Citrus Sinensis ID: 044691

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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--
Protein Sequence
MASSSGTSSGGSSSLMLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcc
Coil and Loop (DISEMBL)
masssgtssggssslmlqnsgseESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLdasnnndddennggAAAAIFEATSminepafdnfmnplnlsylnqpimasadmfhqy
Flexible Loop (DISEMBL)
masssgtssggssslmlqnsGSEESLQALmdqrkrkrmisnresarrsrmrkqKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
Low Complexity Region (SEG)
MAsssgtssggssslmlqnsgsEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLdasnnndddennggaaaaIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
Disordered region (IsUnstruct)
**************************************************************VAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD**************AAAIFEATSMINEPAFDNFMNPLNLSYLNQPI**********
Disordered Region (DISOPRED)
****************************************NRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE***********ELTHRLHSLNEII***********************************NFMNPLNLSYLNQPIMAS*DMFHQY
Disordered Region (DISEMBL)
*******************SGSEESLQA**************************HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
Disordered Region (DISPRO)
**************************************************RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNN*******GGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSGTSSGGSSSLMLQNSGSEESLQALMDQRKRKRMISNRESARRSxxxxxxxxxxxxxxxxxxxxxNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY
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	172	2.2.26 [Sep-21-2011]
P24068	151	Ocs element-binding facto	N/A	no	0.866	0.986	0.368	1e-18
P12959	453	Regulatory protein opaque	N/A	no	0.470	0.178	0.418	5e-08
Q9FGX2	145	Basic leucine zipper 1 OS	no	no	0.604	0.717	0.342	7e-08
Q9FUD3	277	Basic leucine zipper 9 OS	no	no	0.482	0.299	0.361	1e-07
P23922	349	Transcription factor HBP-	N/A	no	0.383	0.189	0.378	8e-07
Q9M7Q2	431	ABSCISIC ACID-INSENSITIVE	no	no	0.412	0.164	0.423	4e-06
Q9M7Q4	416	ABSCISIC ACID-INSENSITIVE	no	no	0.244	0.100	0.5	1e-05
Q9M7Q3	454	ABSCISIC ACID-INSENSITIVE	no	no	0.244	0.092	0.523	1e-05
P25032	354	DNA-binding protein EMBP-	N/A	no	0.418	0.203	0.350	4e-05
Q9SJN0	442	Protein ABSCISIC ACID-INS	no	no	0.244	0.095	0.5	0.0001

>sp|P24068|OCS1_MAIZE Ocs element-binding factor 1 OS=Zea mays GN=OBF1 PE=2 SV=2

 Score = 92.8 bits (229), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 63/171 (36%), Positives = 89/171 (52%), Gaps = 22/171 (12%)

Query: 1   MASSSGTSSGGSSSLMLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLM 60
           M+SSS + + G      + SGS+    A    R+ KR +SNRESARRSR+RKQ+HLD+L+
Sbjct: 1   MSSSSLSPTAG------RTSGSDGD-SAADTHRREKRRLSNRESARRSRLRKQQHLDELV 53

Query: 61  AQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNN 120
            +VA+L+ DN ++          Y  +E EN+VLRA+  EL  RL S+NE++  +     
Sbjct: 54  QEVARLQADNARVAARARDIASQYTRVEQENTVLRARAAELGDRLRSVNEVLRLV----- 108

Query: 121 NDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPI-MASADMFH 170
               E   G A  I E       PA D  + P  L Y    + M +  M H
Sbjct: 109 ----EEFSGVAMDIQEEM-----PADDPLLRPWQLPYPAAAMPMGAPHMLH 150

May contribute to developmentally specific patterns of gene expression. Binds specifically to ocs elements which are transcriptional enhancer found in the promoters of several plant genes. OCSBF-1 is able to bind to a site within each half of the ocs element as well as to animal AP-1 and CREB sites.
Zea mays (taxid: 4577)

>sp|P12959|OP2_MAIZE Regulatory protein opaque-2 OS=Zea mays GN=O2 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 36/86 (41%), Positives = 50/86 (58%), Gaps = 5/86 (5%)

Query: 31  DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
           ++R RK+  SNRESARRSR RK  HL +L  QVAQL+ +N  ++  I    Q Y +   +
Sbjct: 226 EERVRKKE-SNRESARRSRYRKAAHLKELEDQVAQLKAENSCLLRRIAALNQKYNDANVD 284

Query: 91  NSVLRAQLGELTHRLH----SLNEII 112
           N VLRA +  L  ++     SL  +I
Sbjct: 285 NRVLRADMETLRAKVKMGEDSLKRVI 310

Involved in the regulation of the endosperm-specific production of albumin b-32 and other zein proteins. It is a trans-acting transcriptional activator that binds to the consensus sequence 5'-GATGAYRTGR-3'.

Zea mays (taxid: 4577)

>sp|Q9FGX2|BZIP1_ARATH Basic leucine zipper 1 OS=Arabidopsis thaliana GN=BZIP1 PE=1 SV=1

 Score = 56.6 bits (135), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 38/111 (34%), Positives = 63/111 (56%), Gaps = 7/111 (6%)

Query: 30  MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIES 89
           +D++KRKR +SNRESARRSR++KQK ++D + +++ L +   +         Q   ++E+
Sbjct: 13  IDEKKRKRKLSNRESARRSRLKKQKLMEDTIHEISSLERRIKENSERCRAVKQRLDSVET 72

Query: 90  ENSVLRAQLGELTHRLHSLNEIIS----FLDASNNND--DDEN-NGGAAAA 133
           EN+ LR++   L+  +  L  +I+     L  S   D  DD+N N G A  
Sbjct: 73  ENAGLRSEKIWLSSYVSDLENMIATTSLTLTQSGGGDCVDDQNANAGIAVG 123

Transcription factor that binds to the C-box-like motif (5'-TGCTGACGTCA-3') and G-box-like motif (5'-CCACGTGGCC-3'), ABRE elements, of gene promoters involved in sugar signaling. Activated by low energy stress both at transcriptional and post-transcriptional mechanisms. Promotes dark-induced senescence and participates in the transcriptional reprogramming of amino acid metabolism during the dark-induced starvation response.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FUD3|BZIP9_ARATH Basic leucine zipper 9 OS=Arabidopsis thaliana GN=BZIP9 PE=1 SV=1

 Score = 56.2 bits (134), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/83 (36%), Positives = 51/83 (61%)

Query: 31  DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
           D ++ +RM SNRESA+RSR RKQ++L DL  QV  L+ DN  +   +  ATQ + +  + 
Sbjct: 120 DLKRIRRMNSNRESAKRSRRRKQEYLVDLETQVDSLKGDNSTLYKQLIDATQQFRSAGTN 179

Query: 91  NSVLRAQLGELTHRLHSLNEIIS 113
           N VL++ +  L  ++    ++++
Sbjct: 180 NRVLKSDVETLRVKVKLAEDLVA 202

Transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|P23922|HBP1A_WHEAT Transcription factor HBP-1a OS=Triticum aestivum PE=2 SV=1

 Score = 53.1 bits (126), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 43/66 (65%)

Query: 33  RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS 92
           +K+KR +SNRESARRSR+RKQ   ++L  +   L+ +N  +   ++   + Y  + S+N+
Sbjct: 254 KKQKRKLSNRESARRSRLRKQAECEELGQRAEALKSENSSLRIELDRIKKEYEELLSKNT 313

Query: 93  VLRAQL 98
            L+A+L
Sbjct: 314 SLKAKL 319

Binds to the hexamer motif 5'-ACGTCA-3' of histone gene promoters.

Triticum aestivum (taxid: 4565)

>sp|Q9M7Q2|AI5L7_ARATH ABSCISIC ACID-INSENSITIVE 5-like protein 7 OS=Arabidopsis thaliana GN=ABF4 PE=1 SV=1

 Score = 50.8 bits (120), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 51/78 (65%), Gaps = 7/78 (8%)

Query: 2   ASSSGTSSGGSSSL----MLQNSG--SEESLQALMDQRKRKRMISNRESARRSRMRKQKH 55
           A+S GTSS  ++SL     + N G  S   L+ ++++R+R RMI NRESA RSR RKQ +
Sbjct: 317 ATSPGTSSAENNSLSPVPYVLNRGRRSNTGLEKVIERRQR-RMIKNRESAARSRARKQAY 375

Query: 56  LDDLMAQVAQLRKDNHQI 73
             +L A++ +L+K N ++
Sbjct: 376 TLELEAEIEKLKKTNQEL 393

Functions as transcriptional activator in the ABA-inducible expression of rd29B. Binds specifically to the ABA-responsive element (ABRE) of the rd29B gene promoter.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M7Q4|AI5L5_ARATH ABSCISIC ACID-INSENSITIVE 5-like protein 5 OS=Arabidopsis thaliana GN=ABF2 PE=1 SV=1

 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 34/42 (80%)

Query: 32  QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQI 73
           +R+++RMI NRESA RSR RKQ +  +L A+VA+L+++N ++
Sbjct: 337 ERRQRRMIKNRESAARSRARKQAYTVELEAEVAKLKEENDEL 378

Involved in ABA and stress responses and acts as a positive component of glucose signal transduction. Functions as transcriptional activator in the ABA-inducible expression of rd29B. Binds specifically to the ABA-responsive element (ABRE) of the rd29B gene promoter.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M7Q3|AI5L6_ARATH ABSCISIC ACID-INSENSITIVE 5-like protein 6 OS=Arabidopsis thaliana GN=ABF3 PE=1 SV=1

 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/42 (52%), Positives = 33/42 (78%)

Query: 32  QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQI 73
           +R++KRMI NRESA RSR RKQ +  +L A++AQL++ N ++
Sbjct: 373 ERRQKRMIKNRESAARSRARKQAYTMELEAEIAQLKELNEEL 414

Binds to the ABA-responsive element (ABRE). Mediates stress-responsive ABA signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|P25032|EMBP1_WHEAT DNA-binding protein EMBP-1 OS=Triticum aestivum PE=1 SV=1

 Score = 47.8 bits (112), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 47/77 (61%), Gaps = 5/77 (6%)

Query: 30  MDQR---KRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMN 86
           MD+R   + +R  SNRESARRSR+RKQ+  ++L  +V++L   N  + + ++   +    
Sbjct: 246 MDERELKRERRKQSNRESARRSRLRKQQECEELAQKVSELTAANGTLRSELDQLKKDCKT 305

Query: 87  IESENSVLRAQLGELTH 103
           +E+EN  L  ++  L+H
Sbjct: 306 METENKKLMGKI--LSH 320

Interacts specifically with the 8-bp sequence 5'-CACGTGGC-3'in the abscisic acid response element (ABARE). Also binds to the hexamer motif 5'-ACGTCA-3' of histone gene promoters.

Triticum aestivum (taxid: 4565)

>sp|Q9SJN0|ABI5_ARATH Protein ABSCISIC ACID-INSENSITIVE 5 OS=Arabidopsis thaliana GN=ABI5 PE=1 SV=1

 Score = 46.2 bits (108), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 33/42 (78%)

Query: 32  QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQI 73
           +R+++RMI NRESA RSR RKQ +  +L A++ QL+++N Q+
Sbjct: 356 ERRQRRMIKNRESAARSRARKQAYTVELEAELNQLKEENAQL 397

Participates in ABA-regulated gene expression during seed development and subsequent vegetative stage by acting as the major mediator of ABA repression of growth. Binds to the embryo specification element and the ABA-responsive element (ABRE) of the Dc3 gene promoter and to the ABRE of the Em1 and Em6 genes promoters. Can also trans-activate its own promoter, suggesting that it is autoregulated. Plays a role in sugar-mediated senescence.

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	172
255543765	159	Ocs element-binding factor, putative [Ri	0.854	0.924	0.719	2e-56
224105353	155	predicted protein [Populus trichocarpa]	0.831	0.922	0.694	6e-55
341958409	157	bZIP transcription factor [Prunus persic	0.819	0.898	0.715	4e-53
224077864	155	predicted protein [Populus trichocarpa]	0.825	0.916	0.670	2e-52
351724635	160	bZIP transcription factor bZIP124 [Glyci	0.854	0.918	0.664	6e-50
302398649	159	BZIP domain class transcription factor [	0.831	0.899	0.692	9e-50
302398643	156	BZIP domain class transcription factor [	0.831	0.916	0.634	1e-48
255538740	163	Ocs element-binding factor, putative [Ri	0.843	0.889	0.627	4e-48
224082910	155	predicted protein [Populus trichocarpa]	0.895	0.993	0.630	4e-48
147807873	157	hypothetical protein VITISV_016463 [Viti	0.831	0.910	0.677	1e-47

>gi|255543765|ref|XP_002512945.1| Ocs element-binding factor, putative [Ricinus communis] gi|223547956|gb|EEF49448.1| Ocs element-binding factor, putative [Ricinus communis]

 Score =  223 bits (568), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 113/157 (71%), Positives = 128/157 (81%), Gaps = 10/157 (6%)

Query: 16  MLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIIT 75
           +LQNSGSEE LQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLR++N Q+IT
Sbjct: 13  LLQNSGSEEDLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRRENQQLIT 72

Query: 76  SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIF 135
           SINI TQHY+N+E++NS+LRAQ+GEL+HRL SLNEIISFL A NN       G A A  F
Sbjct: 73  SINITTQHYLNVEADNSILRAQVGELSHRLESLNEIISFLSAGNNG----GYGDATATTF 128

Query: 136 EATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
                 NEPA D+F NPL++S+LNQPIMASA    QY
Sbjct: 129 ------NEPAADSFFNPLSMSFLNQPIMASAADIFQY 159

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224105353|ref|XP_002313781.1| predicted protein [Populus trichocarpa] gi|118484762|gb|ABK94250.1| unknown [Populus trichocarpa] gi|118487006|gb|ABK95334.1| unknown [Populus trichocarpa] gi|222850189|gb|EEE87736.1| predicted protein [Populus trichocarpa]

 Score =  218 bits (556), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 109/157 (69%), Positives = 130/157 (82%), Gaps = 14/157 (8%)

Query: 16  MLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIIT 75
           ++QNSGSEE+LQALMDQRKRKRMISNRESARRSRMRKQKHLDDL+AQVAQL+K+NHQIIT
Sbjct: 13  LIQNSGSEENLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLVAQVAQLKKENHQIIT 72

Query: 76  SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIF 135
           SINI TQHY+N+E++NS+LRAQ+ EL+HRL  LN IIS L++SN              +F
Sbjct: 73  SINITTQHYLNVEADNSILRAQVSELSHRLEFLNGIISLLNSSN-------------GLF 119

Query: 136 EATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
             +S+ NEPA D+F+NP N+SYLNQPI ASADMF QY
Sbjct: 120 GDSSIFNEPAADSFLNPFNMSYLNQPISASADMF-QY 155

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|341958409|gb|AEL13842.1| bZIP transcription factor [Prunus persica]

 Score =  212 bits (539), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 113/158 (71%), Positives = 128/158 (81%), Gaps = 17/158 (10%)

Query: 16  MLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIIT 75
           MLQNSGSEE LQ LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQ+A+L+K+N+QIIT
Sbjct: 13  MLQNSGSEEDLQVLMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQMAELKKENNQIIT 72

Query: 76  SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIF 135
           S+NI +QHYMNIE+ENSVLRAQ  EL++RL SLNEI SFL+ASN              +F
Sbjct: 73  SVNITSQHYMNIEAENSVLRAQADELSNRLQSLNEIASFLNASN-------------GVF 119

Query: 136 EA--TSMINEPAFDNFMNPLNLSYLNQPIMAS-ADMFH 170
            A  +S  NEP  D+F NPLNLSYLNQPIMAS A+MFH
Sbjct: 120 AAGDSSSFNEPT-DSFFNPLNLSYLNQPIMASAAEMFH 156

Source: Prunus persica

Species: Prunus persica

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077864|ref|XP_002305442.1| predicted protein [Populus trichocarpa] gi|222848406|gb|EEE85953.1| predicted protein [Populus trichocarpa]

 Score =  210 bits (534), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 104/155 (67%), Positives = 126/155 (81%), Gaps = 13/155 (8%)

Query: 16  MLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIIT 75
           ++QNSGSEE LQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQV+QLRK+NHQIIT
Sbjct: 13  LIQNSGSEEDLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVSQLRKENHQIIT 72

Query: 76  SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIF 135
            INI TQ Y+++E++NS+LR Q+ EL++RL SLNEII  L++        NNG     +F
Sbjct: 73  GINITTQRYLSVEADNSILRVQISELSNRLESLNEIIGSLNS--------NNG-----VF 119

Query: 136 EATSMINEPAFDNFMNPLNLSYLNQPIMASADMFH 170
             +   NEPA D+F+NP N++YLNQPIMASA+MFH
Sbjct: 120 GDSITFNEPAADSFLNPWNMAYLNQPIMASAEMFH 154

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724635|ref|NP_001238344.1| bZIP transcription factor bZIP124 [Glycine max] gi|113367218|gb|ABI34666.1| bZIP transcription factor bZIP124 [Glycine max] gi|255640820|gb|ACU20693.1| unknown [Glycine max]

 Score =  201 bits (512), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 105/158 (66%), Positives = 125/158 (79%), Gaps = 11/158 (6%)

Query: 16  MLQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIIT 75
           +LQNSGSEE LQA+MDQRKRKRMISNRESARRSRMRKQKHLDDL++QVAQLRK+N QI+T
Sbjct: 13  LLQNSGSEEDLQAVMDQRKRKRMISNRESARRSRMRKQKHLDDLVSQVAQLRKENQQILT 72

