86 (89)
T 3bas_A           15 EMKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLV   86 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            355789999999999999999999999999999998888888888889999999999999999999887655

>2f05_A Paired amphipathic helix protein SIN3B; helix bundle, transcription repressor; NMR {Mus musculus} SCOP: a.59.1.1

Probab=94.09  E-value=0.15  Score=41.96  Aligned_cols=63  Identities=17%  Similarity=0.377  Sum_probs=54.3

Q ss_pred             cchHHHHHHHHhcC--CHHHHHHHHHHHHHHhhccc----------cHHHHHHHHHHhhCCCChhHHHHHHHhhcc
Q 019459          274 IDGKEFFRQARSRL--SYEQFSAFLASIKELNAQKQ----------TREETLRKAEEIFGTDNKDLYLYFQGLLNR  337 (340)
Q Consensus       274 vDGKEFFRQARsRL--SYEQFsaFLANIKELNAhkQ----------TREETL~KA~eIFG~eNkDLY~~FegLL~R  337 (340)
                      -|...|.+.+|+|.  -++-|..||.-.+.+=+++.          |-.|....+.++|.. |.||...|...|-.
T Consensus         8 ~dA~~YvnkVK~rF~d~p~vY~~FL~IL~~yk~~~~d~~g~~~~~~s~~eV~~~V~~LF~~-hpDLl~eFn~FLP~   82 (105)
T 2f05_A            8 NNAISYVNKIKTRFLDHPEIYRSFLEILHTYQKEQLHTKGRPFRGMSEEEVFTEVANLFRG-QEDLLSEFGQFLPE   82 (105)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSSSSSSSSCCCCHHHHHHHHHHHTTT-CHHHHHHHHHHSCG
T ss_pred             HHHHHHHHHHHHHHccChHHHHHHHHHHHHHHhccccccccccccCcHHHHHHHHHHHHcc-CHHHHHHHHHHCCC
Confidence            36789999999999  56999999999999977763          568999999999986 78999999887743

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

Probab=94.06  E-value=0.31  Score=42.86  Aligned_cols=61  Identities=13%  Similarity=0.143  Sum_probs=49.9

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAK  101 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~  101 (340)
                      ..+.+-...|+.++..|...+.+|...+..|++-+..|.-++..+.+++....+||.+|.+
T Consensus        71 ~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~  131 (152)
T 3a7p_A           71 AILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVA  131 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556677788888888888888888888888888888888888888888888888877764

>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=93.84  E-value=0.85  Score=39.39  Aligned_cols=76  Identities=13%  Similarity=0.193  Sum_probs=71.9

Q ss_pred             HHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 019459           40 SMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSR  115 (340)
Q Consensus        40 s~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~R  115 (340)
                      +++.--|+..||.++...+....+.|+...+...|+.-++..|..+..|+..+......|..|-+.+.+.+|.|.-
T Consensus        47 ~~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~dLeraeeRae~aE~k~~eLEeeL~~~~~nlKsLE~  122 (147)
T 2b9c_A           47 AQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLED  122 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            5677789999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=93.48  E-value=0.6  Score=39.91  Aligned_cols=63  Identities=17%  Similarity=0.182  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           60 MLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        60 ~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      .+.+..+.+..|+..+..++.++.+....|..+..+...+.+|+..|-.-+..|.+.+.|||+
T Consensus        69 El~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~  131 (138)
T 3hnw_A           69 DYFKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLET  131 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556667788888888888888999999999999999999999999999999999999985

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=93.36  E-value=0.58  Score=39.40  Aligned_cols=61  Identities=23%  Similarity=0.269  Sum_probs=49.0

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSL  106 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sL  106 (340)
                      +..-|..|=.|+..|   ..|-.+.|.+|+.||+.||.+|.+...-...|++|+..|-.|...|
T Consensus        20 Lkreie~lk~ele~l---~~E~q~~v~ql~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~l   80 (120)
T 3i00_A           20 LYREISGLKAQLENM---KTESQRVVLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDEL   80 (120)
T ss_dssp             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555   5688999999999999999999999988888999999998877754

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=93.25  E-value=2.2  Score=37.40  Aligned_cols=83  Identities=16%  Similarity=0.136  Sum_probs=64.9

Q ss_pred             HHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           39 TSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        39 ts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      ...-+.-|...+|.+|..|..+|.|-+.-...-+..|..|+..+.+...+|....+.+..+..|-+...+.+.-+.-++-
T Consensus        64 seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el~~~~~~~~  143 (155)
T 2efr_A           64 QAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNY  143 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchH
Confidence            34456678899999999999999999988888889999999999999999988888888888887765555554444444


Q ss_pred             HHH
Q 019459          119 KLE  121 (340)
Q Consensus       119 KLE  121 (340)
                      .|+
T Consensus       144 ~~~  146 (155)
T 2efr_A          144 HLE  146 (155)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            343

>4emc_A Monopolin complex subunit CSM1; RWD domain, kinetochore-binding, kinetoch replication-replication complex; 3.05A {Saccharomyces cerevisiae} PDB: 3n7n_A 3n4x_A

Probab=93.20  E-value=0.25  Score=44.84  Aligned_cols=43  Identities=19%  Similarity=0.240  Sum_probs=38.2

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      |++|-+|...|+++|..|+..|..|++++.+++.........+
T Consensus        22 V~~L~~En~~L~~ql~~k~~ei~~L~~ql~sl~~~~~~~~~~~   64 (190)
T 4emc_A           22 VANLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVKELKTQT   64 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHH
Confidence            6789999999999999999999999999999998886555555

>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=93.05  E-value=0.43  Score=47.08  Aligned_cols=69  Identities=16%  Similarity=0.176  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH-------HHHHHHhhhHHHHHHHHHHHHhhcccc
Q 019459           66 RLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLA-------MTARNLSRDLAKLETFKRQLMQSLNDD  134 (340)
Q Consensus        66 ~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa-------~TvKKL~RDvaKLE~FKk~LmqSLqeD  134 (340)
                      +.+..++++...++..++........-.++..+|.+|+..|-       ..++.|.++++++..=.|+|++-+++.
T Consensus       509 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~~~~  584 (597)
T 3oja_B          509 KVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKNRN  584 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            344455555555555555554444433344444445554444       466777777777766666677655543

>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=93.05  E-value=2  Score=35.85  Aligned_cols=74  Identities=18%  Similarity=0.237  Sum_probs=39.1

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHV-------QKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~l-------e~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      |..++.++..|+.+|..-.....+|+.+...|       ..+|+.-...|.-+.+-..+|...+..|-..++-|..++..
T Consensus        15 ~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~rlee   94 (129)
T 2fxo_A           15 MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLED   94 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33566666666666654444444444433333       33333344444555555556666666666666666655554