Query: 76  SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIF 135
           S+NI TQ Y+++E+ENSVLRAQ+GEL+HRL SLNEI+  L+A+         G  AAA  
Sbjct: 73  SVNITTQQYLSVEAENSVLRAQVGELSHRLESLNEIVDVLNATT------VAGFGAAA-- 124

Query: 136 EATSMINEPAFDN-FMNPLNLSYLNQPIMASADMFHQY 172
             +S   EP  +N F NPLN+ YLN PIMASAD+  QY
Sbjct: 125 -TSSTFVEPINNNSFFNPLNMGYLNHPIMASADIL-QY 160

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302398649|gb|ADL36619.1| BZIP domain class transcription factor [Malus x domestica]

 Score =  201 bits (511), Expect = 9e-50,   Method: Compositional matrix adjust.
 Identities = 106/153 (69%), Positives = 122/153 (79%), Gaps = 10/153 (6%)

Query: 18  QNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSI 77
           QNS SEE L ALMDQRKRKRMISNRESARRSRMRKQKHLDDL  Q++QL+KDN QII+ +
Sbjct: 17  QNSCSEEDLTALMDQRKRKRMISNRESARRSRMRKQKHLDDLTGQISQLQKDNEQIISGL 76

Query: 78  NIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEA 137
           NI +QHYMN+E+ENSVLRAQ  EL++RL SLNEI SFL+A        NNGG  AA  + 
Sbjct: 77  NITSQHYMNVEAENSVLRAQADELSNRLQSLNEIASFLNA--------NNGGLHAAAAD- 127

Query: 138 TSMINEPAFDNFMNPLNLSYLNQPIMASADMFH 170
           +S   EP  D+F NPLNLSYLNQPIMASA+MF+
Sbjct: 128 SSCFAEP-HDSFFNPLNLSYLNQPIMASAEMFY 159

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302398643|gb|ADL36616.1| BZIP domain class transcription factor [Malus x domestica] gi|302398645|gb|ADL36617.1| BZIP domain class transcription factor [Malus x domestica]

 Score =  197 bits (501), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 99/156 (63%), Positives = 120/156 (76%), Gaps = 13/156 (8%)

Query: 17  LQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITS 76
           LQNSGSE  L  L+DQRKRKRM SNRESARRSRMRKQ+HLDDL AQVAQLRK+N+QI+TS
Sbjct: 14  LQNSGSEGDLHHLVDQRKRKRMQSNRESARRSRMRKQQHLDDLTAQVAQLRKENNQILTS 73

Query: 77  INIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFE 136
           INI TQH+MN+ESENSVL+AQ+ EL+ RL SLNEI+ ++DA          GG     FE
Sbjct: 74  INITTQHHMNVESENSVLKAQMAELSQRLESLNEILGYIDA----------GGGYGGDFE 123

Query: 137 ATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
            T + +    ++F+NP N+ Y+NQPIMA+ADM HQY
Sbjct: 124 TTPVADH---NSFINPWNMLYVNQPIMATADMLHQY 156

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538740|ref|XP_002510435.1| Ocs element-binding factor, putative [Ricinus communis] gi|223551136|gb|EEF52622.1| Ocs element-binding factor, putative [Ricinus communis]

 Score =  196 bits (497), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 101/161 (62%), Positives = 126/161 (78%), Gaps = 16/161 (9%)

Query: 17  LQNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITS 76
           LQNSGSEE +Q LMDQRKRKRM+SNRESARRSRMRKQ+HLDDLM+QV+QLRKDN QI+TS
Sbjct: 14  LQNSGSEEDMQVLMDQRKRKRMLSNRESARRSRMRKQQHLDDLMSQVSQLRKDNSQILTS 73

Query: 77  INIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNN-----DDDENNGGAA 131
           INI TQH++N+E+ENS+LRAQ+ EL+ RL SLNEI+++++ + +N     D   ++   A
Sbjct: 74  INITTQHFLNVEAENSILRAQMMELSQRLDSLNEILNYINTTTSNGIYEIDHPHHHHQDA 133

Query: 132 AAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
            A+          A D+FMNPLNL YLNQPIMAS D+F QY
Sbjct: 134 TAV----------AADSFMNPLNLIYLNQPIMASPDLF-QY 163

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224082910|ref|XP_002306888.1| predicted protein [Populus trichocarpa] gi|222856337|gb|EEE93884.1| predicted protein [Populus trichocarpa]

 Score =  196 bits (497), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 109/173 (63%), Positives = 130/173 (75%), Gaps = 19/173 (10%)

Query: 1   MASSSGTSSGGSSSLMLQNSGSEESLQA-LMDQRKRKRMISNRESARRSRMRKQKHLDDL 59
           MASSSG SSG +    LQNSGSEE+ Q  L+DQRKRKRM SNRESARRSRM+KQKHLDDL
Sbjct: 1   MASSSGDSSGFTQ---LQNSGSEENTQMMLVDQRKRKRMQSNRESARRSRMKKQKHLDDL 57

Query: 60  MAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASN 119
           MAQV QLRKDN+QI+T+IN+ TQHY+N+E+ENS+LRAQ+ EL HRL SLNEI+++++ SN
Sbjct: 58  MAQVTQLRKDNNQILTTINVTTQHYLNVEAENSILRAQMMELNHRLDSLNEILNYINTSN 117

Query: 120 NNDDDENNGGAAAAIFEATSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
                         IFE     + P   +FMNP NL YLNQPIMAS D+F QY
Sbjct: 118 -------------GIFENDHHEDLPDH-SFMNPSNLFYLNQPIMASPDLF-QY 155

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147807873|emb|CAN73127.1| hypothetical protein VITISV_016463 [Vitis vinifera]

 Score =  194 bits (492), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 105/155 (67%), Positives = 120/155 (77%), Gaps = 12/155 (7%)

Query: 18  QNSGSEESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSI 77
           QNSGSEE LQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQ AQLRK+N+QIITS+
Sbjct: 15  QNSGSEEDLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQAAQLRKENNQIITSM 74

Query: 78  NIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNNNDDDENNGGAAAAIFEA 137
           N+ TQHY NIE+ENSVLRAQ  EL++RL  L EIISFL+ S        NGG  +   E 
Sbjct: 75  NVTTQHYFNIEAENSVLRAQFSELSNRLQYLVEIISFLNTS--------NGGFESG--EP 124

Query: 138 TSMINEPAFDNFMNPLNLSYLNQPIMASADMFHQY 172
            ++      D+ MNPL+L YL+QPIMAS D+F QY
Sbjct: 125 WTLPEPTTPDSLMNPLSLLYLSQPIMAS-DIF-QY 157

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	172
TAIR|locus:2139584	159	GBF6 "AT4G34590" [Arabidopsis	0.790	0.855	0.534	5.2e-33
TAIR|locus:2018411	173	bZIP44 "AT1G75390" [Arabidopsi	0.744	0.739	0.550	2.9e-32
TAIR|locus:2053124	171	bZIP2 "AT2G18160" [Arabidopsis	0.773	0.777	0.471	2.2e-25
TAIR|locus:2096024	146	BZIP53 "AT3G62420" [Arabidopsi	0.494	0.582	0.576	1.2e-24
UNIPROTKB|Q08418	148	lip19 "Basic/leucine zipper pr	0.494	0.574	0.470	2.9e-16
TAIR|locus:2143191	186	bZIP3 "AT5G15830" [Arabidopsis	0.482	0.446	0.457	9.8e-16
TAIR|locus:2009932	196	bZIP58 "AT1G13600" [Arabidopsi	0.505	0.443	0.462	2.6e-15
TAIR|locus:2092595	173	bZIP42 "AT3G30530" [Arabidopsi	0.424	0.421	0.493	6.9e-15
TAIR|locus:2827461	166	bZIP48 "AT2G04038" [Arabidopsi	0.459	0.475	0.469	1.8e-14
TAIR|locus:2166650	165	bZIP43 "AT5G38800" [Arabidopsi	0.5	0.521	0.418	3e-14

TAIR|locus:2139584 GBF6 "AT4G34590" [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 5.2e-33, P = 5.2e-33
 Identities = 77/144 (53%), Positives = 101/144 (70%)

Query:    25 SLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHY 84
             S ++LM+QRKRKRM+SNRESARRSRM+KQK LDDL AQV  L+K+N +I+TS++I TQHY
Sbjct:    19 SEESLMEQRKRKRMLSNRESARRSRMKKQKLLDDLTAQVNHLKKENTEIVTSVSITTQHY 78

Query:    85 MNIESENSVLRAQLGELTHRLHSLNEIISFLXXXXXXXXXXXXXXXXXXIFEATSMINEP 144
             + +E+ENSVLRAQL EL HRL SLN+II FL                     +  ++   
Sbjct:    79 LTVEAENSVLRAQLDELNHRLQSLNDIIEFLDSSNNNNNNNMGMC-------SNPLVGLE 131

Query:   145 AFDNFMNPLNLSYL-NQPIMASAD 167
               D F+N +N+SY+ NQP+MAS+D
Sbjct:   132 CDDFFVNQMNMSYIMNQPLMASSD 155

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS;IDA

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0017148 "negative regulation of translation" evidence=IMP

GO:0080149 "sucrose induced translational repression" evidence=IMP

GO:0009410 "response to xenobiotic stimulus" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0009744 "response to sucrose stimulus" evidence=IEP

TAIR|locus:2018411 bZIP44 "AT1G75390" [Arabidopsis thaliana (taxid:3702)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 76/138 (55%), Positives = 91/138 (65%)

Query:    29 LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE 88
             L+D+RKRKR  SNRESARRSRMRKQKHLDDL AQV  LRK+N QI+  I + TQHY+ IE
Sbjct:    37 LIDERKRKRKQSNRESARRSRMRKQKHLDDLTAQVTHLRKENAQIVAGIAVTTQHYVTIE 96

Query:    89 SENSVLRAQLGELTHRLHSLNEIISFLXXXXXXXXXXXXXXXXXXIFEATSMINEPAFDN 148
             +EN +LRAQ+ EL HRL SLNEI+ F+                  +F+         FD 
Sbjct:    97 AENDILRAQVLELNHRLQSLNEIVDFVESSSSGFGMETGQG----LFDGG------LFDG 146

Query:   149 FMNPLNLSYLNQPIMASA 166
              MNP+NL + NQPIMASA
Sbjct:   147 VMNPMNLGFYNQPIMASA 164

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IMP

GO:0005634 "nucleus" evidence=ISM

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

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0009410 "response to xenobiotic stimulus" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0009845 "seed germination" evidence=IMP

GO:0043565 "sequence-specific DNA binding" evidence=IDA

TAIR|locus:2053124 bZIP2 "AT2G18160" [Arabidopsis thaliana (taxid:3702)]

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 67/142 (47%), Positives = 90/142 (63%)

Query:    30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIES 89
             +D+RKRKRM+SNRESARRSRMRKQKH+DDL AQ+ QL  DN QI+ S+ + +Q YM I++
Sbjct:    28 VDERKRKRMLSNRESARRSRMRKQKHVDDLTAQINQLSNDNRQILNSLTVTSQLYMKIQA 87

Query:    90 ENSVLRAQLGELTHRLHSLNEIISFLXXXXXXXXXXXXXXXXXXIFEATSMINEPAFD-- 147
             ENSVL AQ+ EL+ RL SLNEI+  +                   F+  ++  +  +D  
Sbjct:    88 ENSVLTAQMEELSTRLQSLNEIVDLVQSNGAGFGVDQIDGCG---FDDRTVGIDGYYDDM 144

Query:   148 NFMNPLN----LSYLNQPIMAS 165
             N M+ +N      Y NQPIMA+
Sbjct:   145 NMMSNVNHWGGSVYTNQPIMAN 166

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0005515 "protein binding" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

TAIR|locus:2096024 BZIP53 "AT3G62420" [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 1.2e-24, Sum P(2) = 1.2e-24
 Identities = 49/85 (57%), Positives = 65/85 (76%)

Query:    31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
             D+RKRKRMISNRESARRSRMRKQK L DL+ +V  L+ DN +I   ++ A++ Y+ +ES+
Sbjct:    23 DERKRKRMISNRESARRSRMRKQKQLGDLINEVTLLKNDNAKITEQVDEASKKYIEMESK 82

Query:    91 NSVLRAQLGELTHRLHSLNEIISFL 115
             N+VLRAQ  ELT RL SLN ++  +
Sbjct:    83 NNVLRAQASELTDRLRSLNSVLEMV 107

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IMP;IDA

GO:0005634 "nucleus" evidence=ISM

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

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:2000693 "positive regulation of seed maturation" evidence=IDA

GO:0009267 "cellular response to starvation" evidence=IEP

GO:0006623 "protein targeting to vacuole" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

UNIPROTKB|Q08418 lip19 "Basic/leucine zipper protein" [Oryza sativa (taxid:4530)]

 Score = 202 (76.2 bits), Expect = 2.9e-16, P = 2.9e-16
 Identities = 40/85 (47%), Positives = 59/85 (69%)

Query:    31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
             D+RKRKRM+SNRESARRSR RKQ+ L++L+A+ A+L+ +N ++   I         ++ E
Sbjct:    23 DERKRKRMLSNRESARRSRARKQQRLEELIAEAARLQAENARVEAQIGAYAGELSKVDGE 82

Query:    91 NSVLRAQLGELTHRLHSLNEIISFL 115
             N+VLRA+ GEL  RL +L  ++  L
Sbjct:    83 NAVLRARHGELAGRLQALGSVLEIL 107

GO:0005634 "nucleus" evidence=IDA

TAIR|locus:2143191 bZIP3 "AT5G15830" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 38/83 (45%), Positives = 62/83 (74%)

Query:    29 LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE 88
             ++++RK++RM+SNRESARRSRMRKQ+HLD+L++QVA LR +NHQ++  +N  + +   + 
Sbjct:    70 VINERKQRRMVSNRESARRSRMRKQRHLDELLSQVAWLRSENHQLLDKLNQVSDNNDLVI 129

Query:    89 SENSVLRAQLGELTHRLHSLNEI 111
              ENS L+ +  EL   + S+ ++
Sbjct:   130 QENSSLKEENLELRQVITSMKKL 152

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0019722 "calcium-mediated signaling" evidence=RCA

TAIR|locus:2009932 bZIP58 "AT1G13600" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 43/93 (46%), Positives = 67/93 (72%)

Query:    23 EESLQALM-DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSIN-IA 80
             E+  Q+++ D+RK++RMISNRESARRSRMRKQ+HLD+L +QV +LR DNH ++  +N ++
Sbjct:    75 EDHQQSMVIDERKQRRMISNRESARRSRMRKQRHLDELWSQVIRLRTDNHCLMDKLNRVS 134

Query:    81 TQHYMNIESENSVLRAQ---LGELTHRLHSLNE 110
               H + ++ EN+ L+ +   L +L   + S NE
Sbjct:   135 ESHELALK-ENAKLKEETSDLRQLISEIKSHNE 166

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

TAIR|locus:2092595 bZIP42 "AT3G30530" [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 36/73 (49%), Positives = 56/73 (76%)

Query:    29 LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE 88
             ++++RK++RMISNRESARRSRMRKQ+HLD+L +QV  LR +NHQ++  +N  ++ +  + 
Sbjct:    77 IINERKQRRMISNRESARRSRMRKQRHLDELWSQVMWLRIENHQLLDKLNNLSESHDKVL 136

Query:    89 SENSVLRAQLGEL 101
              EN+ L+ +  EL
Sbjct:   137 QENAQLKEETFEL 149

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

TAIR|locus:2827461 bZIP48 "AT2G04038" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 38/81 (46%), Positives = 59/81 (72%)

Query:    23 EESLQALM--DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIA 80
             E+  Q++M  D+RK++RM+SNRESARRSRMRKQ+HLD+L +QV +LR +N+ +I  +N  
Sbjct:    62 EDHHQSIMVLDERKQRRMLSNRESARRSRMRKQRHLDELWSQVIRLRNENNCLIDKLNRV 121

Query:    81 TQHYMNIESENSVLRAQLGEL 101
             ++    +  ENS L+ +  +L
Sbjct:   122 SETQNCVLKENSKLKEEASDL 142

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2166650 bZIP43 "AT5G38800" [Arabidopsis thaliana (taxid:3702)]

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 36/86 (41%), Positives = 57/86 (66%)

Query:    23 EESLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQ 82
             EE+ + ++++RK+KR ISNRESARRSRMRKQ+ +D+L +QV  LR +NHQ++  +N   +
Sbjct:    62 EENHKEIINERKQKRKISNRESARRSRMRKQRQVDELWSQVMWLRDENHQLLRKLNCVLE 121

Query:    83 HYMNIESENSVLRAQLGELTHRLHSL 108
                 +  EN  L+ +  EL   +  +
Sbjct:   122 SQEKVIEENVQLKEETTELKQMISDM 147

GO:0003677 "DNA binding" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

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

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0001041801 SubName- Full=Putative uncharacterized protein; (155 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	172
smart00338	65	smart00338, BRLZ, basic region leucin zipper	1e-15
pfam00170	64	pfam00170, bZIP_1, bZIP transcription factor	7e-08
pfam07716	54	pfam07716, bZIP_2, Basic region leucine zipper	4e-06

>gnl|CDD|197664 smart00338, BRLZ, basic region leucin zipper

 Score = 67.2 bits (165), Expect = 1e-15
 Identities = 21/63 (33%), Positives = 37/63 (58%)

Query: 31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
          D+++R+R   NRE+ARRSR RK+  +++L  +V QL  +N ++   I    +    ++SE
Sbjct: 3  DEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSE 62

Query: 91 NSV 93
             
Sbjct: 63 LEE 65

Length = 65

>gnl|CDD|201054 pfam00170, bZIP_1, bZIP transcription factor

 Score = 46.9 bits (112), Expect = 7e-08
 Identities = 18/60 (30%), Positives = 37/60 (61%)

Query: 33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS 92
          ++ +R   NRE+ARRSR+RK+ ++++L  +V +L  +N  + + +    +    ++SEN 
Sbjct: 5  KRERRRQKNREAARRSRLRKKAYIEELEEKVKELEAENKTLRSELERLKKECAKLKSENE 64

The Pfam entry includes the basic region and the leucine zipper region. Length = 64

>gnl|CDD|203738 pfam07716, bZIP_2, Basic region leucine zipper

 Score = 41.8 bits (99), Expect = 4e-06
 Identities = 15/47 (31%), Positives = 30/47 (63%), Gaps = 1/47 (2%)

Query: 31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSI 77
          D+ + +R   N E+ARRSR +K++  ++L  +V +L ++N Q+   +
Sbjct: 3  DEYRDRRR-RNNEAARRSREKKKQREEELEERVKELEEENAQLRQKV 48

Length = 54

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	172
smart00338	65	BRLZ basic region leucin zipper.	99.45
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	99.43
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	99.39
KOG4343	655	consensus bZIP transcription factor ATF6 [Transcri	99.25
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	99.18
KOG3584	348	consensus cAMP response element binding protein an	99.12
KOG0709	472	consensus CREB/ATF family transcription factor [Tr	98.79
PF03131	92	bZIP_Maf: bZIP Maf transcription factor; InterPro:	98.0
KOG0837	279	consensus Transcriptional activator of the JUN fam	97.95
KOG4571	294	consensus Activating transcription factor 4 [Trans	97.45
KOG3119	269	consensus Basic region leucine zipper transcriptio	97.42
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	97.03
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	96.8
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.67
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.57
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	96.51
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	96.51
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	96.46
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	96.43
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	96.42
PRK15422	79	septal ring assembly protein ZapB; Provisional	96.35
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	96.32
KOG3863	604	consensus bZIP transcription factor NRF1 [Transcri	96.16
PRK10884	206	SH3 domain-containing protein; Provisional	95.9
PRK13169	110	DNA replication intiation control protein YabA; Re	95.87
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	95.7
PRK13169	110	DNA replication intiation control protein YabA; Re	95.6
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	95.37
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	95.35
PF04899	70	MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 Th	95.16
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	95.12
COG4467	114	Regulator of replication initiation timing [Replic	95.04
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	94.86
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.81
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	94.7
PRK11637	428	AmiB activator; Provisional	94.54
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	94.52
PF14662	193	CCDC155: Coiled-coil region of CCDC155	94.44
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.07
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	94.0
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	93.91
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	93.91
COG4026	290	Uncharacterized protein containing TOPRIM domain,	93.9
KOG3119	269	consensus Basic region leucine zipper transcriptio	93.87
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	93.73
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	93.72
PRK10884	206	SH3 domain-containing protein; Provisional	93.3
PRK15422	79	septal ring assembly protein ZapB; Provisional	92.94
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	92.89
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	92.65
PRK11637	428	AmiB activator; Provisional	92.64
PF12808	52	Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2	92.54
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.46
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.43
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	92.41
PRK04406	75	hypothetical protein; Provisional	92.4
PRK09039	343	hypothetical protein; Validated	92.23
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	92.21
smart00338	65	BRLZ basic region leucin zipper.	92.13
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	91.74
PRK02119	73	hypothetical protein; Provisional	91.63
PRK04325	74	hypothetical protein; Provisional	91.52
COG4467	114	Regulator of replication initiation timing [Replic	91.44
TIGR00219	283	mreC rod shape-determining protein MreC. MreC (mur	91.37
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	91.37
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	91.36
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	91.23
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	91.21
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	91.2
PRK00888	105	ftsB cell division protein FtsB; Reviewed	90.9
PRK02793	72	phi X174 lysis protein; Provisional	90.9
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	90.74
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	90.7
PRK00846	77	hypothetical protein; Provisional	90.63
COG4942	420	Membrane-bound metallopeptidase [Cell division and	90.63
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	90.58
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	90.5
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	90.47
PRK00295	68	hypothetical protein; Provisional	90.39
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	90.29
PF15294	278	Leu_zip: Leucine zipper	90.28
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	90.17
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	90.16
PF14662	193	CCDC155: Coiled-coil region of CCDC155	89.86
KOG4571	294	consensus Activating transcription factor 4 [Trans	89.66
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	89.6
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	89.44
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	89.09
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	89.05
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	88.84
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	88.66
PF11180	192	DUF2968: Protein of unknown function (DUF2968); In	88.47
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	87.93
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	87.62
PRK00736	68	hypothetical protein; Provisional	87.48
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	87.32
PRK13922	276	rod shape-determining protein MreC; Provisional	87.23
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	87.19
PRK02119	73	hypothetical protein; Provisional	87.15
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	87.11
COG4026	290	Uncharacterized protein containing TOPRIM domain,	86.9
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	86.75
COG4942	420	Membrane-bound metallopeptidase [Cell division and	86.6
PRK09039	343	hypothetical protein; Validated	86.56
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	86.46
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	86.2
PRK10803	263	tol-pal system protein YbgF; Provisional	86.18
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	86.16
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	86.12
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	86.08
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	85.97
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	85.74
PRK00295	68	hypothetical protein; Provisional	85.5
PHA02562	562	46 endonuclease subunit; Provisional	85.39
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	85.18
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	85.08
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	85.06
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	85.03
smart00340	44	HALZ homeobox associated leucin zipper.	84.89
PRK00888	105	ftsB cell division protein FtsB; Reviewed	84.88
PRK02793	72	phi X174 lysis protein; Provisional	84.74
PF06632	342	XRCC4: DNA double-strand break repair and V(D)J re	84.74
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	84.69
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	84.61
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	84.56
COG2900	72	SlyX Uncharacterized protein conserved in bacteria	84.52
KOG1962	216	consensus B-cell receptor-associated protein and r	84.48
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	84.1
KOG1962	216	consensus B-cell receptor-associated protein and r	83.95
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	83.84
KOG3650	120	consensus Predicted coiled-coil protein [General f	83.79
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	83.74
KOG4797	123	consensus Transcriptional regulator [Transcription	83.59
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	83.54
PRK04406	75	hypothetical protein; Provisional	83.16
PRK04325	74	hypothetical protein; Provisional	83.11
PF07558	46	Shugoshin_N: Shugoshin N-terminal coiled-coil regi	82.73
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	82.63
PF10186	302	Atg14: UV radiation resistance protein and autopha	82.63
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	82.6
PRK00736	68	hypothetical protein; Provisional	82.49
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	82.37
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	82.36
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	82.22
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	82.2
PF10506	67	MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for U	82.06
PF05812	118	Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro:	81.92
KOG3433	203	consensus Protein involved in meiotic recombinatio	81.9
KOG1319	229	consensus bHLHZip transcription factor BIGMAX [Tra	81.81
KOG0288	459	consensus WD40 repeat protein TipD [General functi	81.79
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	81.79
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	81.73
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	81.72
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	81.7
PHA03162	135	hypothetical protein; Provisional	81.68
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	81.6
PF10482	120	CtIP_N: Tumour-suppressor protein CtIP N-terminal	81.53
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	81.36
PF07412	200	Geminin: Geminin; InterPro: IPR022786 This family	81.34
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	81.13
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	80.92
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	80.53
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	80.27
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	80.14
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	80.09

>smart00338 BRLZ basic region leucin zipper

Probab=99.45  E-value=7.3e-13  Score=91.17  Aligned_cols=62  Identities=34%  Similarity=0.516  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 044691           30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESEN   91 (172)
Q Consensus        30 ~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN   91 (172)
                      .|+|+.+|+++||+||++||.||+.|+.+|+.+|..|+.+|..|..++..|...+..|..+|
T Consensus         2 ~~~k~~rR~~rNR~aA~~~R~rKk~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~   63 (65)
T smart00338        2 EDEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL   63 (65)
T ss_pred             ccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35799999999999999999999999999999999999999999988877666655555444

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=99.43  E-value=2.4e-12  Score=110.15  Aligned_cols=83  Identities=18%  Similarity=0.307  Sum_probs=78.2

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        30 ~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      -|||-.||+++||.+|+-+|.|||+++++++.+|.+|..||+.|..++..|+.+.+.|..+|..|+.++.+|+..|..++
T Consensus        66 ~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~~  145 (292)
T KOG4005|consen   66 WEEKVQRRKLKNRVAAQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAELK  145 (292)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhH
Confidence            46788899999999999999999999999999999999999999999999999999999999999999999999988877


Q ss_pred             HHH
Q 044691          110 EII  112 (172)
Q Consensus       110 ~il  112 (172)
                      ..-
T Consensus       146 ~~~  148 (292)
T KOG4005|consen  146 QQQ  148 (292)
T ss_pred             HHH
Confidence            654

>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization

Probab=99.39  E-value=2.9e-12  Score=88.03  Aligned_cols=62  Identities=29%  Similarity=0.527  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS   92 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~   92 (172)
                      +.++.+|+++||+||++||.||+.++++|+.+|..|..+|..|..++..|...+..|..+|.
T Consensus         3 ~~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~~   64 (64)
T PF00170_consen    3 EDKRERRRERNREAARRSRQRKKQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSENH   64 (64)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            35788999999999999999999999999999999999999999999999888888888773

; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....

>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]

Probab=99.25  E-value=1.2e-11  Score=115.22  Aligned_cols=65  Identities=31%  Similarity=0.400  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRA   96 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRa   96 (172)
                      -||..|||+|||||..||+|||+|+..||+++..|.+||+.|+.++..|++++..+++||.+|+-
T Consensus       280 ~krqQRmIKNResA~~SRkKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~En~~~kv  344 (655)
T KOG4343|consen  280 LKRQQRMIKNRESACQSRKKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVSENQRLKV  344 (655)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhcCccccc
Confidence            47788999999999999999999999999999999999999999999999999999999999964

>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization

Probab=99.18  E-value=2.1e-10  Score=76.71  Aligned_cols=51  Identities=33%  Similarity=0.567  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      |+++.||. +||+||++||.||++++.+|+.+|..|..+|..|..++..|..
T Consensus         3 ~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L~~   53 (54)
T PF07716_consen    3 EEKRERRE-RNREAARRSRQRKKQREEELEQEVQELEEENEQLRQEIAQLER   53 (54)
T ss_dssp             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            46777787 9999999999999999999999999999999999888776653

; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....

>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]

Probab=99.12  E-value=1.9e-10  Score=100.78  Aligned_cols=55  Identities=27%  Similarity=0.483  Sum_probs=51.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMN   86 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~   86 (172)
                      .||+-|+++|||+||.+|+|||+|+..||.+|+.|+.+|..|..++..|++.|-.
T Consensus       290 rKRevRLmKNREAARECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLYc~  344 (348)
T KOG3584|consen  290 RKREVRLMKNREAARECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELYCH  344 (348)
T ss_pred             hHHHHHHHhhHHHHHHHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHHHhhc
Confidence            5788899999999999999999999999999999999999999999998887743

>KOG0709 consensus CREB/ATF family transcription factor [Transcription]

Probab=98.79  E-value=1.3e-08  Score=93.71  Aligned_cols=68  Identities=28%  Similarity=0.420  Sum_probs=58.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      -||-||+|+|.+||+.||+|||.|++.||.+|....+||++|.+++..       |+.+|.-|-+|+..|+..+.
T Consensus       250 LKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~-------Le~~N~sLl~qL~klQt~v~  317 (472)
T KOG0709|consen  250 LKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEE-------LELSNRSLLAQLKKLQTLVI  317 (472)
T ss_pred             HHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHH-------HhhccHHHHHHHHHHHHHHh
Confidence            467789999999999999999999999999999999999999887765       56677777777777765543

>PF03131 bZIP_Maf: bZIP Maf transcription factor; InterPro: IPR004826 There are several different types of Maf transcription factors with different roles in the cell

Probab=98.00  E-value=9.8e-08  Score=70.12  Aligned_cols=52  Identities=25%  Similarity=0.456  Sum_probs=42.5

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        30 ~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      .+-|..||.++||.+|++||.||..++++|+.++..|+.+...|..++..+.
T Consensus        27 ~~lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~~l~~~~~~L~~e~~~l~   78 (92)
T PF03131_consen   27 AELKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIEQLRQEIEQLQQELSELR   78 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4458889999999999999999999999999999988776666655444443

MafG and MafH are small Mafs which lack a putative transactivation domain. They behave as transcriptional repressors when they dimerize among themselves. However they also serve as transcriptional activators by dimerizing with other (usually larger) basic-zipper proteins and recruiting them to specific DNA-binding sites. Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerization and DNA binding property. Neural retina-specific leucine zipper proteins also belong to this family. Together with the basic region, the Maf extended homology region (EHR), conserved only within the Maf family, defines the DNA binding specific to Mafs. This structure enables Mafs to make a broader area of contact with DNA and to recognise longer DNA sequences. In particular, the two residues at the beginning of helix H2 are positioned to recognise the flanking region []. Small Maf proteins heterodimerize with Fos and may act as competitive repressors of the NF2-E2 transcription factor. In mouse, Maf1 may play an early role in axial patterning. Defects in these proteins are a cause of autosomal dominant retinitis pigmentosa. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2KZ5_A 3A5T_A 1K1V_A 1SKN_P 2WT7_B 2WTY_B.

>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]

Probab=97.95  E-value=4.5e-05  Score=66.33  Aligned_cols=42  Identities=26%  Similarity=0.447  Sum_probs=37.1

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 044691           37 RMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSIN   78 (172)
Q Consensus        37 R~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~   78 (172)
                      ..++||++|.+||.||-+|+..||.+|..|..+|..|...+.
T Consensus       210 krlrnreaa~Kcr~rkLdrisrLEdkv~~lk~~n~~L~~~l~  251 (279)
T KOG0837|consen  210 KRLRNREAASKCRKRKLDRISRLEDKVKTLKIYNRDLASELS  251 (279)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHH
Confidence            368999999999999999999999999999988888765543

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=97.45  E-value=0.0014  Score=57.77  Aligned_cols=50  Identities=22%  Similarity=0.357  Sum_probs=36.2

Q ss_pred             hHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 044691           30 MDQRKRKR-MISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINI   79 (172)
Q Consensus        30 ~deRr~rR-~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~   79 (172)
                      .++++.+| .+.|..+|-|.|+||+...++|+.++..|+++|.+|+.++..
T Consensus       223 ~~~~~~~rkr~qnk~AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~  273 (294)
T KOG4571|consen  223 TPEKKLRRKRQQNKAAATRYRQKKRAEKEALLGELEGLEKRNEELKDQASE  273 (294)
T ss_pred             CchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444 456666799999999999999999988887666665554433

>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]

Probab=97.42  E-value=0.0008  Score=58.27  Aligned_cols=66  Identities=32%  Similarity=0.490  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        30 ~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      .+.+-..|..+|=+++||||.+.++..++...+|..|                     +.||..||.++..|+..|..|.
T Consensus       191 ~~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~l---------------------eken~~lr~~v~~l~~el~~~~  249 (269)
T KOG3119|consen  191 KDPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAEL---------------------EKENEALRTQVEQLKKELATLR  249 (269)
T ss_pred             CCHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455567899999999999999887666666665                     4666677777777777777777


Q ss_pred             HHHHHHh
Q 044691          110 EIISFLD  116 (172)
Q Consensus       110 ~il~~~~  116 (172)
                      .++....
T Consensus       250 ~~~~~~~  256 (269)
T KOG3119|consen  250 RLFLQLP  256 (269)
T ss_pred             HHHHhhc
Confidence            7775544

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=97.03  E-value=0.011  Score=46.86  Aligned_cols=67  Identities=24%  Similarity=0.422  Sum_probs=52.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      -|.+||-++||==|.-+|-|+.+.-++||.+-..|..+              ...|..||+.++.++..+..++..|..-
T Consensus        52 lKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qq--------------v~~L~~e~s~~~~E~da~k~k~e~l~~~  117 (135)
T KOG4196|consen   52 LKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQ--------------VEKLKEENSRLRRELDAYKSKYEALQNS  117 (135)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            47778999999999999999999888888777666544              3445567888888888888887766554


Q ss_pred             H
Q 044691          112 I  112 (172)
Q Consensus       112 l  112 (172)
                      +
T Consensus       118 ~  118 (135)
T KOG4196|consen  118 A  118 (135)
T ss_pred             h
Confidence            4

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.80  E-value=0.01  Score=42.73  Aligned_cols=56  Identities=20%  Similarity=0.305  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      +.=|.-+|..|+.+|..|..+...+.+....|+.||..|+.+....+.||++|-.-
T Consensus        20 I~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsLLGk   75 (79)
T COG3074          20 ITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRALLGK   75 (79)
T ss_pred             HHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34467788999999999999999999999999999999999999999999988543

>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=96.67  E-value=0.043  Score=39.11  Aligned_cols=57  Identities=21%  Similarity=0.270  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHH-------HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQL-------RKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        55 ~leeLe~qv~~L-------~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      -++.|+.+|..+       +.++..|..+...+.+....|..||..|+.+-.....||..|-.-
T Consensus         5 ~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~k   68 (72)
T PF06005_consen    5 LLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLGK   68 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345566665554       555555555555555556666666666666666666666655443

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.