Q ss_pred             H
Q 019459          120 L  120 (340)
Q Consensus       120 L  120 (340)
                      .
T Consensus        95 e   95 (129)
T 2fxo_A           95 E   95 (129)
T ss_dssp             H
T ss_pred             H
Confidence            3

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

Probab=92.82  E-value=1.7  Score=39.64  Aligned_cols=51  Identities=10%  Similarity=0.159  Sum_probs=36.0

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID   94 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d   94 (340)
                      -..|..||.++..|+..+......+.+++..+..++..+.+..+|+....+
T Consensus        31 p~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~   81 (256)
T 3na7_A           31 RKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQK   81 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466777777777777777777777777777777777777777766655443

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

Probab=92.81  E-value=1.1  Score=37.56  Aligned_cols=35  Identities=20%  Similarity=0.335  Sum_probs=27.9

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q 019459           87 SKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLE  121 (340)
Q Consensus        87 ~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE  121 (340)
                      .....=..+-+||+.|+..|...+..|+|.+.+|+
T Consensus        76 ~DF~aERadREkl~~eKe~L~~ql~~Lq~q~~~l~  110 (110)
T 2v4h_A           76 ADFQAERHAREKLVEKKEYLQEQLEQLQREFNKLK  110 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHccchhhHHHHHhHHHHHHHHHHHHHHHHHhcC
Confidence            33334445668999999999999999999998873

>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=92.74  E-value=0.83  Score=50.13  Aligned_cols=77  Identities=13%  Similarity=0.170  Sum_probs=46.7

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH-------HHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFID-------DNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~d-------e~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      ++..|+.|+..|+.+|..-+..+.+|++++..|+.++.++...|....+       +...|..++..|...++.|..+++
T Consensus       858 El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~~e~~~l~~~e~~l~~l~~~~~~Le~~l~ele~ele  937 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIE  937 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445667777777777777777777777777777666666655554444       445555555555555555555554


Q ss_pred             HHHH
Q 019459          119 KLET  122 (340)
Q Consensus       119 KLE~  122 (340)
                      .++.
T Consensus       938 e~ee  941 (1184)
T 1i84_S          938 EEEE  941 (1184)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=92.62  E-value=2.2  Score=42.00  Aligned_cols=46  Identities=15%  Similarity=0.264  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           77 HVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        77 ~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      .++...+...++....+.++.++.++-+.+....++|.+++.+||.
T Consensus       506 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~  551 (597)
T 3oja_B          506 NLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEK  551 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHH
Confidence            3344444444444444445555554444444444544455554443

>4fm3_A Uncharacterized hypothetical protein; PF14346 family protein, DUF4398, structural genomics, joint for structural genomics, JCSG; HET: PG4; 2.47A {Pseudomonas aeruginosa}

Probab=92.47  E-value=1.3  Score=36.21  Aligned_cols=89  Identities=13%  Similarity=0.080  Sum_probs=61.8

Q ss_pred             chhhhHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 019459           28 PYDQLDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLA  107 (340)
Q Consensus        28 PyEQLdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa  107 (340)
                      |-|||.++..-+..|....++....|...-|.+|.+-...+.+=.=+....-.+-.+.++||..|.-...|=.+..+.|-
T Consensus         5 P~eql~~te~Ai~~A~~aga~~~apEl~~A~dKl~~A~~Am~~~~y~~Ar~lAEqAe~DArLAeAka~~~Ka~~~~~el~   84 (98)
T 4fm3_A            5 PLEQMRLTEQALEQAKAVGATDDVAELKLAQDKYAAAQIAMTAESYKKARLLAEQAELDARLAESKVLTQKSKDQLGELD   84 (98)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCCTTSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCcccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            79999999999999999999999888888888887766555443333333333444556666666656666666666666


Q ss_pred             HHHHHHhhh
Q 019459          108 MTARNLSRD  116 (340)
Q Consensus       108 ~TvKKL~RD  116 (340)
                      ..|..|...
T Consensus        85 ~~I~~LrqE   93 (98)
T 4fm3_A           85 KSLKRLRKQ   93 (98)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555444

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=92.26  E-value=2.1  Score=38.62  Aligned_cols=73  Identities=22%  Similarity=0.251  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------hHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 019459           61 LYEKDRLICELEERLSHVQKVYQEADSKLKI-----------FIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQ  129 (340)
Q Consensus        61 laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~-----------a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~Lmq  129 (340)
                      |..-+..+.+|+.++..|...+.....|+..           ..+|...|.+++..|...+++|--.-+-||.=.|.+.-
T Consensus        51 L~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~  130 (189)
T 2v71_A           51 LVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIM  130 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHh
Confidence            3333444444444444444444444433333           34445555666666666666666666666666666666


Q ss_pred             hccc
Q 019459          130 SLND  133 (340)
Q Consensus       130 SLqe  133 (340)
                      ||.|
T Consensus       131 SleD  134 (189)
T 2v71_A          131 SLED  134 (189)
T ss_dssp             HHHH
T ss_pred             hHHH
Confidence            6543

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

Probab=91.64  E-value=2.5  Score=38.47  Aligned_cols=57  Identities=14%  Similarity=0.173  Sum_probs=29.2

Q ss_pred             hHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           32 LDLARKITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLK   90 (340)
Q Consensus        32 LdlArkIts~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~   90 (340)
                      =+|-..|.  .+..|++.||.++..+-.++.++...+.++++++..++..|.+..+.+.
T Consensus        93 ~aL~kEie--~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~  149 (256)
T 3na7_A           93 RSLNIEED--IAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVE  149 (256)
T ss_dssp             HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444  2335555555555555555555555555555555555555544444433

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=91.45  E-value=1.1  Score=35.13  Aligned_cols=61  Identities=16%  Similarity=0.158  Sum_probs=43.6

Q ss_pred             HhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           46 RVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        46 RVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      --+.|+.-+..||..|.+||..|..|++.+.       --+.-....-||..-|.=||+-|-.-..+|
T Consensus        12 ~~~~~~~~l~~Lr~eL~~Ke~eI~~L~e~i~-------lk~kd~ErLNDEiislNIENNlL~~rl~~l   72 (75)
T 3a7o_A           12 HDDALLNTLAILQKELKSKEQEIRRLKEVIA-------LKNKNTERLNDELISGTIENNVLQQKLSDL   72 (75)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhcccHHHhhHHHHHhHHHHHHHHHHHHHH
Confidence            3445666789999999999999999999876       333334444567777888888887655444

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=91.35  E-value=3.6  Score=34.31  Aligned_cols=74  Identities=22%  Similarity=0.341  Sum_probs=42.7