>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=96.57  E-value=0.064  Score=38.24  Aligned_cols=27  Identities=15%  Similarity=0.263  Sum_probs=11.8

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 044691           64 AQLRKDNHQIITSINIATQHYMNIESE   90 (172)
Q Consensus        64 ~~L~~EN~~L~~~l~~l~q~~~~le~E   90 (172)
                      .+|+...+.+...|..|+.....|..+
T Consensus         7 ~~LE~ki~~aveti~~Lq~e~eeLke~   33 (72)
T PF06005_consen    7 EQLEEKIQQAVETIALLQMENEELKEK   33 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444

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.

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=96.51  E-value=0.054  Score=38.12  Aligned_cols=60  Identities=15%  Similarity=0.151  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      +..|+.+|.+|-..-.+|..++..|.++...+..|+..|..+...-+.|+..+-+-+..+
T Consensus         2 L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk~l   61 (65)
T TIGR02449         2 LQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLKAL   61 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            344555555555555555555555555555666666666666666666665555544443

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=96.51  E-value=0.034  Score=39.17  Aligned_cols=56  Identities=14%  Similarity=0.290  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      ..++.|-....+|+.||..|+.++..+...-..|...|..=|.++..+-.||.+|+
T Consensus         7 ~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk~le   62 (65)
T TIGR02449         7 AQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLKALE   62 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            46788889999999999999999999999999999999999999999999998875

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=96.46  E-value=0.049  Score=39.04  Aligned_cols=62  Identities=18%  Similarity=0.309  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMN--------IESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~--------le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      +.+.+.++..|++||-.|.-+|-.+.++...        +..+|-.|+.++..|+..|+.+...|..++.
T Consensus         2 lrEqe~~i~~L~KENF~LKLrI~fLee~l~~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~~   71 (75)
T PF07989_consen    2 LREQEEQIDKLKKENFNLKLRIYFLEERLQKLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEAEK   71 (75)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4578999999999999999999999888864        5789999999999999999999998876653

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=96.43  E-value=0.014  Score=38.15  Aligned_cols=42  Identities=31%  Similarity=0.484  Sum_probs=33.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           65 QLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        65 ~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      +|+.+-..|+.....|...+..|..||..|++++..|..+++
T Consensus         2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~   43 (45)
T PF02183_consen    2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQ   43 (45)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            566777777888888888888888888888888888887764

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=96.42  E-value=0.05  Score=44.47  Aligned_cols=56  Identities=18%  Similarity=0.248  Sum_probs=51.5

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           62 QVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        62 qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      ....++.||..|..++..|.+++..|+.||..|..++..+....+.|-.|++....
T Consensus        98 ~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARk  153 (161)
T TIGR02894        98 SDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARK  153 (161)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46778889999999999999999999999999999999999999999999987754

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=96.35  E-value=0.035  Score=40.54  Aligned_cols=56  Identities=21%  Similarity=0.319  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .=|.-+|..|+.+|..|..++..+......|+.||..|+.+......||++|-.-+
T Consensus        21 ~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLGkm   76 (79)
T PRK15422         21 TLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGRM   76 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34566777777777777777777777778899999999999999999988876544

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

Probab=96.32  E-value=0.033  Score=42.44  Aligned_cols=53  Identities=23%  Similarity=0.379  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      +|-.++..|+..-..|..++..|+.+...|..||..|+.+-..|+.+|..+..
T Consensus         5 ~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    5 ELFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45566667777777777777777888888888888888888888888877665

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

>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]

Probab=96.16  E-value=0.013  Score=56.14  Aligned_cols=72  Identities=26%  Similarity=0.410  Sum_probs=53.8

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           36 KRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        36 rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      ||.=+||.||+++|.||-..+..||.+|..|+++..+|..+-.       .+..+-.+++.++.+|.      .+|+..+
T Consensus       493 RRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~-------~~d~~L~~~kqqls~L~------~~Vf~~l  559 (604)
T KOG3863|consen  493 RRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERD-------ELDSTLGVMKQQLSELY------QEVFQQL  559 (604)
T ss_pred             ccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH------HHHHHHH
Confidence            5778999999999999999999999999999999888876433       23444555666666663      4555666


Q ss_pred             hhcCC
Q 044691          116 DASNN  120 (172)
Q Consensus       116 ~~~~g  120 (172)
                      ....|
T Consensus       560 rd~eg  564 (604)
T KOG3863|consen  560 RDEEG  564 (604)
T ss_pred             hcccc
Confidence            54444

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.90  E-value=0.16  Score=42.68  Aligned_cols=63  Identities=11%  Similarity=0.171  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           54 KHLDDLMAQVAQLRKD----NHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        54 ~~leeLe~qv~~L~~E----N~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      +.+++|+.+++.+..+    ..++...+....+....|+.||..|+.++..++.++..|+..++.++
T Consensus       100 ~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884        100 NQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444332    33344445555556666777777777777777777666655555443

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=95.87  E-value=0.072  Score=40.92  Aligned_cols=51  Identities=18%  Similarity=0.364  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      +|=.++..|+..-..|..++..|++....|..||..|+.+-..|+.+|..+
T Consensus         5 elfd~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          5 EIFDALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344566666666666677777777777777777777777777777777765

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

Probab=95.70  E-value=0.077  Score=40.45  Aligned_cols=50  Identities=26%  Similarity=0.359  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ..+..|+.++..|-.+-..|+..+..+.+.-..|..||..||..+.++..
T Consensus         8 ~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    8 DRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            46788999999999999999999999999999999999999999998865

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

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=95.60  E-value=0.085  Score=40.54  Aligned_cols=49  Identities=27%  Similarity=0.313  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      ..+..|+.++..+-.+-..|+..+..+.+.-..|..||..||..+.++.
T Consensus         8 d~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~   56 (110)
T PRK13169          8 DALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEELE   56 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4578899999999999999999999999999999999999999999984

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=95.37  E-value=1.3  Score=38.89  Aligned_cols=91  Identities=23%  Similarity=0.318  Sum_probs=68.3

Q ss_pred             hhhHHHHHHHHHH-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           28 ALMDQRKRKRMIS-----NRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        28 ~~~deRr~rR~ls-----NRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      ..++.||.|-...     .|.-||-+.+  ...+.||+.+-..|+.||..|+.....|--+.+++..+-..|+.++++|.
T Consensus        68 EK~~RrKLKNRVAAQtaRDrKKaRm~em--e~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~~  145 (292)
T KOG4005|consen   68 EKVQRRKLKNRVAAQTARDRKKARMEEM--EYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAELK  145 (292)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhH
Confidence            5566777774332     3333333222  24577899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCC
Q 044691          103 HRLHSLNEIISFLDASNN  120 (172)
Q Consensus       103 ~rL~~l~~il~~~~~~~g  120 (172)
                      +....-+.+++.-..+.|
T Consensus       146 ~~~~~~~~v~eee~~~~g  163 (292)
T KOG4005|consen  146 QQQQHNTRVIEEENASAG  163 (292)
T ss_pred             HHHHHhhHHHhhhhhccC
Confidence            988888888766554444

>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=95.35  E-value=0.53  Score=45.05  Aligned_cols=84  Identities=19%  Similarity=0.298  Sum_probs=71.0

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +.+..+++-..........-+.+++.|+.++...+.++..|..+...+......+..|+..|..+..+++.++..|.+-+
T Consensus       150 kE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~LEedi  229 (546)
T PF07888_consen  150 KEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIRELEEDI  229 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455777777777777778888889999999999999999999999999999999999999999999999999988887


Q ss_pred             HHHh
Q 044691          113 SFLD  116 (172)
Q Consensus       113 ~~~~  116 (172)
                      ..+.
T Consensus       230 ~~l~  233 (546)
T PF07888_consen  230 KTLT  233 (546)
T ss_pred             HHHH
Confidence            7654

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 [].

>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=95.16  E-value=0.51  Score=33.59  Aligned_cols=59  Identities=19%  Similarity=0.252  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .|+.--....+.-+.....+..+...+.....+|+.|++++..|..++..|++-++++.
T Consensus        11 ale~Lq~~y~~q~~~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~~Ls~ql~rLs   69 (70)
T PF04899_consen   11 ALEELQQSYEKQQQEWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQRLSEQLERLS   69 (70)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            33333344555666777788888888888899999999999999999999999998764

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

Probab=95.12  E-value=1.3  Score=39.44  Aligned_cols=86  Identities=21%  Similarity=0.267  Sum_probs=58.4

Q ss_pred             hhhHHHHHHHHHHhHHHHHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           28 ALMDQRKRKRMISNRESARRSRMR--KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        28 ~~~deRr~rR~lsNRESARRSR~R--Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      ...++|-+|=|++|-.   -==.|  =.-.++-|..++..|+.....+..++......+..+......|+.++.+|+..|
T Consensus        87 ~evEekyrkAMv~naQ---LDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L  163 (302)
T PF09738_consen   87 AEVEEKYRKAMVSNAQ---LDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQL  163 (302)
T ss_pred             HHHHHHHHHHHHHHhh---hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4678999999999942   21111  223455566666666666666666666666666667777788888888888888


Q ss_pred             HHHHHHHHHHh
Q 044691          106 HSLNEIISFLD  116 (172)
Q Consensus       106 ~~l~~il~~~~  116 (172)
                      ....++|..+.
T Consensus       164 ~~rdeli~khG  174 (302)
T PF09738_consen  164 KQRDELIEKHG  174 (302)
T ss_pred             HHHHHHHHHCC
Confidence            88888886543

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

>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]

Probab=95.04  E-value=0.15  Score=39.41  Aligned_cols=49  Identities=24%  Similarity=0.340  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      +=.+|..|+.....|.+++..+++++..+..||..|+-+...|+.||..
T Consensus         6 iFd~v~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~   54 (114)
T COG4467           6 IFDQVDNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE   54 (114)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence            3456677777777788888899999999999999999999999999987

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=94.86  E-value=0.44  Score=33.64  Aligned_cols=56  Identities=20%  Similarity=0.253  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      +.+++.+..+++....+|..|..+-.....++...-.+|..|++++..|+..|..+
T Consensus        11 r~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~   66 (69)
T PF14197_consen   11 RNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEEL   66 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566666666666666666666666666666666666666666666666665543

>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=94.81  E-value=0.78  Score=35.82  Aligned_cols=82  Identities=17%  Similarity=0.261  Sum_probs=61.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           34 KRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        34 r~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      .+.|=..-||..-....++...++.|...+..|+.++..+..++..+......+..++..+...+..+.+.++.+...+.
T Consensus        46 ~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~  125 (151)
T PF11559_consen   46 QRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQ  125 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666777777777788888888888888888888888888888888888777777777777777777777666665


Q ss_pred             HH
Q 044691          114 FL  115 (172)
Q Consensus       114 ~~  115 (172)
                      .+
T Consensus       126 ~~  127 (151)
T PF11559_consen  126 QR  127 (151)
T ss_pred             HH
Confidence            44

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.

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=94.70  E-value=0.12  Score=48.63  Aligned_cols=51  Identities=14%  Similarity=0.173  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      -|..+++||++++.|+.|.+.+.++...+++++..++.||..|++++..+.
T Consensus        74 qQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~  124 (475)
T PRK13729         74 MQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALG  124 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence            345788999999999999999999999999999999999999999984433

>PRK11637 AmiB activator; Provisional

Probab=94.54  E-value=1.4  Score=40.07  Aligned_cols=64  Identities=13%  Similarity=0.213  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      ...+..+.+++.++..|..+...+..++..+.+++..++.+=..|..++.++..+|..+...+.
T Consensus        64 ~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~  127 (428)
T PRK11637         64 RQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455556666666666666666666666666666666666666666666666665555553

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

Probab=94.52  E-value=1.3  Score=36.23  Aligned_cols=33  Identities=18%  Similarity=0.259  Sum_probs=13.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           63 VAQLRKDNHQIITSINIATQHYMNIESENSVLR   95 (172)
Q Consensus        63 v~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LR   95 (172)
                      +..|..|...|.-+++.+..++..|+.||..|-
T Consensus       146 ~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv  178 (194)
T PF08614_consen  146 NEILQDELQALQLQLNMLEEKLRKLEEENRELV  178 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333344444444444444443

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.

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=94.44  E-value=0.35  Score=40.61  Aligned_cols=62  Identities=21%  Similarity=0.298  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      ..+|-..|..|+.-|..|..++..+......++..|+.|..++..|+..++++...+...+.
T Consensus         3 t~dL~~~v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK~   64 (193)
T PF14662_consen    3 TSDLLSCVEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAKA   64 (193)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35777788888888888888888888888888888888888888888888888777766644

>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=94.07  E-value=2.2  Score=33.22  Aligned_cols=66  Identities=20%  Similarity=0.310  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           48 SRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        48 SR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      +|.|-..+.++|..++..+..++..|...+..|+.++..++.+...+..+...|..+++.+...+.
T Consensus        46 ~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k  111 (151)
T PF11559_consen   46 QRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLK  111 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555666666666666666666666666666666666666555555555555555444443

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.

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

Probab=94.00  E-value=0.86  Score=34.29  Aligned_cols=64  Identities=19%  Similarity=0.346  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIA--TQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l--~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      |+..++.|..++......-..+..++..+  ...++.|..+=..++.++..+..+++.++.++..+
T Consensus        33 ~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   33 KREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            45666677666666666666666677666  77778888888888888888888888888888766

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

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

Probab=93.91  E-value=0.4  Score=43.69  Aligned_cols=63  Identities=21%  Similarity=0.295  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           48 SRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        48 SR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      -=+|-+.+...||.-+.+++.||+.|..+++.+.+.+.+.+.|+..|..+++|-.+..+.|++
T Consensus       121 vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~  183 (401)
T PF06785_consen  121 VFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQELND  183 (401)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            335566677778888888899999999999999999999999988887777666555555543

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=93.91  E-value=0.33  Score=31.64  Aligned_cols=41  Identities=17%  Similarity=0.293  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           72 QIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        72 ~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +|......|+..|..|.++|..|..+...|+..+..|...+
T Consensus         2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl   42 (45)
T PF02183_consen    2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKL   42 (45)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            46778889999999999999999999999999999988765

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

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

Probab=93.90  E-value=0.92  Score=39.53  Aligned_cols=62  Identities=19%  Similarity=0.257  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      =+..++++.++...|..++..|..++..++.++..++.||+.|......|-.++..|..-+.
T Consensus       140 ~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~  201 (290)
T COG4026         140 LKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWD  201 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHH
Confidence            34557777788888888888888888888999999999999998766665554444444333

>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]

Probab=93.87  E-value=0.6  Score=40.49  Aligned_cols=33  Identities=12%  Similarity=0.161  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      ..-+.++..|+.+-..|+.++.+|..++..++.
T Consensus       218 ~e~~~r~~~leken~~lr~~v~~l~~el~~~~~  250 (269)
T KOG3119|consen  218 DEMAHRVAELEKENEALRTQVEQLKKELATLRR  250 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445556666666666655555555544433

>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=93.73  E-value=1.2  Score=31.63  Aligned_cols=62  Identities=24%  Similarity=0.363  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      |...+..|..+-..|......+...|..|+.+...++.+...|+.++..+...+..|.+.+.
T Consensus        10 KDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~   71 (74)
T PF12329_consen   10 KDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLK   71 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            56677777777777777777777777777777777777777777777777777777776654

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.

>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=93.72  E-value=0.63  Score=33.93  Aligned_cols=45  Identities=20%  Similarity=0.412  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGEL  101 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL  101 (172)
                      ++|..++..|+..-..|..++...+..+.+|..||..|..-+..|
T Consensus        19 ~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nL   63 (80)
T PF10224_consen   19 EELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNL   63 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666777777777777777777777777777777766665555

The exact function is unknown.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.30  E-value=2.5  Score=35.49  Aligned_cols=52  Identities=10%  Similarity=0.091  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      ++..+|..+++++..+...|..++..|.+++..+..|+..|++++..+.+..
T Consensus       118 ~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~  169 (206)
T PRK10884        118 QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI  169 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444455555555555555554433

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=92.94  E-value=2  Score=31.43  Aligned_cols=61  Identities=18%  Similarity=0.091  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      -++.||++|.+.-....-|.-++..++++-..+..|+..++..-.+|..+-..|..--..|
T Consensus         5 vleqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~W   65 (79)
T PRK15422          5 VFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGW   65 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            4788999999888888888888888888888888887775555555555555444444333

>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=92.89  E-value=2.1  Score=33.30  Aligned_cols=19  Identities=32%  Similarity=0.394  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 044691           91 NSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        91 N~~LRaq~~eL~~rL~~l~  109 (172)
                      ...|+.++.+|..|...+-
T Consensus        70 ~~~L~~el~~l~~ry~t~L   88 (120)
T PF12325_consen   70 VEELEQELEELQQRYQTLL   88 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444333

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 [].

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

Probab=92.65  E-value=5.7  Score=34.38  Aligned_cols=47  Identities=26%  Similarity=0.269  Sum_probs=32.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           35 RKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        35 ~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      .+.+..-.+.+++.=.-++..+++|+.+|.+++.+.+.+..++..+.
T Consensus        33 l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e   79 (239)
T COG1579          33 LKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAE   79 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555556666666677777888888888888777777766666554

>PRK11637 AmiB activator; Provisional

Probab=92.64  E-value=3.3  Score=37.61  Aligned_cols=75  Identities=9%  Similarity=0.077  Sum_probs=55.2

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           38 MISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        38 ~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ..+.....+.....-...+..|+.++..+..+...+..++..+..+...++.+=..+++++..+...|..+-..+
T Consensus        59 ~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~  133 (428)
T PRK11637         59 KEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDAA  133 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555556677888888888888888888888888888888888888888888888777776654444

>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi

Probab=92.54  E-value=0.39  Score=32.45  Aligned_cols=50  Identities=24%  Similarity=0.294  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      |++.+|++|+.++..=+   ..=...-......+..++.||..|++++.-++.
T Consensus         1 kw~~Rl~ELe~klkaer---E~R~~d~~~a~~rl~~l~~EN~~Lr~eL~~~r~   50 (52)
T PF12808_consen    1 KWLLRLEELERKLKAER---EARSLDRSAARKRLSKLEGENRLLRAELERLRS   50 (52)
T ss_pred             CHHHHHHHHHHHHHHhH---HhccCCchhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            35667777777655432   222223345667788889999999999886653

In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].