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      +..++.+|+.|+..+|.|+..-                 ..+++...+...+|..+|..+|+.|..-+++|-..-+-||.
T Consensus         8 L~~~~~~L~~E~e~~k~K~~~~-----------------~~e~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER   70 (111)
T 2v66_B            8 LQADNQRLKYEVEALKEKLEHQ-----------------YAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLER   70 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHH
Confidence            4556666677766666655443                 23444444444555555666666666666666666666666


Q ss_pred             HHHHHHhhccc
Q 019459          123 FKRQLMQSLND  133 (340)
Q Consensus       123 FKk~LmqSLqe  133 (340)
                      =.|...-||.|
T Consensus        71 ~~R~t~~SLeD   81 (111)
T 2v66_B           71 AKRATIVSLED   81 (111)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHhhHHH
Confidence            66666555543

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

Probab=91.02  E-value=1.3  Score=53.88  Aligned_cols=87  Identities=20%  Similarity=0.301  Sum_probs=63.7

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHhHHHHHHHHHHHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQE--------------ADSKLKIFIDDNAKLAKERDSLAMTA  110 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e--------------~~~rl~~a~de~~kL~~E~~sLa~Tv  110 (340)
                      .++..+|.+....+++|.++...+.+|++++..|+.++.+              +..||.+|..=...|..|+..=..++
T Consensus      2014 ~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek~RW~~~~ 2093 (3245)
T 3vkg_A         2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQQS 2093 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccHHHHH
Confidence            4667777777777788888888777777777776666554              45566666666677888998888888


Q ss_pred             HHHhhhHHHH------------------HHHHHHHHhhc
Q 019459          111 RNLSRDLAKL------------------ETFKRQLMQSL  131 (340)
Q Consensus       111 KKL~RDvaKL------------------E~FKk~LmqSL  131 (340)
                      +.|......|                  +.||+.||+..
T Consensus      2094 ~~l~~~~~~L~GD~LLaaafisY~G~f~~~~R~~l~~~W 2132 (3245)
T 3vkg_A         2094 ENFNTQMSTVVGDVVLASAFLAYIGFFDQNFRTDLMRKW 2132 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTGGGSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            8888777765                  45777777654

>3cve_A Homer protein homolog 1; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, postsynaptic cell membrane, synapse; 1.75A {Rattus norvegicus}

Probab=90.64  E-value=3.6  Score=32.00  Aligned_cols=64  Identities=23%  Similarity=0.241  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           57 MRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        57 LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +-++|.+-.....+|++||..|+..|.++..+=.+...|-.+|.+--|.=+.-+.-|.+-++||
T Consensus         5 ~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~~e~Ld~KI~eL~elrq~LakL   68 (72)
T 3cve_A            5 SHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTLLEILDGKIFELTELRDNLAKL   68 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHh
Confidence            3455666666677788888877777777766655544454444444444444444455555543

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=90.53  E-value=0.19  Score=47.30  Aligned_cols=69  Identities=13%  Similarity=0.203  Sum_probs=21.2

Q ss_pred             HHHhhhhHhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEK---DRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKL  120 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEK---d~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKL  120 (340)
                      +..|..|+.|+..||.+|.+-   .+.... ++|+..|+.++....+|.       ++|..+.+.|-..+.+|..+|++|
T Consensus        23 ~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~-~~~l~eL~~ql~~L~arN-------e~L~~~Lk~ar~El~~LkeElerL   94 (251)
T 3m9b_A           23 AAELEQLRREAAVLREQLENAVGSHAPTRS-ARDIHQLEARIDSLAARN-------SKLMETLKEARQQLLALREEVDRL   94 (251)
T ss_dssp             -----------------------------C-CHHHHHHHHHHHHHTTTH-------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhhhcccCcccchh-hhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            666777888888888888654   333333 445554444444333333       345555555555555555555554

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=90.44  E-value=0.57  Score=40.93  Aligned_cols=50  Identities=22%  Similarity=0.271  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 019459           78 VQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQL  127 (340)
Q Consensus        78 le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~L  127 (340)
                      ++..|+...+.+.....|..||..|+.-+-+.-+.|.||+.-...-||+|
T Consensus        85 ~ea~la~l~~~~~~LeAE~aKLeEekQIseASRqgLrRDLeASReAKKql  134 (146)
T 2xnx_M           85 AKLELDQLSSEKEQLTIEKAKLEEEKQISDASRQSLRRDLDASREAKKQV  134 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHGGGTTTC---------------------
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444556666676666666666677777777766666655

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

Probab=90.35  E-value=5.5  Score=32.99  Aligned_cols=40  Identities=15%  Similarity=0.269  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           52 TETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKI   91 (340)
Q Consensus        52 ~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~   91 (340)
                      .|+..||..+..-...|..|+.+...||.+|.++..+...
T Consensus        36 ~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~   75 (129)
T 3tnu_B           36 HEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGEL   75 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            4444555555544455555555555555555555544443

>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=90.34  E-value=1.8  Score=33.44  Aligned_cols=48  Identities=13%  Similarity=0.178  Sum_probs=26.6

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKI   91 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~   91 (340)
                      ..|+..+|.++......+...+..|..|+.|+..||..|..+..+|..
T Consensus        19 ~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~   66 (81)
T 1ic2_A           19 LDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKD   66 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555555555555555555555544

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=90.03  E-value=4.9  Score=32.04  Aligned_cols=69  Identities=22%  Similarity=0.278  Sum_probs=43.3

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLS-HVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~-~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      .|--||-.||.+-..|-.++.+-...  . ..++. -.|..+.+....+..+.-|+.+|.-|.++|...+..+
T Consensus        20 syIdKVR~LEqqN~~Le~~i~~l~~~--~-~~~~~~~ye~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~   89 (93)
T 3s4r_A           20 NLIDKVRFLEQQNKILLAELEQLKGQ--G-KSRLGDLYEEEMRELRRQVDQLTNDKARVEVERDNLAEDIMRL   89 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--H-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhc--c-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46679999999988887766433211  0 11122 2467777777777776666666666666666555444

>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1

Probab=89.76  E-value=2.1  Score=43.86  Aligned_cols=67  Identities=18%  Similarity=0.223  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           52 TETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        52 ~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      +|-.+|||.+.++...|..++.-++++...+...+.+..+|.+....+.+|+..+-+.+-.++.+++
T Consensus       349 ae~~~lrQRlddArNEItsaeSaInslqaqvSa~t~e~k~A~d~l~a~~kek~~~~n~~a~~~~KiA  415 (602)
T 1cii_A          349 AEWDKLRQRLLDARNKITSAESAVNSARNNLSARTNEQKHANDALNALLKEKENIRNQLSGINQKIA  415 (602)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            5678899999999999999999999999999999999999999999999999999777766666544

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

Probab=89.74  E-value=4.8  Score=31.96  Aligned_cols=68  Identities=18%  Similarity=0.176  Sum_probs=50.1

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLS  114 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~  114 (340)
                      ..+||+-|..+=..++-=.-.|.+|.++-..|..+.+++...-..-.+||.+|..|..+-..-+.+|-
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LL   75 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALL   75 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667666666666666666777888888888888888777777777788888888887777666664

>2xdj_A Uncharacterized protein YBGF; unknown function; 1.82A {Escherichia coli} PDB: 2wz7_A

Probab=89.50  E-value=1.9  Score=34.15  Aligned_cols=47  Identities=19%  Similarity=0.329  Sum_probs=21.1

Q ss_pred             HHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           43 IASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        43 ~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      +..||.+||.-....++.+.+--..|.+|+..|..|-..+.+..-.|
T Consensus         4 ~e~rv~~LEr~~~~~~q~~~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l   50 (83)
T 2xdj_A            4 VEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQL   50 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            35567777664444444444444444444444443333333333333

>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=89.14  E-value=1.2  Score=34.69  Aligned_cols=37  Identities=27%  Similarity=0.304  Sum_probs=16.7

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQ   83 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~   83 (340)
                      |-.|+..+.+-..+|.+||..|.+|++++...|..++
T Consensus        21 i~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~   57 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQRDALIDELELELDQKDELIQ   57 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444333

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=89.03  E-value=5.5  Score=31.53  Aligned_cols=38  Identities=24%  Similarity=0.343  Sum_probs=18.9

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEA   85 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~   85 (340)
                      ..++.+...++.+|.+-...+.+++.++..++..+...
T Consensus         6 ~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A            6 EELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444555555554455555555555555554443

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

Probab=88.83  E-value=0.59  Score=30.97  Aligned_cols=30  Identities=30%  Similarity=0.567  Sum_probs=23.1

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQ   83 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~   83 (340)
                      ||+||.|++.|-.       .+.+||+|+..||...|
T Consensus         1 isrlee~~r~l~~-------ivq~lq~r~drle~tvq   30 (32)
T 2akf_A            1 VSRLEEDVRNLNA-------IVQKLQERLDRLEETVQ   30 (32)
T ss_dssp             CCHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHH-------HHHHHHHHHHHHHHHHh
Confidence            5788988888754       56678999988887654

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

Probab=88.66  E-value=5.5  Score=33.10  Aligned_cols=14  Identities=21%  Similarity=0.221  Sum_probs=6.7

Q ss_pred             HhhhhHhHHHHHHH
Q 019459           46 RVSKLETETGTMRQ   59 (340)
Q Consensus        46 RVs~LE~E~~~LR~   59 (340)
                      .|+.|+.|+..|+.
T Consensus        46 ~iq~L~~el~~l~~   59 (131)
T 3tnu_A           46 TMQNLEIELQSQLS   59 (131)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            44455555544443

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

Probab=88.55  E-value=0.92  Score=39.11  Aligned_cols=50  Identities=16%  Similarity=0.254  Sum_probs=32.2

Q ss_pred             CCchhhhHHHHHHHHHHHHHHhhhhHh---HHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           26 TDPYDQLDLARKITSMAIASRVSKLET---ETGTMRQMLYEKDRLICELEERLS   76 (340)
Q Consensus        26 ~DPyEQLdlArkIts~A~atRVs~LE~---E~~~LR~~laEKd~~i~~Lq~r~~   76 (340)
                      +|=-++|.++|++.+. ...||..||.   +...|...+...+..+..|+.++.
T Consensus         4 s~LEd~L~~~r~~l~~-~~~~~~~le~l~~~l~~l~~~l~~~~~e~~~L~~~l~   56 (135)
T 2e7s_A            4 GSLEEQLNKSLKTIAS-QKAAIENYNQLKEDYNTLKRELSDRDDEVKRLREDIA   56 (135)
T ss_dssp             --CCSTTTHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHTTTHHHHHHTHHHHHH
T ss_pred             chHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3456789999997654 4788888887   455555555556666666666443

>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=7.1  Score=30.02  Aligned_cols=58  Identities=19%  Similarity=0.123  Sum_probs=37.7

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKL   99 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL   99 (340)
                      ||..++..|+.|......++.+-...+.+.+.+...+|..+....-|+...++|..+.
T Consensus         3 ~ikkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~   60 (81)
T 1ic2_A            3 AIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKY   60 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            5677777777777766666666666666666666666666666666666654444443

>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1

Probab=88.34  E-value=2.4  Score=34.78  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=13.0

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHH
Q 019459           91 IFIDDNAKLAKERDSLAMTARNL  113 (340)
Q Consensus        91 ~a~de~~kL~~E~~sLa~TvKKL  113 (340)
                      ++.++.++|+.|...|-..|++|
T Consensus        72 ~~~~~~e~Lq~E~erLr~~v~~l   94 (100)
T 1go4_E           72 RLREDHSQLQAECERLRGLLRAM   94 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666655555544

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

Probab=88.19  E-value=7.7  Score=34.49  Aligned_cols=59  Identities=10%  Similarity=0.199  Sum_probs=41.5

Q ss_pred             hhHhHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 019459           49 KLETETGTMRQMLYE-------KDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLA  107 (340)
Q Consensus        49 ~LE~E~~~LR~~laE-------Kd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa  107 (340)
                      .||.|+..|..+|.+       ....|.+|+.|+..|+..|.....++..+..|+.+|++.-..|-
T Consensus        66 ~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lE  131 (168)
T 3o0z_A           66 QTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSE  131 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555543       34678899999999999999999999887777777665444443

>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A

Probab=87.55  E-value=2.3  Score=35.10  Aligned_cols=51  Identities=24%  Similarity=0.316  Sum_probs=32.8

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDS  105 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~s  105 (340)
                      |-+-.|+++||.|..+||..-.+=+..|.+|+..|.              +...||..|..||..
T Consensus        40 l~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe~eve--------------rL~~ENq~L~~e~~~   90 (104)
T 3s9g_A           40 LELEKSLSRMEDENNRLRLESKRLDARVRELELELD--------------RLRAENLQLLTENEL   90 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHH--------------HHHHHHHHHHHHHHh
Confidence            345678999999999999885555455555554444              323356666666543

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

Probab=87.50  E-value=8.5  Score=29.85  Aligned_cols=62  Identities=13%  Similarity=0.206  Sum_probs=41.5

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSL  106 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sL  106 (340)
                      ++.+....||..++.+.+..   ...+.+++.++..+|.+|+++.+.+.+-+.|-..|.+=|-.|
T Consensus         5 ~l~~~~~sLE~~l~e~e~~~---~~~~~~~q~~i~~lE~eL~~~r~e~~~q~~EYq~LlnvK~~L   66 (84)
T 1gk4_A            5 ALKGTNESLERQMREMEENF---AVEAANYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMAL   66 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34455666777666666555   345678899999999999998888877555554444444333