>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=92.46  E-value=0.87  Score=36.25  Aligned_cols=27  Identities=30%  Similarity=0.459  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           91 NSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        91 N~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      |..|+.++.+|...+..+..-+..+..
T Consensus       111 ~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen  111 NEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            445555555555555555555555554

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 [].

>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=92.43  E-value=1.9  Score=34.32  Aligned_cols=55  Identities=18%  Similarity=0.338  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHY--MNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~--~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      +.+|..++..|+.++..|..++..|....  ..+..+...|+.++..|..+|..|.+
T Consensus        81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   81 IKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444444444444444443222  34445555555555555555555544

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 [].

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

Probab=92.41  E-value=3.2  Score=40.80  Aligned_cols=43  Identities=16%  Similarity=0.197  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRA   96 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRa   96 (172)
                      +.-+-+..+..+|+.|-..|+.++...++++..++.|...||.
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            3334455556666666666666666666666666666655554

; GO: 0016021 integral to membrane

>PRK04406 hypothetical protein; Provisional

Probab=92.40  E-value=1.9  Score=30.88  Aligned_cols=51  Identities=8%  Similarity=0.060  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      .++.++..|+.........|..|......-..+-..|+.++..|..+|+.+
T Consensus         8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~   58 (75)
T PRK04406          8 QLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNM   58 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455555555555555555555555554555555566666666666666553

>PRK09039 hypothetical protein; Validated

Probab=92.23  E-value=3.2  Score=37.19  Aligned_cols=46  Identities=15%  Similarity=0.177  Sum_probs=23.2

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           63 VAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        63 v~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      |..|+.+...|+.++..+...+..++.+....+.++.+|..+|...
T Consensus       139 V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        139 VELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444555555555555555555555544

>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=92.21  E-value=2.1  Score=38.43  Aligned_cols=50  Identities=14%  Similarity=0.308  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      ++|...+..|+.+|..|+.++...+.++..|..+|..||.....+..+..
T Consensus        23 ~~l~~~~~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr~~sv~~~~~aE   72 (310)
T PF09755_consen   23 EQLRKRIESLQQENRVLKRELETEKARCKHLQEENRALREASVRIQAKAE   72 (310)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556666666666666666666666666666666666666655555444

>smart00338 BRLZ basic region leucin zipper

Probab=92.13  E-value=0.83  Score=30.96  Aligned_cols=38  Identities=21%  Similarity=0.346  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           75 TSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        75 ~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ..+..|..+...|+.+|..|+.++..|...+..|..++
T Consensus        26 ~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~   63 (65)
T smart00338       26 AEIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL   63 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35667777888888889999988888888888887765

>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=91.74  E-value=5.7  Score=31.70  Aligned_cols=85  Identities=14%  Similarity=0.193  Sum_probs=56.5

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      +|-..-...|++.+-.--.-+++.+..|+.++..+..+...|...+..++..-..|..+=...+.++.+|-....++...
T Consensus        30 EreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~  109 (140)
T PF10473_consen   30 ERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLNSSLENL  109 (140)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            45555667777777777777777777777777777777777777776666655555555555566666666555555555


Q ss_pred             HHHHh
Q 044691          112 ISFLD  116 (172)
Q Consensus       112 l~~~~  116 (172)
                      |...+
T Consensus       110 l~~~E  114 (140)
T PF10473_consen  110 LQEKE  114 (140)
T ss_pred             HHHHH
Confidence            55443

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

>PRK02119 hypothetical protein; Provisional

Probab=91.63  E-value=2.4  Score=30.08  Aligned_cols=50  Identities=14%  Similarity=0.137  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      .++.++..|+.........+..|......-..+-..|+.++..|..+|+.
T Consensus         6 ~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~   55 (73)
T PRK02119          6 NLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKD   55 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444444444344444445556666655555554

>PRK04325 hypothetical protein; Provisional

Probab=91.52  E-value=2  Score=30.56  Aligned_cols=45  Identities=18%  Similarity=0.147  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      +.+||.+++-++.-...|.       .....-..+-..|+.++..|..||+.
T Consensus        11 i~~LE~klAfQE~tIe~LN-------~vv~~Qq~~I~~L~~ql~~L~~rl~~   55 (74)
T PRK04325         11 ITELEIQLAFQEDLIDGLN-------ATVARQQQTLDLLQAQLRLLYQQMRD   55 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555554444443       33333333445555555555555554

>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]

Probab=91.44  E-value=0.75  Score=35.62  Aligned_cols=47  Identities=23%  Similarity=0.331  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGE  100 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~e  100 (172)
                      ..+.+|+.++-.|-++...|++.+..+.+....|.-||..||.++.+
T Consensus         8 d~v~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~   54 (114)
T COG4467           8 DQVDNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE   54 (114)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence            35788999999999999999999999999999999999999999988

>TIGR00219 mreC rod shape-determining protein MreC

Probab=91.37  E-value=0.58  Score=40.81  Aligned_cols=35  Identities=26%  Similarity=0.327  Sum_probs=20.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Q 044691           62 QVAQLRKDNHQIITSINIATQHYM----NIESENSVLRA   96 (172)
Q Consensus        62 qv~~L~~EN~~L~~~l~~l~q~~~----~le~EN~~LRa   96 (172)
                      .+.+|..||.+|+.++..+.+++.    .++.||..||+
T Consensus        67 ~~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~  105 (283)
T TIGR00219        67 DVNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRE  105 (283)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566777777776655533332    25566666655

MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=91.37  E-value=1.8  Score=40.80  Aligned_cols=61  Identities=20%  Similarity=0.328  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMN-IESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~-le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .+..|..+-+.|.+||+.|+++...+.++... |..+...|..+...|...++.+..++..+
T Consensus        74 ~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l  135 (472)
T TIGR03752        74 RLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQL  135 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35567777778888888887776666655543 33556666666655555555554444333

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.

>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=91.36  E-value=5.7  Score=33.56  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSIN   78 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~   78 (172)
                      ++.+..+...|..+...|..++.
T Consensus        44 id~~~~e~~~L~~e~~~l~~e~e   66 (251)
T PF11932_consen   44 IDQWDDEKQELLAEYRQLEREIE   66 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333343443333333333333

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.

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

Probab=91.23  E-value=2.8  Score=34.21  Aligned_cols=41  Identities=20%  Similarity=0.281  Sum_probs=15.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           62 QVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        62 qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      .+..|+.++..|..++..+...+.....-|..|+.++..|.
T Consensus       117 ~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~  157 (194)
T PF08614_consen  117 RLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQ  157 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333

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.

>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=91.21  E-value=3.4  Score=30.11  Aligned_cols=64  Identities=14%  Similarity=0.210  Sum_probs=49.8

Q ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           53 QKHLDDLMAQ-VAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        53 q~~leeLe~q-v~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      ...++.++.+ -..|..+-..|+..+..|..++..+..||..|+.+-.-|+.-+..|-.--.++.
T Consensus         7 ~~d~e~~~~e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~s~v~~   71 (80)
T PF10224_consen    7 SEDIEKLEKEEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMSSSSVFQ   71 (80)
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            3445555543 678888899999999999999999999999999999999888888755444433

The exact function is unknown.

>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization

Probab=91.20  E-value=1.5  Score=29.67  Aligned_cols=39  Identities=26%  Similarity=0.301  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ...+..|...+..|+.+|..|+.++..|...+..|...+
T Consensus        25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~   63 (64)
T PF00170_consen   25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSEN   63 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            445667777778888888888888888888887776543

; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=90.90  E-value=1.2  Score=33.64  Aligned_cols=43  Identities=14%  Similarity=0.222  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           71 HQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        71 ~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      ..+..++..++++...+..+|..|+.++..|+.....+.+++.
T Consensus        30 ~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR   72 (105)
T PRK00888         30 WRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERAR   72 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHH
Confidence            3444555555555556667788888888888775555665554

>PRK02793 phi X174 lysis protein; Provisional

Probab=90.90  E-value=2.4  Score=29.93  Aligned_cols=47  Identities=23%  Similarity=0.244  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      +++.+||.+++-.+.-...|       ..-...-..+-..|+.++..|..+|+.
T Consensus         8 ~Ri~~LE~~lafQe~tIe~L-------n~~v~~Qq~~I~~L~~~l~~L~~rl~~   54 (72)
T PRK02793          8 ARLAELESRLAFQEITIEEL-------NVTVTAHEMEMAKLRDHLRLLTEKLKA   54 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555555555554444433       333333334445555555555555544

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

Probab=90.74  E-value=4.2  Score=32.17  Aligned_cols=20  Identities=40%  Similarity=0.451  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHhHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSIN   78 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~   78 (172)
                      ++.++..|..++..+..+|.
T Consensus        19 ~e~~~K~le~~~~~~E~EI~   38 (143)
T PF12718_consen   19 LEAKVKQLEQENEQKEQEIT   38 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

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 [].

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

Probab=90.70  E-value=3.4  Score=36.43  Aligned_cols=59  Identities=15%  Similarity=0.192  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ..+..|..++..+..+....+..+..++.+...+..+-..+.++..++...+..+..++
T Consensus       209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~  267 (325)
T PF08317_consen  209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIR  267 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555666666666666655555555555555555555555555555555555554444

>PRK00846 hypothetical protein; Provisional

Probab=90.63  E-value=2.9  Score=30.31  Aligned_cols=52  Identities=10%  Similarity=0.059  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      +++.++..|+.........|..|.+.......+...|+.++..|..||+.+.
T Consensus        10 ~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846         10 ALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3444444444444444444444444444444555555555555555555443

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

Probab=90.63  E-value=9.6  Score=35.58  Aligned_cols=84  Identities=14%  Similarity=0.180  Sum_probs=59.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL----HSL  108 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL----~~l  108 (172)
                      ++++-+.++=+.-.++....++....|+.++..++.+...+..++.........+...++.+...+..|..+-    ..|
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~L  117 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRL  117 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666677776677777777778888888888888888888888887777777777777777777776665554    344


Q ss_pred             HHHHHHHh
Q 044691          109 NEIISFLD  116 (172)
Q Consensus       109 ~~il~~~~  116 (172)
                      -.+|..+.
T Consensus       118 a~~L~A~~  125 (420)
T COG4942         118 AEQLAALQ  125 (420)
T ss_pred             HHHHHHHH
Confidence            44444444

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

Probab=90.58  E-value=1.9  Score=30.01  Aligned_cols=49  Identities=18%  Similarity=0.248  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      +++.+||.+++-++.-...|...+..       -..+-..|+.++..|..+|+.+.
T Consensus         4 ~Ri~~LE~~la~qe~~ie~Ln~~v~~-------Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    4 ERIEELEIKLAFQEDTIEELNDVVTE-------QQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhc
Confidence            45666776666666555555444333       33344445555555555555443

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.

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=90.50  E-value=3.4  Score=36.56  Aligned_cols=63  Identities=16%  Similarity=0.362  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      +.++.+...+..|+.||..+..+.......+..+..|+..+..++..+..++..|..+...+.
T Consensus       244 ~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~~~~k~~kLe~LcRaLQ  306 (309)
T PF09728_consen  244 KEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEKLKKKIEKLEKLCRALQ  306 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            667888889999999999999999999999999999999999999999999999999888775

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>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=90.47  E-value=3.9  Score=31.73  Aligned_cols=19  Identities=26%  Similarity=0.335  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 044691           88 ESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        88 e~EN~~LRaq~~eL~~rL~  106 (172)
                      ..++..|++.+..|..=++
T Consensus        95 ~E~veEL~~Dv~DlK~myr  113 (120)
T PF12325_consen   95 SEEVEELRADVQDLKEMYR  113 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4455555555554444333

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 [].

>PRK00295 hypothetical protein; Provisional

Probab=90.39  E-value=3.5  Score=28.85  Aligned_cols=47  Identities=13%  Similarity=0.138  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      ++.+||.+++-++.-...|...+.       .-..+-..|+.++..|..+|+.+
T Consensus         6 Ri~~LE~kla~qE~tie~Ln~~v~-------~Qq~~I~~L~~ql~~L~~rl~~~   52 (68)
T PRK00295          6 RVTELESRQAFQDDTIQALNDVLV-------EQQRVIERLQLQMAALIKRQEEM   52 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHh
Confidence            477777777776655555544333       33344456666666666666664

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

Probab=90.29  E-value=9.5  Score=31.68  Aligned_cols=79  Identities=6%  Similarity=0.131  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      |-+-.+.++....+-+-.+.+...+...|+.++.+-..++..+...+..+.+....+..+...++.+..+....+..+.
T Consensus        87 nV~~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lk  165 (190)
T PF05266_consen   87 NVKFLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLK  165 (190)
T ss_pred             ccHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566677788888888888888899998888776666666666666666666655555555444444333333333

>PF15294 Leu_zip: Leucine zipper

Probab=90.28  E-value=1.3  Score=39.16  Aligned_cols=45  Identities=24%  Similarity=0.345  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      |..++..|+.||..|+.++..+..++..+..|+..|.+++.+|+.
T Consensus       130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            778899999999999999999999999999999999999988887

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

Probab=90.17  E-value=2.6  Score=29.33  Aligned_cols=51  Identities=16%  Similarity=0.172  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      |+.++..|+....-+       ...+..|...-.....++..|..+|+.|.+-+..+.
T Consensus         2 le~Ri~~LE~~la~q-------e~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    2 LEERIEELEIKLAFQ-------EDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            445555554433333       333333333333445566667777777777766665

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=90.16  E-value=5  Score=28.26  Aligned_cols=51  Identities=20%  Similarity=0.254  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      |++.+..|+..+..+..++.........|..|+...-.++.........|.
T Consensus         3 Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk   53 (69)
T PF14197_consen    3 LEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLK   53 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444333333333333333333

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=89.86  E-value=4  Score=34.39  Aligned_cols=47  Identities=26%  Similarity=0.200  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDASNN  120 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~~~g  120 (172)
                      ..++..|+.-+..++.+|..|-++...+...-++|..-|..++.-+|
T Consensus        66 ~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~  112 (193)
T PF14662_consen   66 EEELEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENG  112 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44455555555666666666666666666666666666666655444

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=89.66  E-value=3.8  Score=36.53  Aligned_cols=43  Identities=19%  Similarity=0.203  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           73 IITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        73 L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      =+.+-+.+.-.+..|+.+|..||.++.+|.++++.|..+|..+
T Consensus       246 kRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~  288 (294)
T KOG4571|consen  246 KRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEV  288 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566777888999999999999999999999999988544

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

Probab=89.60  E-value=9.2  Score=30.52  Aligned_cols=62  Identities=18%  Similarity=0.363  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .++..++.+...+..+..+-..+...+.........+..+-..++.....+...+..+++++
T Consensus       127 ~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~  188 (191)
T PF04156_consen  127 SVEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERLQENLQQLEEKIQELQELL  188 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444333333334444444444444444444444444444433

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 [].