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=87.43  E-value=3.3  Score=35.10  Aligned_cols=54  Identities=11%  Similarity=0.129  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 019459           54 TGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTA  110 (340)
Q Consensus        54 ~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~Tv  110 (340)
                      +-.|+..|.++....   +++|..|+.++...+++|.-+..|-+.|-+++..|..-+
T Consensus        55 V~tL~~SL~~ekaq~---q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~  108 (121)
T 3mq7_A           55 VMALMASLDAEKAQG---QKKVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRI  108 (121)
T ss_dssp             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHh
Confidence            345666666655544   666666777777777777777777777777777665433

>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA complex, transcription/DNA complex; HET: DNA; 2.00A {Schizosaccharomyces pombe} SCOP: h.1.3.1

Probab=87.32  E-value=0.98  Score=34.79  Aligned_cols=44  Identities=20%  Similarity=0.294  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 019459           62 YEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAK  119 (340)
Q Consensus        62 aEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaK  119 (340)
                      .-|+.+|.+|+.+|..|+.....              |..||..|-..|..|.-.+..
T Consensus        25 eRK~~~i~~LE~~v~~le~~~~~--------------l~~en~~Lr~~i~~L~~El~~   68 (70)
T 1gd2_E           25 KRKEDHLKALETQVVTLKELHSS--------------TTLENDQLRQKVRQLEEELRI   68 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHH
Confidence            45788999999999888764443              556666666666666655443

>4dci_A Uncharacterized protein; PSI-biology, midwest center for structural genomics, MCSG, S genomics, unknown function; 2.82A {Synechococcus SP}

Probab=86.65  E-value=4.5  Score=35.28  Aligned_cols=69  Identities=14%  Similarity=0.264  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH------HHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcc
Q 019459           64 KDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLA------KERDSLAMTARNLSRDLAKLETFKRQLMQSLN  132 (340)
Q Consensus        64 Kd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~------~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLq  132 (340)
                      |+++..+|++++..+|.+|++..-.+++++.|+.+-.      .-...+.+--...+...++++..|+.|.+-|+
T Consensus        27 Ke~l~~~l~~~i~q~d~elqQLefq~kr~~~e~~~q~~~~~~p~~~~qi~~iq~q~~~ek~~r~e~k~~l~~ql~  101 (150)
T 4dci_A           27 KEEAEREISNGIANADQQLAQLEQEGQTVVDQVRRQSANPLDPRVQEQVANIQQQVAGKRSELEEQKRNLLQQQA  101 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7888999999999999999999999999998887622      11122333335667778888888988887774

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=86.65  E-value=16  Score=32.01  Aligned_cols=29  Identities=10%  Similarity=0.114  Sum_probs=16.0

Q ss_pred             hhhhHHHHHHHHHHHHHHhhhhHhHHHHHH
Q 019459           29 YDQLDLARKITSMAIASRVSKLETETGTMR   58 (340)
Q Consensus        29 yEQLdlArkIts~A~atRVs~LE~E~~~LR   58 (340)
                      .+.|-.+|+... ....|+..||.+-..++
T Consensus        19 eD~L~~~R~el~-~~~~ri~~lE~~r~~~~   47 (154)
T 2ocy_A           19 EEQLNKSLKTIA-SQKAAIENYNQLKEDYN   47 (154)
T ss_dssp             HHHHHHHHHHHH-HHHHHHHTTHHHHHHHH
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            455666666654 33556666665444333

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=86.60  E-value=6.2  Score=35.56  Aligned_cols=67  Identities=15%  Similarity=0.259  Sum_probs=28.0

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRL----ICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTA  110 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~----i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~Tv  110 (340)
                      .+++.+|..|+..+|.++..=...    |..|++.+..|.........+|+-.+..|-.|-.....+..++
T Consensus        62 ~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~Sl  132 (189)
T 2v71_A           62 QADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSL  132 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhH
Confidence            334444444444444444333222    4444444444444444444444444444444444433333333

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

Probab=86.40  E-value=13  Score=30.89  Aligned_cols=80  Identities=9%  Similarity=0.120  Sum_probs=46.8

Q ss_pred             hhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH----HHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 019459           48 SKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDN----AKLAKERDSLAMTARNLSRDLAKLETF  123 (340)
Q Consensus        48 s~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~----~kL~~E~~sLa~TvKKL~RDvaKLE~F  123 (340)
                      ..-..|+..||..+..-...|..|+.+...||.+|.++..+....+++-    ..|-.|-..+-..+-...++...|=..
T Consensus        34 ~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r~em~~ql~EYq~Ll~v  113 (131)
T 3tnu_A           34 QSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEEQLAQLRCEMEQQNQEYKILLDV  113 (131)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445677788888888888888888888888888888888776655432    233334444444444455555555555


Q ss_pred             HHHH
Q 019459          124 KRQL  127 (340)
Q Consensus       124 Kk~L  127 (340)
                      |-.|
T Consensus       114 Kl~L  117 (131)
T 3tnu_A          114 KTRL  117 (131)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>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=86.36  E-value=2.6  Score=32.85  Aligned_cols=38  Identities=11%  Similarity=0.161  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           54 TGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKI   91 (340)
Q Consensus        54 ~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~   91 (340)
                      +..|...|.+|++.|...++++..||..|++-++-+..
T Consensus        21 i~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~   58 (72)
T 3nmd_A           21 LRDLQYALQEKIEELRQRDALIDELELELDQKDELIQM   58 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67889999999999999999999888877776665543

>2oqq_A Transcription factor HY5; homodimer leucine zipper; 2.00A {Arabidopsis thaliana}

Probab=86.26  E-value=2.4  Score=30.03  Aligned_cols=36  Identities=25%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 019459           69 CELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTAR  111 (340)
Q Consensus        69 ~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvK  111 (340)
                      .+|+.|+..||.-..|...|++.       |+.||.-|-+-+|
T Consensus         6 ~eLE~r~k~le~~naeLEervst-------Lq~EN~mLRqvl~   41 (42)
T 2oqq_A            6 SELENRVKDLENKNSELEERLST-------LQNENQMLRHILK   41 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHhHHHHHHHhc
Confidence            34555555555555555556655       6666666655443

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

Probab=86.11  E-value=13  Score=30.64  Aligned_cols=55  Identities=11%  Similarity=0.295  Sum_probs=32.9

Q ss_pred             HHHHHhhhhHhHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHhHHHH
Q 019459           42 AIASRVSKLETETGTMRQMLYEKDRLICEL-----------EERLSHVQKVYQEADSKLKIFIDDN   96 (340)
Q Consensus        42 A~atRVs~LE~E~~~LR~~laEKd~~i~~L-----------q~r~~~le~~L~e~~~rl~~a~de~   96 (340)
                      -+-..|+.|+.|+..|+.+-+-=...|.++           +.++..||.+|+++.+.+.+-+.|-
T Consensus        40 elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r~e~~~ql~EY  105 (129)
T 3tnu_B           40 EMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEEALQKAKQDMARLLREY  105 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            345678888888888877655555555444           4445555555555555555433333