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.44  E-value=4.9  Score=35.34  Aligned_cols=61  Identities=13%  Similarity=0.274  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE-------SENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le-------~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +...+.+++..+..++.+...|..++..+..+...+.       .+=..|..++.+|..++...++++
T Consensus        36 ~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l  103 (265)
T COG3883          36 QDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELL  103 (265)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444       444444445555555555444444

>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins

Probab=89.09  E-value=0.75  Score=37.74  Aligned_cols=52  Identities=21%  Similarity=0.356  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      |+|+|.+..+.-..|.-|..+|.    .-..|..++.+||.++.+|+.+| .+.+.+
T Consensus         2 LeD~EsklN~AIERnalLE~ELd----EKE~L~~~~QRLkDE~RDLKqEl-~V~ek~   53 (166)
T PF04880_consen    2 LEDFESKLNQAIERNALLESELD----EKENLREEVQRLKDELRDLKQEL-IVQEKL   53 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHCH---------------------
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH-HHHHHh
Confidence            78999999999999999988883    35567788888888888888888 444444

Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=89.05  E-value=16  Score=32.55  Aligned_cols=75  Identities=19%  Similarity=0.202  Sum_probs=38.1

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH-------H-----------HHHHHHHHHHHHHHH
Q 044691           35 RKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIA-------T-----------QHYMNIESENSVLRA   96 (172)
Q Consensus        35 ~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l-------~-----------q~~~~le~EN~~LRa   96 (172)
                      +.+-+.-|+--.....--.++-.+|+.++.+++..|..|..++..|       +           ++...|+.+|+.+++
T Consensus        26 kq~f~~~reEl~EFQegSrE~EaelesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~a  105 (333)
T KOG1853|consen   26 KQHFLQMREELNEFQEGSREIEAELESQLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHA  105 (333)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555554444444444444445544444444444443333333       2           233456677777777


Q ss_pred             HHHHHHHHHHHHH
Q 044691           97 QLGELTHRLHSLN  109 (172)
Q Consensus        97 q~~eL~~rL~~l~  109 (172)
                      ....|+..++.|+
T Consensus       106 ikeql~kyiReLE  118 (333)
T KOG1853|consen  106 IKEQLRKYIRELE  118 (333)
T ss_pred             HHHHHHHHHHHHH
Confidence            7766666655443

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=88.84  E-value=7.6  Score=28.50  Aligned_cols=69  Identities=17%  Similarity=0.301  Sum_probs=52.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGEL  101 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL  101 (172)
                      ++..+.+.+=|++=..|.-+.....+++.++..|......|-.++.....++..|+.-|..+...+...
T Consensus        11 ~rL~~aid~LE~~v~~r~~~~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a   79 (89)
T PF13747_consen   11 TRLEAAIDRLEKAVDRRLERDRKRDELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSA   79 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            566667777777766666666666999999999999999998888887777777777776665555444

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.66  E-value=5.2  Score=35.15  Aligned_cols=50  Identities=14%  Similarity=0.274  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      +..++.|..+|..+..+-..+..++..+......+..+-..|+..+.+..
T Consensus        51 q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~  100 (265)
T COG3883          51 QNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQ  100 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666666666666666666666666555543

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

Probab=88.47  E-value=14  Score=31.14  Aligned_cols=81  Identities=19%  Similarity=0.268  Sum_probs=56.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      |=|+-++..-.+-..|.-..-+.++..|...+..-+.+-.....+-..+..+...|..|....++++..|..++..|+.-
T Consensus       104 eirR~~LeAQka~~eR~ia~~~~ra~~LqaDl~~~~~Q~~~va~~Q~q~r~ea~aL~~e~~aaqaQL~~lQ~qv~~Lq~q  183 (192)
T PF11180_consen  104 EIRRAQLEAQKAQLERLIAESEARANRLQADLQIARQQQQQVAARQQQARQEAQALEAERRAAQAQLRQLQRQVRQLQRQ  183 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666666777777777777777777666666666677777777777777777777777777776655


Q ss_pred             H
Q 044691          112 I  112 (172)
Q Consensus       112 l  112 (172)
                      .
T Consensus       184 ~  184 (192)
T PF11180_consen  184 A  184 (192)
T ss_pred             h
Confidence            4

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

Probab=87.93  E-value=6.6  Score=37.78  Aligned_cols=60  Identities=22%  Similarity=0.396  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           45 ARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHR  104 (172)
Q Consensus        45 ARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~r  104 (172)
                      |.+.|..=...+.++...+..++++...++..+..+......|..||..|+.++..++..
T Consensus       132 ~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~  191 (546)
T KOG0977|consen  132 AEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQ  191 (546)
T ss_pred             HHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            333344444555566666777777888888888888888888888888888888777653

>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation

Probab=87.62  E-value=1.1  Score=31.14  Aligned_cols=30  Identities=17%  Similarity=0.282  Sum_probs=19.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           68 KDNHQIITSINIATQHYMNIESENSVLRAQ   97 (172)
Q Consensus        68 ~EN~~L~~~l~~l~q~~~~le~EN~~LRaq   97 (172)
                      .|...|+.+|..|..+...|+.||..||..
T Consensus        14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk~~   43 (59)
T PF01166_consen   14 EEVEVLKEQIAELEERNSQLEEENNLLKQN   43 (59)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344555666666666666667777777754

These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.

>PRK00736 hypothetical protein; Provisional

Probab=87.48  E-value=5.3  Score=27.90  Aligned_cols=47  Identities=23%  Similarity=0.271  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      .++.+||.+++-++.-...|...+..       -..+-..|+.++..|..||..
T Consensus         5 ~Ri~~LE~klafqe~tie~Ln~~v~~-------Qq~~i~~L~~ql~~L~~rl~~   51 (68)
T PRK00736          5 ERLTELEIRVAEQEKTIEELSDQLAE-------QWKTVEQMRKKLDALTERFLS   51 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence            34777888777776655555443322       223334455555555555544

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=87.32  E-value=18  Score=35.84  Aligned_cols=51  Identities=12%  Similarity=0.197  Sum_probs=24.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           63 VAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        63 v~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      +..|+.+...+...+..+...+..+..+...++.++..+...+..+...+.
T Consensus       436 ~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~l~  486 (1164)
T TIGR02169       436 INELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELS  486 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444455555555555555555555554443

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.

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=87.23  E-value=3.5  Score=35.09  Aligned_cols=9  Identities=56%  Similarity=0.737  Sum_probs=3.6

Q ss_pred             HHHHHHHHH
Q 044691           88 ESENSVLRA   96 (172)
Q Consensus        88 e~EN~~LRa   96 (172)
                      ..||..||.
T Consensus        99 ~~en~~L~~  107 (276)
T PRK13922         99 EAENARLRE  107 (276)
T ss_pred             HHHHHHHHH
Confidence            344444433

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=87.19  E-value=6.9  Score=27.12  Aligned_cols=45  Identities=16%  Similarity=0.291  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      +..++...+..|-.+..++.....+...|..+-..|+.++.+++.
T Consensus        16 ~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~   60 (61)
T PF08826_consen   16 IQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELRS   60 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344445556666666666666655555555555555555555543

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>PRK02119 hypothetical protein; Provisional

Probab=87.15  E-value=5.4  Score=28.27  Aligned_cols=21  Identities=5%  Similarity=0.150  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 044691           95 RAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        95 Raq~~eL~~rL~~l~~il~~~  115 (172)
                      ..++..|+.+|+.|.+-+..+
T Consensus        36 q~~id~L~~ql~~L~~rl~~~   56 (73)
T PRK02119         36 QFVIDKMQVQLRYMANKLKDM   56 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            334444555555544444333

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

Probab=87.11  E-value=8.1  Score=37.17  Aligned_cols=65  Identities=29%  Similarity=0.394  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHH-------HHHHHHHHhHHHHHHHHHHHHH-----------------------------HHHHHHHH
Q 044691           47 RSRMRKQKHLDDLM-------AQVAQLRKDNHQIITSINIATQ-----------------------------HYMNIESE   90 (172)
Q Consensus        47 RSR~RKq~~leeLe-------~qv~~L~~EN~~L~~~l~~l~q-----------------------------~~~~le~E   90 (172)
                      .+|.|-|++|.+|-       .+|..|++||..|...++.++.                             ....++.+
T Consensus        35 ~sR~rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~e  114 (546)
T KOG0977|consen   35 DSREREKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIE  114 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666665       4567788899999888888742                             23445555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 044691           91 NSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        91 N~~LRaq~~eL~~rL~~l~~i  111 (172)
                      -..|+.++.+|+.++......
T Consensus       115 i~kl~~e~~elr~~~~~~~k~  135 (546)
T KOG0977|consen  115 ITKLREELKELRKKLEKAEKE  135 (546)
T ss_pred             HHHhHHHHHHHHHHHHHHHHH
Confidence            555666666666555544333

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

Probab=86.90  E-value=7.6  Score=33.97  Aligned_cols=46  Identities=13%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGEL  101 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL  101 (172)
                      .+++..++..+.+||..|..++..+...|..+..+-..|+.+...|
T Consensus       137 ~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~L  182 (290)
T COG4026         137 YEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRL  182 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444433333333333333333

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

Probab=86.75  E-value=22  Score=31.41  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           86 NIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        86 ~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .+..+-..|...+.++..+...+..-|
T Consensus       234 el~~el~~l~~~i~~~~~~k~~l~~eI  260 (325)
T PF08317_consen  234 ELQEELEELEEKIEELEEQKQELLAEI  260 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

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

Probab=86.60  E-value=11  Score=35.24  Aligned_cols=73  Identities=19%  Similarity=0.241  Sum_probs=46.1

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           40 SNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        40 sNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .++...++-=.++.+.+.+-..+.+.|+++...+..++..++.++.....++..+++++..+..+|..|...-
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            3344555555555566666666666666666666666666666666666777777777777766666665433

>PRK09039 hypothetical protein; Validated

Probab=86.56  E-value=16  Score=32.77  Aligned_cols=40  Identities=10%  Similarity=0.119  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           73 IITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        73 L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      |..+|..|+.++..++.+-..+.++..+.+.++..|..-|
T Consensus       142 L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L  181 (343)
T PRK09039        142 LNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRL  181 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444444444444444444444433

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

Probab=86.46  E-value=13  Score=28.62  Aligned_cols=43  Identities=19%  Similarity=0.146  Sum_probs=17.7

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           38 MISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        38 ~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      +..-.|...-|+..=.+.-++|+..+..|+.++.....++..|
T Consensus        21 Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eL   63 (107)
T PF09304_consen   21 LERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAEL   63 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444333333334444444444444333333333

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

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

Probab=86.20  E-value=12  Score=29.66  Aligned_cols=30  Identities=17%  Similarity=0.283  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      +-..+..|..++..|+.+...+...+..+.
T Consensus        33 ~E~EI~sL~~K~~~lE~eld~~~~~l~~~k   62 (143)
T PF12718_consen   33 KEQEITSLQKKNQQLEEELDKLEEQLKEAK   62 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444443

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 [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=86.18  E-value=4.4  Score=34.87  Aligned_cols=48  Identities=15%  Similarity=0.174  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGEL  101 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL  101 (172)
                      +-+-+|..++..|+.|...|+-+++.+..++..+......|-.++..+
T Consensus        54 ~~~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~r  101 (263)
T PRK10803         54 QLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDSL  101 (263)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345678888888888888888888777777777766666666666554

>KOG1414 consensus Transcriptional activator FOSB/c-Fos and related bZIP transcription factors [Transcription]

Probab=86.16  E-value=0.034  Score=50.53  Aligned_cols=71  Identities=21%  Similarity=0.195  Sum_probs=56.6

Q ss_pred             hhhHHHHHHHHHHhHHHHHH---HHHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           28 ALMDQRKRKRMISNRESARR---SRMRKQKHLDDLMAQVAQLR-KDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        28 ~~~deRr~rR~lsNRESARR---SR~RKq~~leeLe~qv~~L~-~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ...+.|+..|+++|+.+|.+   +|.||+.+...|..+|..|+ .++..                     |..++..|..
T Consensus       149 ~~~~~~~~~rr~rn~~aA~~~~~~r~~~~~~t~~l~~qv~~l~~~~~~~---------------------l~~~is~Lqn  207 (395)
T KOG1414|consen  149 PEPEEKRLLRRERNPVAAAKPIPCRNRKKPSTSPLQRQVELLPPGINSP---------------------LSPQISPLQN  207 (395)
T ss_pred             CcchHHHHhhccccccccCCCCCCccccccccccccchHhhcCCCCCcc---------------------cCcccccccc
Confidence            35678999999999999999   99999999999999999887 44433                     6666677777


Q ss_pred             HHHHHHHHHHHHhhcC
Q 044691          104 RLHSLNEIISFLDASN  119 (172)
Q Consensus       104 rL~~l~~il~~~~~~~  119 (172)
                      ..+.++.++..+....
T Consensus       208 e~~~l~~~l~~h~~~~  223 (395)
T KOG1414|consen  208 EADHLEKELNTHRPPC  223 (395)
T ss_pred             HHHHHHHHHhccCCCc
Confidence            7777777777665443

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

Probab=86.12  E-value=22  Score=31.45  Aligned_cols=67  Identities=13%  Similarity=0.151  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhc
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGE-------LTHRLHSLNEIISFLDAS  118 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~e-------L~~rL~~l~~il~~~~~~  118 (172)
                      ..+.+.+|+.+..+|..|-..|..+...+.+.-...-.+.+.+.-++.+       |..++......++.+..+
T Consensus        62 l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~kt  135 (314)
T PF04111_consen   62 LLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRKT  135 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4455555555555555555555555555544444444444444444444       444444444445555443

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.

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

Probab=86.08  E-value=16  Score=32.68  Aligned_cols=71  Identities=10%  Similarity=0.215  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSINIA--------------TQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l--------------~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .|-++.+++-..++..|+.||..|......+              +.+...++......+.++..|...|.-+..-++..
T Consensus        49 qKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErs  128 (307)
T PF10481_consen   49 QKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERS  128 (307)
T ss_pred             HHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555566777777777776666655              34556667778888888888888888888888877


Q ss_pred             hhcCC
Q 044691          116 DASNN  120 (172)
Q Consensus       116 ~~~~g  120 (172)
                      ....+
T Consensus       129 Q~~~~  133 (307)
T PF10481_consen  129 QQAAS  133 (307)
T ss_pred             HHhhc
Confidence            65544

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=85.97  E-value=9.7  Score=33.90  Aligned_cols=25  Identities=4%  Similarity=0.099  Sum_probs=8.9

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHH
Q 044691           62 QVAQLRKDNHQIITSINIATQHYMN   86 (172)
Q Consensus        62 qv~~L~~EN~~L~~~l~~l~q~~~~   86 (172)
                      ++..+..++......+..++.+...
T Consensus       212 ~l~~~~~ei~~~~~~l~e~~~~l~~  236 (312)
T smart00787      212 KLKKLLQEIMIKVKKLEELEEELQE  236 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

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

>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=85.74  E-value=25  Score=31.10  Aligned_cols=52  Identities=17%  Similarity=0.284  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHR  104 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~r  104 (172)
                      +..++.+..++.+.+++...+..++.....++..++.+-..|...+.-+..+
T Consensus       206 ~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~sK  257 (269)
T PF05278_consen  206 KEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKSIKSK  257 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555555444444444444433333

>PRK00295 hypothetical protein; Provisional

Probab=85.50  E-value=9.8  Score=26.54  Aligned_cols=51  Identities=10%  Similarity=0.070  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      ++.++..|+....       ....-...|...-.....++..|+.+|+.|.+-+..+.
T Consensus         3 ~e~Ri~~LE~kla-------~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00295          3 LEERVTELESRQA-------FQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV   53 (68)
T ss_pred             HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4455555554333       33333333333333445556778888888877776665

>PHA02562 46 endonuclease subunit; Provisional

Probab=85.39  E-value=25  Score=32.35  Aligned_cols=39  Identities=13%  Similarity=0.112  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVL   94 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~L   94 (172)
                      ...|+.++..|+.++..+..++..+..++..+..+-..+
T Consensus       360 ~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~  398 (562)
T PHA02562        360 AKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSEL  398 (562)
T ss_pred             HHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444443333

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility

Probab=85.18  E-value=20  Score=29.53  Aligned_cols=56  Identities=11%  Similarity=0.229  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQ-LGELTHRLHSLNEI  111 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq-~~eL~~rL~~l~~i  111 (172)
                      ..+|+.++..|+.++..|..++..++.++..++..+..+++. ......++..|...
T Consensus       122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~  178 (189)
T PF10211_consen  122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQ  178 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            568888999999999999999999998888888777765443 33344444444443

Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].

>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=85.08  E-value=13  Score=33.27  Aligned_cols=31  Identities=19%  Similarity=0.271  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           69 DNHQIITSINIATQHYMNIESENSVLRAQLG   99 (172)
Q Consensus        69 EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~   99 (172)
                      |...|..++-.+.+++..+..||..|...+.
T Consensus       235 EIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~  265 (306)
T PF04849_consen  235 EITSLLSQIVDLQQRCKQLAAENEELQQHLQ  265 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            3444555555555666666666665554443

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 [].

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

Probab=85.06  E-value=8.9  Score=31.61  Aligned_cols=16  Identities=19%  Similarity=0.273  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHHHHH
Q 044691           84 YMNIESENSVLRAQLG   99 (172)
Q Consensus        84 ~~~le~EN~~LRaq~~   99 (172)
                      +..|..++..|++++.
T Consensus       112 l~~l~~~~~~l~~el~  127 (188)
T PF03962_consen  112 LEELKKELKELKKELE  127 (188)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333444444444333

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

>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B

Probab=85.03  E-value=8.8  Score=33.86  Aligned_cols=68  Identities=28%  Similarity=0.366  Sum_probs=45.1

Q ss_pred             HHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRES-ARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHR  104 (172)
Q Consensus        32 eRr~rR~lsNRES-ARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~r  104 (172)
                      .|-.=.-++|||. -+.+|.||+.-.    .++..|+...- -..++..|++++..+++||.+..+++..+.++
T Consensus       126 yR~~LK~IR~~E~sl~p~R~~r~~l~----d~I~kLk~k~P-~s~kl~~LeqELvraEae~lvaEAqL~n~kR~  194 (271)
T PF13805_consen  126 YRIHLKSIRNREESLQPSRDRRRKLQ----DEIAKLKYKDP-QSPKLVVLEQELVRAEAENLVAEAQLSNIKRQ  194 (271)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH-T-TTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHhHHHH----HHHHHHHhcCC-CChHHHHHHHHHHHHHHHhhHHHHHHHHhhHH
Confidence            3433456889984 456666666443    44445543322 24567889999999999999999888776543

>smart00340 HALZ homeobox associated leucin zipper

Probab=84.89  E-value=2.7  Score=27.46  Aligned_cols=27  Identities=19%  Similarity=0.278  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           77 INIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        77 l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ...|++-+..|..||..|..++.+|+.
T Consensus         7 Ce~LKrcce~LteeNrRL~ke~~eLra   33 (44)
T smart00340        7 CELLKRCCESLTEENRRLQKEVQELRA   33 (44)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456778889999999999999998864

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=84.88  E-value=3.8  Score=30.87  Aligned_cols=34  Identities=15%  Similarity=0.154  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           77 INIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        77 l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      +..+++++..++.+|..|+++...|..++..|++
T Consensus        29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~   62 (105)
T PRK00888         29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG   62 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            4445555555555555555555555555555543

>PRK02793 phi X174 lysis protein; Provisional

Probab=84.74  E-value=8.6  Score=27.13  Aligned_cols=52  Identities=15%  Similarity=0.231  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      ++.++..|+       .++.....-...|-..-.....++..|..+|+.|.+-+..+..
T Consensus         6 ~e~Ri~~LE-------~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~   57 (72)
T PRK02793          6 LEARLAELE-------SRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQP   57 (72)
T ss_pred             HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            555555554       3344444444444444444455667788888888777766654

>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants

Probab=84.74  E-value=14  Score=33.53  Aligned_cols=39  Identities=15%  Similarity=0.167  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVL   94 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~L   94 (172)
                      +..|..++.+|..+|..|...+..+..++..+..+...+
T Consensus       139 ~~~l~~~~~~L~~enerL~~e~~~~~~qlE~~v~~K~~~  177 (342)
T PF06632_consen  139 NSRLQAENEHLQKENERLESEANKLLKQLEKFVNAKEEH  177 (342)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555666666666666666666665555554444

XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.