>3etw_A Adhesin A; antiparallel helix-loop-helix, leucine chain, cell adhesin, cell adhesion; 2.00A {Fusobacterium nucleatum} PDB: 3ety_A 3etx_A 3etz_A 2gl2_A

Probab=85.92  E-value=15  Score=30.99  Aligned_cols=85  Identities=11%  Similarity=0.183  Sum_probs=52.5

Q ss_pred             HHHHHHHhhhhHhHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH-------------HHHHHH
Q 019459           40 SMAIASRVSKLETETGTMRQMLYE----KDRLICELEERLSHVQKVYQEADSKLKIFIDDN-------------AKLAKE  102 (340)
Q Consensus        40 s~A~atRVs~LE~E~~~LR~~laE----Kd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~-------------~kL~~E  102 (340)
                      ...|-++...||.|...|.++=.+    .......-+.++...........+|+..+...-             .++.+.
T Consensus         4 a~~i~~~l~~Leae~q~L~~~E~qry~~eka~AE~A~~~La~~~~l~~~i~er~~~i~~~~~~~~yk~~y~~l~k~Y~~~   83 (119)
T 3etw_A            4 AASLVGELQALDAEYQNLANQEEARFNEERAQADAARQALAQNEQVYNELSQRAQRLQAEANTRFYKSQYQELASKYEDA   83 (119)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHH
Confidence            356788999999999988764332    233333336667777777777777776655432             345555


Q ss_pred             HHHHHHHHHHHhhhHHHHHHHH
Q 019459          103 RDSLAMTARNLSRDLAKLETFK  124 (340)
Q Consensus       103 ~~sLa~TvKKL~RDvaKLE~FK  124 (340)
                      +..|-.-+|+...=|+-+|.+|
T Consensus        84 ~keLd~~ik~qekiIdnFE~ik  105 (119)
T 3etw_A           84 LKKLEAEMEQQKAVISDFEKIQ  105 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555444

>2q6q_A Spindle POLE BODY component SPC42; SPC42P, budding yeast, cell cycle; 1.97A {Saccharomyces cerevisiae}

Probab=84.91  E-value=6.4  Score=30.64  Aligned_cols=57  Identities=26%  Similarity=0.367  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 019459           55 GTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA  118 (340)
Q Consensus        55 ~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva  118 (340)
                      ..|-.+|.+|+++|..|..=|.+|-       ++|-.-.+-|.||..+...+..-+..|++|+.
T Consensus         6 KeL~~kl~~Kq~EI~rLnvlvgslR-------~KLiKYtelnKKLe~~~~~~q~s~~~l~k~~~   62 (74)
T 2q6q_A            6 KELNFKLREKQNEIFELKKIAETLR-------SKLEKYVDITKKLEDQNLNLQIKISDLEKKLS   62 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhhhhHHHHhhcc
Confidence            4678899999999999988887554       47777778888899998888888888887753

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=84.01  E-value=6.8  Score=32.05  Aligned_cols=45  Identities=18%  Similarity=0.291  Sum_probs=29.8

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKL   89 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl   89 (340)
                      .+++..+.|+.+|+..|.+....-.+.+.....++.+|-+.++-|
T Consensus        19 ~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTasL   63 (97)
T 2eqb_B           19 RELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASL   63 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455556667777777777766666666666666666666666554

>3k29_A Putative uncharacterized protein; YSCO, type III secretion apparatus, S genomics, csgid; HET: MSE; 2.00A {Chlamydia trachomatis}

Probab=83.91  E-value=19  Score=32.09  Aligned_cols=76  Identities=13%  Similarity=0.111  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHH--HHHHHHHHHHh
Q 019459           54 TGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLA--KLETFKRQLMQ  129 (340)
Q Consensus        54 ~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDva--KLE~FKk~Lmq  129 (340)
                      |.-||.++++.+..+++..++|.....+|.++..-+.+|..+.+|+..-+.--....+++.--..  -+|-|+..+-+
T Consensus        80 I~llrErea~lEqkVaeq~e~Ve~e~q~Le~ar~el~qArke~eKfelHrqiwqaE~kre~E~qEElEqEEf~s~~~~  157 (169)
T 3k29_A           80 IKVVAIQLSEEEEKVNKQKENVLAASKELERAEVELTKRRKEEEKTRLHKEEWMKEALKEEARQEEKEQDEMGQLLHQ  157 (169)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            34477777777777777777777777777777777777777777776666655555566555454  35567666554

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=83.30  E-value=10  Score=30.92  Aligned_cols=68  Identities=12%  Similarity=0.192  Sum_probs=38.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           51 ETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        51 E~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      ..+|..|++.++.+...+    +++.-|..+..-=..-...=..+-+||..|+..|...+..|.|.+.+|..
T Consensus        22 q~~id~lke~~~q~~~~~----E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~~L~~   89 (94)
T 3jsv_C           22 QELIDKLKEEAEQHKIVM----ETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKLKV   89 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC----
T ss_pred             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555544444211    33333333333333333344456689999999999999999999988854

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

Probab=82.23  E-value=24  Score=35.69  Aligned_cols=89  Identities=12%  Similarity=0.139  Sum_probs=45.4

Q ss_pred             HHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH------------HHHHHHHHHHHHH
Q 019459           44 ASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAK------------LAKERDSLAMTAR  111 (340)
Q Consensus        44 atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~k------------L~~E~~sLa~TvK  111 (340)
                      ...+..||..+..|=++-.+-...|..|+..+...|.++.+....++...++.++            ....-..|...+.
T Consensus        99 ~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~~~~i~~L~~~~~  178 (464)
T 1m1j_B           99 KPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNIPSSLRVLRAVID  178 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence            3444555555544444333333344444444444444444433333222222211            1222344566777


Q ss_pred             HHhhhHHHHHHHHHHHHhhcc
Q 019459          112 NLSRDLAKLETFKRQLMQSLN  132 (340)
Q Consensus       112 KL~RDvaKLE~FKk~LmqSLq  132 (340)
                      +|...|.+||..-.+++..+.
T Consensus       179 ~l~~ki~~l~~~~~~~~~~~~  199 (464)
T 1m1j_B          179 SLHKKIQKLENAIATQTDYCR  199 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHhhh
Confidence            888888899988888887654

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

Probab=82.22  E-value=27  Score=31.04  Aligned_cols=80  Identities=14%  Similarity=0.149  Sum_probs=34.2