>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []

Probab=84.69  E-value=4.5  Score=27.52  Aligned_cols=41  Identities=15%  Similarity=0.260  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           72 QIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        72 ~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .+..++..++.+...+..+|..|+.++..|+.--..+..++
T Consensus        21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~A   61 (80)
T PF04977_consen   21 QLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVA   61 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            34444445555555556666666666666644334444444

These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle

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

Probab=84.61  E-value=6.6  Score=33.89  Aligned_cols=22  Identities=5%  Similarity=0.104  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIIT   75 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~   75 (172)
                      ++..+||.++..+..+...|+.
T Consensus        93 ~Rn~ELE~elr~~~~~~~~L~~  114 (248)
T PF08172_consen   93 QRNAELEEELRKQQQTISSLRR  114 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666665554444443

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

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=84.56  E-value=6.5  Score=27.42  Aligned_cols=35  Identities=14%  Similarity=0.202  Sum_probs=25.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           69 DNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        69 EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ....+..++..+.++...+..||..|+.++..|.+
T Consensus        25 ~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~   59 (85)
T TIGR02209        25 QTRQLNNELQKLQLEIDKLQKEWRDLQLEVAELSR   59 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            44455666666777777778888888888887765

This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.

>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.52  E-value=11  Score=27.19  Aligned_cols=51  Identities=24%  Similarity=0.173  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      |++++..|+-....-...|..|..........-..+++++.-|..|++.++
T Consensus         6 lE~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~~   56 (72)
T COG2900           6 LEARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDLQ   56 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444444444333333333333333333333344445555555555554443

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

Probab=84.48  E-value=21  Score=30.59  Aligned_cols=52  Identities=17%  Similarity=0.213  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      |+++.+.+..+-..|..+++.....+.....++..|+.|..++.+....|-+
T Consensus       149 ~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLle  200 (216)
T KOG1962|consen  149 LEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLE  200 (216)
T ss_pred             hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            5566666666666677777777777777777777777777777666655543

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

Probab=84.10  E-value=13  Score=36.06  Aligned_cols=67  Identities=18%  Similarity=0.279  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .+.++.+++|..++..|..+-..+...+..+...+..+..+....+.+..+|...+.....++..+.
T Consensus       324 ~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~  390 (594)
T PF05667_consen  324 EEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLP  390 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456777888888888888888888888888888888888888888887777777776666666654

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

Probab=83.95  E-value=4.8  Score=34.44  Aligned_cols=33  Identities=18%  Similarity=0.171  Sum_probs=16.1

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           66 LRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        66 L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      ++.++..|..+.+.+...|..|..||+.|+.++
T Consensus       177 ~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i  209 (216)
T KOG1962|consen  177 AQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQI  209 (216)
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            333444444444444555555555555555544

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.84  E-value=17  Score=36.82  Aligned_cols=62  Identities=11%  Similarity=0.178  Sum_probs=41.7

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           38 MISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLG   99 (172)
Q Consensus        38 ~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~   99 (172)
                      ...+-..-.--+.+-.-.++.|...+..|+-||.+|..++......+.++..++..|+.|+.
T Consensus       655 l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg  716 (970)
T KOG0946|consen  655 LDDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLG  716 (970)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            33333344444455556667777777777777777777777777777777777777777776

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

Probab=83.79  E-value=8.8  Score=29.59  Aligned_cols=37  Identities=22%  Similarity=0.345  Sum_probs=16.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           61 AQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQ   97 (172)
Q Consensus        61 ~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq   97 (172)
                      .||=.|+.-...|.+++...++...+|..||.+|-+-
T Consensus        63 tQVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQY   99 (120)
T KOG3650|consen   63 TQVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQY   99 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHH
Confidence            3344444333344444444444444444555554433

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=83.74  E-value=15  Score=26.89  Aligned_cols=60  Identities=17%  Similarity=0.273  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIES---ENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~---EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      +-+|..+...+..+-..|+.+-+.+..++..+..   +-..|.+++.++..++..+...+..+
T Consensus        31 i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~   93 (108)
T PF02403_consen   31 IIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKEL   93 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444454444444444444433   23445555555555555555544443

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>KOG4797 consensus Transcriptional regulator [Transcription]

Probab=83.59  E-value=3  Score=32.46  Aligned_cols=32  Identities=22%  Similarity=0.290  Sum_probs=22.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           67 RKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        67 ~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      +.|...|+.+|..|.++...|+.||..||.-+
T Consensus        66 REEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~   97 (123)
T KOG4797|consen   66 REEVEVLKEQIRELEERNSALERENSLLKTLA   97 (123)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            34555566667777777777888888887643

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

Probab=83.54  E-value=32  Score=33.48  Aligned_cols=44  Identities=16%  Similarity=0.381  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHH------------------------HhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLR------------------------KDNHQIITSINIATQHYMNIESENSVL   94 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~------------------------~EN~~L~~~l~~l~q~~~~le~EN~~L   94 (172)
                      .+..+|.+|+..+..+.                        ..|..|+.++..+...+..|..+|..|
T Consensus       119 EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~ltne~~el  186 (617)
T PF15070_consen  119 EQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNRELKEQLAELQDAFVKLTNENMEL  186 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhHh
Confidence            56667777776665553                        367888888888888888888888544

>PRK04406 hypothetical protein; Provisional

Probab=83.16  E-value=12  Score=26.76  Aligned_cols=51  Identities=8%  Similarity=0.137  Sum_probs=24.6

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           66 LRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        66 L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      ++.....|..++.....-...|...-.....++..|+.+|+.|.+-+..+.
T Consensus         9 le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   59 (75)
T PRK04406          9 LEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD   59 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444444444444444444444333333334445666666666655554443

>PRK04325 hypothetical protein; Provisional

Probab=83.11  E-value=13  Score=26.35  Aligned_cols=55  Identities=9%  Similarity=0.166  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      +..++.++..|+       .++.....-...|-..-.....++..|..+|+.|.+-+..+..
T Consensus         4 ~~~~e~Ri~~LE-------~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~   58 (74)
T PRK04325          4 VQEMEDRITELE-------IQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANP   58 (74)
T ss_pred             chhHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            345666666555       3343333333444333333445567788888888777766653

>PF07558 Shugoshin_N: Shugoshin N-terminal coiled-coil region; InterPro: IPR011516 This entry represents the N-terminal domain of Shugoshin (Sgo1) kinetochore-attachment proteins

Probab=82.73  E-value=1.6  Score=28.41  Aligned_cols=37  Identities=24%  Similarity=0.235  Sum_probs=10.9

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           62 QVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        62 qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      +..+|-+.|..+..++..++.....|..||..||.++
T Consensus         8 qn~~laK~Ns~l~~ki~~le~~~s~L~~en~~lR~~~   44 (46)
T PF07558_consen    8 QNRELAKRNSALSIKIQELENEVSKLLNENVNLRELV   44 (46)
T ss_dssp             ----------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHhHHHHhHHHHHHhHHHHHHHHHHHHHHHh
Confidence            3445556666677777777777777777777777765

Shugoshin has a conserved coiled-coil N-terminal domain and a highly conserved C-terminal basic region (IPR011515 from INTERPRO). Shugoshin is a crucial target of Bub1 kinase that plays a central role in chromosome cohesion during mitosis and meiosis divisions by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms [, ]. Shugoshin is thought to act by protecting Rec8 and Rad21 at the centromeres from separase degradation during anaphase I (during meiosis) so that sister chromatids remain tethered []. Shugoshin also acts as a spindle checkpoint component required for sensing tension between sister chromatids during mitosis, its degradation when they separate preventing cell cycle arrest and chromosome loss in anaphase, a time when sister chromatids are no longer under tension. Human shugoshin is diffusible and mediates kinetochore-driven formation of kinetochore-microtubules during bipolar spindle assembly []. Further, the primary role of shugoshin is to ensure bipolar attachment of kinetochores, and its role in protecting cohesion has co-developed to facilitate this process [].; GO: 0045132 meiotic chromosome segregation, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 3FGA_D.

>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=82.63  E-value=17  Score=26.74  Aligned_cols=74  Identities=16%  Similarity=0.117  Sum_probs=56.6

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           36 KRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        36 rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      .++...++.....=..|...+..|+.++..|..|-..-..++-.+.+....+..||..|+.++..=..-+..|.
T Consensus         6 ~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~Ks~~~i~~L~   79 (96)
T PF08647_consen    6 VSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSKSSELIEQLK   79 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            45666667777777788889999999999999988888888888888888888888888887765444333333

>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=82.63  E-value=27  Score=29.11  Aligned_cols=16  Identities=31%  Similarity=0.468  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHHHH
Q 044691           95 RAQLGELTHRLHSLNE  110 (172)
Q Consensus        95 Raq~~eL~~rL~~l~~  110 (172)
                      ...+..+..++..+..
T Consensus       125 ~~~~~~~~~~l~~l~~  140 (302)
T PF10186_consen  125 QNELEERKQRLSQLQS  140 (302)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333334444443333

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

>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=82.60  E-value=11  Score=33.50  Aligned_cols=61  Identities=18%  Similarity=0.298  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .+...+.++...+.+-..+..++..++.+|.....+...|..++.....+|.....++..+
T Consensus       229 ~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~~Li~~L  289 (344)
T PF12777_consen  229 ELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAEKLISGL  289 (344)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHhhh
Confidence            4455555555666666666666666777777777777777777777777777666666544

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.

>PRK00736 hypothetical protein; Provisional

Probab=82.49  E-value=14  Score=25.78  Aligned_cols=52  Identities=12%  Similarity=0.152  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      ++.++..|+.........|       ..|-..-..--.++..|..+|+.|.+-+..+..
T Consensus         3 ~e~Ri~~LE~klafqe~ti-------e~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~~   54 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTI-------EELSDQLAEQWKTVEQMRKKLDALTERFLSLEE   54 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4455555554433333322       223222333344557788888888777766553

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

Probab=82.37  E-value=33  Score=30.37  Aligned_cols=68  Identities=16%  Similarity=0.298  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           43 ESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        43 ESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      +....-+..=.+.+.+|+.+...|..+-...-...+.+..++..+..|...|..++.....+|..|..
T Consensus        67 ~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen   67 EELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344444444556666666666666666666667777777777777777777777777777765543

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.

>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=82.36  E-value=49  Score=32.01  Aligned_cols=32  Identities=16%  Similarity=0.293  Sum_probs=12.8

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           65 QLRKDNHQIITSINIATQHYMNIESENSVLRA   96 (172)
Q Consensus        65 ~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRa   96 (172)
                      .|..|+..|..+...+..+...|+.+...|..
T Consensus       203 ~l~~E~~~L~~q~~e~~~ri~~LEedi~~l~q  234 (546)
T PF07888_consen  203 ELKEERESLKEQLAEARQRIRELEEDIKTLTQ  234 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444433333

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 [].

>KOG1414 consensus Transcriptional activator FOSB/c-Fos and related bZIP transcription factors [Transcription]

Probab=82.22  E-value=0.22  Score=45.28  Aligned_cols=44  Identities=30%  Similarity=0.483  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQII   74 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~   74 (172)
                      ++|+++=.++||.+|-++|.||+.....|+.+...+..+|..|.
T Consensus       283 ~~~~~~~lern~~aas~~r~~~k~~~~~~~~~~~~~~~~n~~l~  326 (395)
T KOG1414|consen  283 DERRRRFLERNRAAASRCRQKKKVWVLSLEKKAEELSSENGQLL  326 (395)
T ss_pred             hhhhhhhhhhhhhhhccccCCcccccccccccccchhhhhcccc
Confidence            45665568999999999999999999999999999888777775

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

Probab=82.20  E-value=18  Score=32.42  Aligned_cols=63  Identities=21%  Similarity=0.340  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      |-++.+..|-.+|..|+..-..+..+...+.+++.....-...|.+++.+|++|....-.++.
T Consensus       231 rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~  293 (306)
T PF04849_consen  231 RQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLH  293 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555556666666665555555555555555555555555566666666666655555443

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 [].

>PF10506 MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for Usher syndrome; InterPro: IPR019536 The entry represents a protein that has a high homology to the tumour suppressor Usher syndrome type-1C protein-binding protein 1, or known as MCC2 (mutated in colon cancer)

Probab=82.06  E-value=15  Score=25.88  Aligned_cols=59  Identities=10%  Similarity=0.142  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .|...+.+|...|..|...+....++...+......-.+....|+-+++....+++...
T Consensus         2 rL~~~ie~L~~~n~~L~~~le~~k~~se~Ls~~lgk~es~~~alrlal~ys~r~~e~~~   60 (67)
T PF10506_consen    2 RLKRRIEELKSQNEMLSSTLEERKQQSEELSMDLGKYESNATALRLALKYSERCKEAYE   60 (67)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            46778888999999999988888888888888777777777777777776666665443

MCC2 protein binds the first PDZ domain of AIE-75 with its C-terminal amino acids -DTFL. A possible role of MCC2 as a tumour suppressor has been put forward. The carboxyl terminus of the predicted protein was DTFL which matched the consensus motif X-S/T-X-phi (phi: hydrophobic amino acid residue) for binding to the PDZ domain of AIE-75 [, ].

>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins

Probab=81.92  E-value=2.7  Score=32.85  Aligned_cols=30  Identities=17%  Similarity=0.393  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      |..-+++|.+++.+|+-||..|+.++..-.
T Consensus         1 k~~t~EeLaaeL~kLqmENk~LKkkl~~~~   30 (118)
T PF05812_consen    1 KDMTMEELAAELQKLQMENKALKKKLRQSV   30 (118)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            456789999999999999999999886543

; PDB: 2OA5_B 2H3R_D.

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

Probab=81.90  E-value=19  Score=30.51  Aligned_cols=39  Identities=15%  Similarity=0.202  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           42 RESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        42 RESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      -|.+.+.|....+..++|+.+...|+.+-..|+.++...
T Consensus       104 ~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~k~  142 (203)
T KOG3433|consen  104 IENRKAGREETEERTDELTKKLNSLKKILESLRWELAKI  142 (203)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444433

>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]

Probab=81.81  E-value=32  Score=29.38  Aligned_cols=86  Identities=17%  Similarity=0.206  Sum_probs=46.6

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------HHHH-HH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           34 KRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKD--------NHQI-IT---SINIATQHYMNIESENSVLRAQLGEL  101 (172)
Q Consensus        34 r~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~E--------N~~L-~~---~l~~l~q~~~~le~EN~~LRaq~~eL  101 (172)
                      |.||+...-.+-|..|.-=+.=.++|..-|-+.+..        |..+ ..   -+..|.++...-+.|-+.|++++..|
T Consensus        59 k~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~vtAL  138 (229)
T KOG1319|consen   59 KDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDVTAL  138 (229)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555567777666544322        2221 11   13445555566677777777777776


Q ss_pred             HHHHHHHHHHHHHHhhcC
Q 044691          102 THRLHSLNEIISFLDASN  119 (172)
Q Consensus       102 ~~rL~~l~~il~~~~~~~  119 (172)
                      +==-...+.++..+....
T Consensus       139 ~iIk~~YEqM~~~~qdnp  156 (229)
T KOG1319|consen  139 KIIKVNYEQMVKAHQDNP  156 (229)
T ss_pred             HHHHHHHHHHHHhcccCC
Confidence            544444445554444433

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

Probab=81.79  E-value=33  Score=32.34  Aligned_cols=27  Identities=15%  Similarity=0.220  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSIN   78 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~   78 (172)
                      =++++..+|.++.+|+.||.+|..+.-
T Consensus        46 i~a~~~~~E~~l~~Lq~e~~~l~e~~v   72 (459)
T KOG0288|consen   46 IKAKLQEKELELNRLQEENTQLNEERV   72 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356788889999999999988876543

>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=81.79  E-value=16  Score=25.86  Aligned_cols=62  Identities=19%  Similarity=0.258  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      +.+=..+|++|..|-..|....-.+......|.+.+..+..++..|..++..+..-+..+..
T Consensus         7 l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~   68 (74)
T PF12329_consen    7 LAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEE   68 (74)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556788899999999988888888888888899999999999998888888777766653

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.

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=81.73  E-value=25  Score=28.11  Aligned_cols=61  Identities=15%  Similarity=0.171  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .+-.|.++-..|+..-=...+++..+.++ +.|+.+|..|..++..|...+..+..-++.+.
T Consensus        48 EVvrlKQrRRTLKNRGYA~sCR~KRv~Qk-~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k  108 (135)
T KOG4196|consen   48 EVVRLKQRRRTLKNRGYAQSCRVKRVQQK-HELEKEKAELQQQVEKLKEENSRLRRELDAYK  108 (135)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444544333455666555444 67899999998888888877777666665554

>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus

Probab=81.72  E-value=7.7  Score=35.58  Aligned_cols=33  Identities=27%  Similarity=0.307  Sum_probs=24.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           61 AQVAQLRKDNHQIITSINIATQHYMNIESENSVLR   95 (172)
Q Consensus        61 ~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LR   95 (172)
                      .|...|+.||..|+++++.|+.+...|  ||..||
T Consensus        32 ~e~~aLr~EN~~LKkEN~~Lk~eVerL--E~e~l~   64 (420)
T PF07407_consen   32 DENFALRMENHSLKKENNDLKIEVERL--ENEMLR   64 (420)
T ss_pred             hhhhhHHHHhHHHHHHHHHHHHHHHHH--HHHhhh
Confidence            455677788888888888887777777  666665

Members of this family are typically of around 420 residues in length. The function of this family is unknown.