Q ss_pred             hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 019459           47 VSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQ  126 (340)
Q Consensus        47 Vs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~  126 (340)
                      ++.+|.-++.|+.++.-=...-..|++.+..|+.+|.+=..-..+..+....|..-..+|-.-++.+.--+.|++.=+|+
T Consensus        43 ~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~  122 (168)
T 3o0z_A           43 ISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKE  122 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555544444445555555555554443333333333333333333333333333333333333333333

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

Probab=82.22  E-value=15  Score=29.42  Aligned_cols=81  Identities=20%  Similarity=0.169  Sum_probs=53.5

Q ss_pred             HHHHHHhhhhHhHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHhHHHHHHH-HHHHHHHHHHHHHH
Q 019459           41 MAIASRVSKLETETGTMRQMLYEKDRLICEL------EERLSHVQKVYQEADSKLKIFIDDNAKL-AKERDSLAMTARNL  113 (340)
Q Consensus        41 ~A~atRVs~LE~E~~~LR~~laEKd~~i~~L------q~r~~~le~~L~e~~~rl~~a~de~~kL-~~E~~sLa~TvKKL  113 (340)
                      ++-+.-....|.|...|...+..|=..|..+      ...+..+|..|.||..=|.+-.-|...+ ...|..+.+.|+.-
T Consensus        11 ~~mSelFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~~i~~ie~~ldEA~eLl~qMelE~r~~p~s~R~~~~~klr~Y   90 (102)
T 2qyw_A           11 AASSEHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKKLVRDFDEKQQEANETLAEMEEELRYAPLTFRNPMMSKLRNY   90 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            3345666777777777777776666665333      3456667777777777776654444333 35678888888888


Q ss_pred             hhhHHHHH
Q 019459          114 SRDLAKLE  121 (340)
Q Consensus       114 ~RDvaKLE  121 (340)
                      .+||++|.
T Consensus        91 k~dL~~lk   98 (102)
T 2qyw_A           91 RKDLAKLH   98 (102)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887764

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=82.20  E-value=4.4  Score=33.86  Aligned_cols=88  Identities=18%  Similarity=0.150  Sum_probs=35.8

Q ss_pred             hhhhHhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 019459           47 VSKLETETGTMRQMLY----EKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDLAKLET  122 (340)
Q Consensus        47 Vs~LE~E~~~LR~~la----EKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDvaKLE~  122 (340)
                      |.+|..+.+.|+.+|.    +|+.+...+.++.+.-..+.++...+...++.....|.   .....+....+..|++|-.
T Consensus         8 ~~~lq~~~~ql~~qL~k~~~~r~~Le~~w~~k~E~~k~qV~~L~~~~q~sE~~L~~Lq---q~fsq~q~~vq~qL~~Lt~   84 (112)
T 1x79_B            8 VKKLQLMLRQANDQLEKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEILLEELQ---QGLSQAKRDVQEQMAVLMQ   84 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence            4555555555555543    34444444444444444444444444443333322232   2344444444555555544


Q ss_pred             HHHHH---HhhccccCCC
Q 019459          123 FKRQL---MQSLNDDNSS  137 (340)
Q Consensus       123 FKk~L---mqSLqeD~~~  137 (340)
                      =++.|   +.-||.||+.
T Consensus        85 ~Re~V~~eL~rLQ~eNd~  102 (112)
T 1x79_B           85 SREQVSEELVRLQKDNDS  102 (112)
T ss_dssp             HHHHHHTC----------
T ss_pred             HHHHHHHHHHHHHhhccc
Confidence            44444   3445666665

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=80.91  E-value=3.6  Score=40.30  Aligned_cols=32  Identities=13%  Similarity=0.251  Sum_probs=14.2

Q ss_pred             HHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 019459           45 SRVSKLETETGTMRQMLYEKDRLICELEERLS   76 (340)
Q Consensus        45 tRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~   76 (340)
                      +.+..|+.|+..|++++.+.++.|++++.++.
T Consensus         3 ~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~   34 (403)
T 4etp_A            3 SKIAALKEKIAALKEKIAALKEKIKDTELGMK   34 (403)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555554444444444444433

>4dyl_A Tyrosine-protein kinase FES/FPS; structural genomics, structural genomics consortium, BCR, CR associated substrate, transferase; 2.18A {Homo sapiens}

Probab=80.86  E-value=9.6  Score=36.81  Aligned_cols=93  Identities=12%  Similarity=0.220  Sum_probs=59.0

Q ss_pred             HHHHHHHHHhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhH
Q 019459           38 ITSMAIASRVSKLETETGTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAMTARNLSRDL  117 (340)
Q Consensus        38 Its~A~atRVs~LE~E~~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~TvKKL~RDv  117 (340)
                      +|-..|-+|+++|+.++..+++.+..|.+.+.+|+..+..-...... ..++ ..+-....|++    +..+|--|...-
T Consensus       302 ~~~~~lq~~L~~~~~~l~~~~~~~~~k~~~v~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~e----~~~~~~~~~~~~  375 (406)
T 4dyl_A          302 LTVESVQHTLTSVTDELAVATEMVFRRQEMVTQLQQELRNEEENTHP-RERV-QLLGKRQVLQE----ALQGLQVALCSQ  375 (406)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCT-TCGG-GGHHHHHHHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc-chHH-HHHhHHhhHHH----HHHHHHHHHhHH
Confidence            34567889999999999999999999999999988876543210000 0000 00001111121    234566677778


Q ss_pred             HHHHHHHHHHHhhccccCC
Q 019459          118 AKLETFKRQLMQSLNDDNS  136 (340)
Q Consensus       118 aKLE~FKk~LmqSLqeD~~  136 (340)
                      +||++=|-.|-+.|++=..
T Consensus       376 ~~~~~q~~~~~~~~~~~~~  394 (406)
T 4dyl_A          376 AKLQAQQELLQTKLEHLGP  394 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHhcCC
Confidence            8888888888777766443

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=80.82  E-value=22  Score=29.07  Aligned_cols=54  Identities=11%  Similarity=0.198  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 019459           55 GTMRQMLYEKDRLICELEERLSHVQKVYQEADSKLKIFIDDNAKLAKERDSLAM  108 (340)
Q Consensus        55 ~~LR~~laEKd~~i~~Lq~r~~~le~~L~e~~~rl~~a~de~~kL~~E~~sLa~  108 (340)
                      ..||.++..=.....+....+..|-..|.+-..+-..|+.++.++..|-..|..
T Consensus         8 e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTa   61 (97)
T 2eqb_B            8 NQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTA   61 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444555555555566666555555555543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	340
d2f05a1	85	Sin3B {Mouse (Mus musculus) [TaxId: 10090]}	96.94
d1s5qb_	89	Sin3A {Mouse (Mus musculus) [TaxId: 10090]}	96.36
d1yf2a2	205	Bipartite methylase S protein MJ0130 {Methanocaldo	90.88
d1ydxa2	181	Bipartite methylase S protein MG438 {Mycoplasma ge	87.73
d1ydxa1	193	Bipartite methylase S protein MG438 {Mycoplasma ge	83.21

>d2f05a1 a.59.1.1 (A:1-85) Sin3B {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: PAH2 domain
superfamily: PAH2 domain
family: PAH2 domain
domain: Sin3B
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.94  E-value=0.0011  Score=50.25  Aligned_cols=60  Identities=18%  Similarity=0.417  Sum_probs=53.2

Q ss_pred             chHHHHHHHHhcC--CHHHHHHHHHHHHHHhhcc----------ccHHHHHHHHHHhhCCCChhHHHHHHHhh
Q 019459          275 DGKEFFRQARSRL--SYEQFSAFLASIKELNAQK----------QTREETLRKAEEIFGTDNKDLYLYFQGLL  335 (340)
Q Consensus       275 DGKEFFRQARsRL--SYEQFsaFLANIKELNAhk----------QTREETL~KA~eIFG~eNkDLY~~FegLL  335 (340)
                      |...|++.+|.|+  -.|.|..||.-.+.+.+++          .+..|.+..+.+|||. |+||...|...|
T Consensus         9 dA~~yl~kVK~rf~~~p~~Y~~FL~il~~f~~~~i~~~~~~~~~~~~~ev~~~V~~Lf~~-hpdLl~~F~~FL   80 (85)
T d2f05a1           9 NAISYVNKIKTRFLDHPEIYRSFLEILHTYQKEQLHTKGRPFRGMSEEEVFTEVANLFRG-QEDLLSEFGQFL   80 (85)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSSSSSSSSCCCCHHHHHHHHHHHTTT-CHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhhccccccccccCCHHHHHHHHHHHHcc-CHHHHHHHHHHC
Confidence            5678999999999  4789999999999998875          4889999999999975 789999999876

>d1s5qb_ a.59.1.1 (B:) Sin3A {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: PAH2 domain
superfamily: PAH2 domain
family: PAH2 domain
domain: Sin3A
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.36  E-value=0.0049  Score=47.08  Aligned_cols=60  Identities=18%  Similarity=0.389  Sum_probs=52.6

Q ss_pred             chHHHHHHHHhcC--CHHHHHHHHHHHHHHhhc-------------cccHHHHHHHHHHhhCCCChhHHHHHHHhh
Q 019459          275 DGKEFFRQARSRL--SYEQFSAFLASIKELNAQ-------------KQTREETLRKAEEIFGTDNKDLYLYFQGLL  335 (340)
Q Consensus       275 DGKEFFRQARsRL--SYEQFsaFLANIKELNAh-------------kQTREETL~KA~eIFG~eNkDLY~~FegLL  335 (340)
                      |...|++.+|.|+  -.+.|..||.-.+.+.++             +.+..|..+.+.+||+. |+||...|...|
T Consensus        12 ~A~~yl~kVK~~f~d~p~~Y~~FL~il~~f~~~~~~~~~~~~~~~~~~~~~~v~~rV~~Lf~~-hpdLi~~Fn~FL   86 (89)
T d1s5qb_          12 HAINYVNKIKNRFQGQPDIYKAFLEILHTYQKEQRNAKEAGGNYTPALTEQEVYAQVARLFKN-QEDLLSEFGQFL   86 (89)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHSCSCCCCSCCHHHHHHHHHHHSCS-CHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhhhccccccccccccccHHHHHHHHHHHHcc-CHHHHHHHHhhC
Confidence            5678999999999  568899999999999875             56889999999999976 899999998765

>d1yf2a2 d.287.1.2 (A:221-425) Bipartite methylase S protein MJ0130 {Methanocaldococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: DNA methylase specificity domain
superfamily: DNA methylase specificity domain
family: Type I restriction modification DNA specificity domain
domain: Bipartite methylase S protein MJ0130
species: Methanocaldococcus jannaschii [TaxId: 2190]

Probab=90.88  E-value=0.19  Score=39.05  Aligned_cols=39  Identities=21%  Similarity=0.349  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           93 IDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        93 ~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      ++||.+..+.-+.+-..+.++.+.+++|+.+|+.|||.|
T Consensus       158 ~~eQ~~I~~~l~~id~~i~~~~~~~~~l~~~k~~Ll~~l  196 (205)
T d1yf2a2         158 LEEQKQIAKILSSVDKSIELKKQKKEKLQRMKKKIMELL  196 (205)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777777777788888999999999999999999986

>d1ydxa2 d.287.1.2 (A:194-374) Bipartite methylase S protein MG438 {Mycoplasma genitalium [TaxId: 2097]}

class: Alpha and beta proteins (a+b)
fold: DNA methylase specificity domain
superfamily: DNA methylase specificity domain
family: Type I restriction modification DNA specificity domain
domain: Bipartite methylase S protein MG438
species: Mycoplasma genitalium [TaxId: 2097]

Probab=87.73  E-value=0.45  Score=37.07  Aligned_cols=39  Identities=18%  Similarity=0.214  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Q 019459           93 IDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSL  131 (340)
Q Consensus        93 ~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSL  131 (340)
                      ++||.+..+--+.+-..+.++.+.+.+|+..|+.|||.|
T Consensus       138 l~eQ~~I~~~l~~~d~~i~~~~~~i~~l~~lk~~Ll~~l  176 (181)
T d1ydxa2         138 FQLQRKAGKIVFLLDQKLDQYKKELSSLTVIRDTLLKKL  176 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            577778888888888999999999999999999999987

>d1ydxa1 d.287.1.2 (A:1-193) Bipartite methylase S protein MG438 {Mycoplasma genitalium [TaxId: 2097]}

class: Alpha and beta proteins (a+b)
fold: DNA methylase specificity domain
superfamily: DNA methylase specificity domain
family: Type I restriction modification DNA specificity domain
domain: Bipartite methylase S protein MG438
species: Mycoplasma genitalium [TaxId: 2097]

Probab=83.21  E-value=0.99  Score=35.13  Aligned_cols=40  Identities=10%  Similarity=0.125  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcc
Q 019459           93 IDDNAKLAKERDSLAMTARNLSRDLAKLETFKRQLMQSLN  132 (340)
Q Consensus        93 ~de~~kL~~E~~sLa~TvKKL~RDvaKLE~FKk~LmqSLq  132 (340)
                      ++||.+..+--+.|-..+.++.+.+.+|+..|+.|||.|=
T Consensus       143 ~~eQ~~I~~~l~~ld~~i~~~~~~i~~l~~~~~~ll~~lf  182 (193)
T d1ydxa1         143 KNEQHAIANTLSVFDERLENLASLIEINRKLRDEYAHKLF  182 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666666667777888889999999999999999874