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=81.70  E-value=49  Score=31.45  Aligned_cols=53  Identities=17%  Similarity=0.147  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      -..+.|+.++.+|..+|..|+..+..|.-.+.++..+-..+-.++..|+.+|.
T Consensus       297 le~Enlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~  349 (502)
T KOG0982|consen  297 LEKENLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLI  349 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            34566777888899999999999998888888888777666666666655554

>PHA03162 hypothetical protein; Provisional

Probab=81.68  E-value=1.3  Score=35.36  Aligned_cols=29  Identities=28%  Similarity=0.487  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSIN   78 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~   78 (172)
                      -+++.-+++|.+++.+|+-||..|+.++.
T Consensus         9 pk~~~tmEeLaaeL~kLqmENK~LKkkl~   37 (135)
T PHA03162          9 PKAQPTMEDLAAEIAKLQLENKALKKKIK   37 (135)
T ss_pred             CccCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35778899999999999999999999983

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

Probab=81.60  E-value=13  Score=37.21  Aligned_cols=66  Identities=20%  Similarity=0.322  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           50 MRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        50 ~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .||...+..|..++..+..+...++..|..++..+...+.++..|.+.+..|+.+|..-+..+...
T Consensus       297 ~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk  362 (775)
T PF10174_consen  297 SRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKK  362 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            456667778888888888888888888888888888888888888888888888877666666443

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

>PF10482 CtIP_N: Tumour-suppressor protein CtIP N-terminal domain; InterPro: IPR019518 CtIP is predominantly a nuclear protein that complexes with both BRCA1 and the BRCA1-associated RING domain protein (BARD1)

Probab=81.53  E-value=14  Score=28.91  Aligned_cols=58  Identities=14%  Similarity=0.236  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           49 RMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        49 R~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      +.=-...+.+|+.++..|..|--.=..++..+-.+.+.|..++..|..-+.-|..||+
T Consensus         9 kE~He~ev~glq~K~~~L~~erc~Daqrleel~~knqqLreQqk~L~e~i~~LE~RLR   66 (120)
T PF10482_consen    9 KEIHEKEVQGLQNKLLELKKERCLDAQRLEELFSKNQQLREQQKTLHENIKVLENRLR   66 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHcccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334445566666666666554444444444444444444444444444444444443

At the protein level, CtIP expression varies with cell cycle progression in a pattern identical to that of BRCA1. Thus, the steady-state levels of CtIP polypeptides, which remain low in resting cells and G1 cycling cells, increase dramatically as Dividing cells traverse the G1/S boundary. CtIP can potentially modulate the functions ascribed to BRCA1 in transcriptional regulation, DNA repair, and/or cell cycle checkpoint control []. This N-terminal domain carries a coiled-coil region and is essential for homodimerisation of the protein []. The C-terminal domain is family CtIP_C and carries functionally important CxxC and RHR motifs, absence of which lead cells to grow slowly and show hypersensitivity to genotoxins [].

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=81.36  E-value=33  Score=30.85  Aligned_cols=71  Identities=17%  Similarity=0.243  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           42 RESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        42 RESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      -|+++|-..-.+.++.+++.-...-+........+-..+.+++..+..||..||.|+.....+...-..++
T Consensus       181 lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~K~~~kek~V  251 (305)
T PF14915_consen  181 LESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHNKADNKEKTV  251 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666666666666777766655555555555666678889999999999999999999998887766444

>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long)

Probab=81.34  E-value=10  Score=32.08  Aligned_cols=45  Identities=22%  Similarity=0.396  Sum_probs=33.6

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           68 KDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        68 ~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .||..|...|..+...+..|..||..|+.    |...++.|-++|+.+.
T Consensus       125 ~ENe~Lh~~ie~~~eEi~~lk~en~~L~e----lae~~~~la~~ie~l~  169 (200)
T PF07412_consen  125 EENEKLHKEIEQKDEEIAKLKEENEELKE----LAEHVQYLAEVIERLT  169 (200)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCHH----HHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Confidence            47888888888777777777777777665    6667777888887764

Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.

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

Probab=81.13  E-value=11  Score=39.01  Aligned_cols=59  Identities=20%  Similarity=0.293  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLRKDNHQIITSINIATQ---HYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q---~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      .+.++++.|+..+..|+.||.-|..+|..|..   ....|+..|..|...-.++..-+..|+
T Consensus       527 ~~~~k~eeLe~~l~~lE~ENa~LlkqI~~Lk~t~qn~~~LEq~~n~lE~~~~elkk~idaL~  588 (1195)
T KOG4643|consen  527 LLSNKLEELEELLGNLEEENAHLLKQIQSLKTTSQNGALLEQNNNDLELIHNELKKYIDALN  588 (1195)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            34578899999999999999999999998865   556778888888777777666666555

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=80.92  E-value=20  Score=34.42  Aligned_cols=64  Identities=11%  Similarity=0.083  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIA-------TQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l-------~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      ++.++.||.++..|+.+-.+|..++..-       ......+..|-..++.++.++-.++..|.+.++.++
T Consensus       562 ~~~~~~~e~~i~~le~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~w~~l~~~~~~~~  632 (638)
T PRK10636        562 RKEIARLEKEMEKLNAQLAQAEEKLGDSELYDQSRKAELTACLQQQASAKSGLEECEMAWLEAQEQLEQML  632 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCchhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3456788888888888888888777532       114666777888888899999999998888887665

>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization

Probab=80.53  E-value=6.6  Score=25.75  Aligned_cols=30  Identities=23%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ...+..+...+..|..+|..|+.++..|..
T Consensus        24 k~~~~~le~~~~~L~~en~~L~~~i~~L~~   53 (54)
T PF07716_consen   24 KQREEELEQEVQELEEENEQLRQEIAQLER   53 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344556666777777788888777777754

; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....

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

Probab=80.27  E-value=33  Score=28.52  Aligned_cols=57  Identities=12%  Similarity=0.210  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNI   87 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~l   87 (172)
                      +-...++.+.+-++-+.+=..-+.++..++.++..|+.++..|..++..+.+....|
T Consensus        70 e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL  126 (201)
T PF13851_consen   70 EVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDEL  126 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566677777776666666666777777777777777777766666665444433

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=80.14  E-value=23  Score=29.16  Aligned_cols=43  Identities=14%  Similarity=0.252  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           70 NHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        70 N~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +..|..-+..|.+++......|..|...+..|+..+..+.+-+
T Consensus        76 ~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL  118 (182)
T PF15035_consen   76 SEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRDEL  118 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555556666666666666666666666666555444

>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=80.09  E-value=16  Score=24.93  Aligned_cols=33  Identities=9%  Similarity=0.253  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           84 YMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        84 ~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      ...+..||..|+..+.++.+-++.|-.+-+.+.
T Consensus        16 i~tvk~en~~i~~~ve~i~envk~ll~lYE~Vs   48 (55)
T PF05377_consen   16 INTVKKENEEISESVEKIEENVKDLLSLYEVVS   48 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445677888899999888888876666665553

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) [].

---

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	172
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	8e-10
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	1e-08
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	2e-08
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	3e-06
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	4e-06
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	4e-06
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	6e-06
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	8e-06
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	1e-05
2wt7_B	90	Transcription factor MAFB; transcription, transcri	7e-05
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	1e-04

>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1 Length = 55

 Score = 51.3 bits (123), Expect = 8e-10
 Identities = 14/40 (35%), Positives = 25/40 (62%)

Query: 33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQ 72
          ++  R++ NRE+AR SR +K++++  L  +VA L   N  
Sbjct: 1  KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKT 40

>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA complex, transcription/DNA complex; 3.00A {Homo sapiens} SCOP: h.1.3.1 Length = 61

 Score = 48.1 bits (115), Expect = 1e-08
 Identities = 15/66 (22%), Positives = 31/66 (46%), Gaps = 7/66 (10%)

Query: 33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS 92
          ++RK +  NR +A RSR +++  +  L  +   L   N Q+ + +         + +E +
Sbjct: 1  KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVT-------LLRNEVA 53

Query: 93 VLRAQL 98
           L+  L
Sbjct: 54 QLKQLL 59

>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1 Length = 63

 Score = 47.7 bits (114), Expect = 2e-08
 Identities = 15/69 (21%), Positives = 31/69 (44%), Gaps = 7/69 (10%)

Query: 33  RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS 92
           +K K+M  N+ +A R R +K+   + L  +  +L K N  +    +       ++  E  
Sbjct: 2   KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERAD-------SLAKEIQ 54

Query: 93  VLRAQLGEL 101
            L+  + E+
Sbjct: 55  YLKDLIEEV 63

>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding, eukaryotic regulatory protein, transcription/DNA complex; HET: DNA; 2.20A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D Length = 63

 Score = 41.7 bits (98), Expect = 3e-06
 Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 15/70 (21%)

Query: 31  DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
           D    KR   N E+ARRSR RK + +  L  +V +L   N+               +E+E
Sbjct: 8   DPAALKRA-RNTEAARRSRARKLQRMKQLEDKVEELLSKNYH--------------LENE 52

Query: 91  NSVLRAQLGE 100
            + L+  +GE
Sbjct: 53  VARLKKLVGE 62

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D Length = 63

 Score = 41.7 bits (98), Expect = 4e-06
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 7/67 (10%)

Query: 32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESEN 91
          +++R R   N+ +A + R R+++  D L A+  QL  +   + T I        N+  E 
Sbjct: 1  EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIA-------NLLKEK 53

Query: 92 SVLRAQL 98
            L   L
Sbjct: 54 EKLEFIL 60

>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 Length = 70

 Score = 41.9 bits (98), Expect = 4e-06
 Identities = 18/65 (27%), Positives = 28/65 (43%)

Query: 31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
           +   KR   NR + R  R RK+ HL  L  QV  L++ +       +   Q    +E E
Sbjct: 6  QEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEE 65

Query: 91 NSVLR 95
            +L+
Sbjct: 66 LRILK 70

>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A Length = 62

 Score = 41.2 bits (97), Expect = 6e-06
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 14/75 (18%)

Query: 33  RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENS 92
           +  ++ + NR +A +SR RK + +  L  +V  L+  N +              + S  +
Sbjct: 1   KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSE--------------LASTAN 46

Query: 93  VLRAQLGELTHRLHS 107
           +LR Q+ +L  ++ +
Sbjct: 47  MLREQVAQLKQKVMN 61

>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1 Length = 87

 Score = 41.5 bits (97), Expect = 8e-06
 Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 7/75 (9%)

Query: 31  DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE 90
               + R   N  + R+SR + +    +   +V +L  +N ++   +         +  E
Sbjct: 13  SDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVE-------QLSRE 65

Query: 91  NSVLRAQLGELTHRL 105
            S LR    +L   L
Sbjct: 66  LSTLRNLFKQLPEPL 80

>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor, acetylation, DNA-binding, isopeptide bond, nucleus; 2.80A {Mus musculus} Length = 107

 Score = 41.2 bits (96), Expect = 1e-05
 Identities = 14/80 (17%), Positives = 39/80 (48%), Gaps = 7/80 (8%)

Query: 29  LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE 88
           ++  ++R+R + NR  A   R+++    ++L  Q A+L+++  ++            +++
Sbjct: 33  IIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKL-------ASENASMK 85

Query: 89  SENSVLRAQLGELTHRLHSL 108
            E   LR++   L +   ++
Sbjct: 86  LELDALRSKYEALQNFARTV 105

>2wt7_B Transcription factor MAFB; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 2wty_A* 1k1v_A Length = 90

 Score = 38.8 bits (90), Expect = 7e-05
 Identities = 13/80 (16%), Positives = 30/80 (37%), Gaps = 14/80 (17%)

Query: 29  LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIE 88
           ++  ++++R + NR  A+  R ++ +    L  +  QL +   Q              ++
Sbjct: 23  VIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQ--------------LK 68

Query: 89  SENSVLRAQLGELTHRLHSL 108
            E S L  +      +   L
Sbjct: 69  QEVSRLARERDAYKVKSEKL 88

>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA complex, transcription factor, BZIP, C/EBP; 1.80A {Homo sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A 1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A Length = 78

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 13/72 (18%), Positives = 27/72 (37%), Gaps = 7/72 (9%)

Query: 30  MDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIES 89
                + R   N  + R+SR + +    +   +V +L  +N ++   +         +  
Sbjct: 12  HSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVE-------QLSR 64

Query: 90  ENSVLRAQLGEL 101
           E S LR    +L
Sbjct: 65  ELSTLRNLFKQL 76

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	172
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	99.59
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	99.41
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	99.3
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	99.29
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	99.21
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	99.14
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	99.0
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	98.68
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	98.67
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	98.52
2wt7_B	90	Transcription factor MAFB; transcription, transcri	98.12
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	97.03
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.73
1deb_A	54	APC protein, adenomatous polyposis coli protein; c	96.22
1skn_P	92	DNA-binding domain of SKN-1; complex (transcriptio	96.08
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	96.08
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	95.79
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	95.4
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	95.13
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	94.93
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	94.65
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	94.42
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	94.28
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	93.46
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	93.42
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	93.42
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	93.24
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	92.44
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	92.43
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	92.33
3vmx_A	48	Voltage-gated hydrogen channel 1; coiled-coil, ION	92.25
2c9l_Y	63	EB1, zebra, BZLF1 trans-activator protein; viral p	92.16
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	92.14
3a2a_A	58	Voltage-gated hydrogen channel 1; voltage-gated pr	91.86
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	91.67
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	91.35
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	91.25
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	91.21
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	90.3
2zxx_A	79	Geminin; coiled-coil, cell cycle, coiled coil, DNA	90.21
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	90.16
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	90.07
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	89.87
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	89.59
3m48_A	33	General control protein GCN4; leucine zipper, synt	89.55
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	89.39
1kd8_B	36	GABH BLL, GCN4 acid base heterodimer base-D12LA16L	89.15
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	89.02
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.9
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	88.83
1kd8_A	36	GABH AIV, GCN4 acid base heterodimer acid-D12IA16V	88.77
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	88.4
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	88.2
1wlq_A	83	Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2z	88.16
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	87.79
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	87.58
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	87.06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	86.79
2kz5_A	91	Transcription factor NF-E2 45 kDa subunit; structu	86.7
3c3f_A	34	Alpha/beta peptide with the GCN4-PLI SIDE chain S	86.59
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	86.32
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	86.23
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	86.11
1dip_A	78	Delta-sleep-inducing peptide immunoreactive peptid	85.97
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	85.96
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	85.6
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	85.57
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	85.53
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	85.48
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	84.9
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	84.89
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	84.73
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	84.66
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	84.51
3c3g_A	33	Alpha/beta peptide with the GCN4-PLI SIDE chain S	84.43
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	84.24
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	84.16
3ra3_A	28	P1C; coiled coil domain, fiber, KIH interactions,	83.98
1fmh_A	33	General control protein GCN4; coiled coil, leucine	83.68
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	83.61
2hy6_A	34	General control protein GCN4; protein design, para	83.51
1t6f_A	37	Geminin; coiled-coil, cell cycle; 1.47A {Synthetic	83.24
3bas_A	89	Myosin heavy chain, striated muscle/general contro	83.05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	82.77
2wq1_A	33	General control protein GCN4; TAA, nucleus, coiled	82.56
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	82.5
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	82.41
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	82.11
2bni_A	34	General control protein GCN4; four helix bundle, a	82.06
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	82.03
1uo4_A	34	General control protein GCN4; four helix bundle, c	81.58
1ik9_A	213	DNA repair protein XRCC4; DNA END joining, double-	80.95
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	80.77
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	80.53
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	80.44

>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1

Probab=99.59  E-value=1.5e-15  Score=101.99  Aligned_cols=52  Identities=31%  Similarity=0.531  Sum_probs=47.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHY   84 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~   84 (172)
                      |+.+||++||+||++||+||++|+++|+.+|..|+.+|..|..++..|++.|
T Consensus         1 kr~rR~~~NResA~rSR~RKk~~~~~LE~~v~~L~~eN~~L~~~~~~L~~~~   52 (55)
T 1dh3_A            1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLY   52 (55)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             ChHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5789999999999999999999999999999999999999988888776544

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=99.41  E-value=9.8e-13  Score=90.00  Aligned_cols=51  Identities=25%  Similarity=0.362  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      |||++|+++||+||++||.||++++++|+.+|..|+.+|..|..++..|..
T Consensus         1 Ekr~rrrerNR~AA~rcR~rKk~~~~~Le~~v~~L~~~n~~L~~ei~~L~~   51 (63)
T 2wt7_A            1 EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLK   51 (63)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478999999999999999999999999999999998877777766654433

>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA complex, transcription/DNA complex; 3.00A {Homo sapiens} SCOP: h.1.3.1

Probab=99.30  E-value=1.3e-11  Score=83.71  Aligned_cols=49  Identities=24%  Similarity=0.387  Sum_probs=43.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      ||.+|+++||+||++||.||++++++|+.+|..|+.+|..|..++..|.
T Consensus         1 kR~~r~erNr~AA~k~R~rKk~~~~~Le~~~~~L~~~n~~L~~~i~~L~   49 (61)
T 1t2k_D            1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLR   49 (61)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999988888877765543

>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding, eukaryotic regulatory protein, transcription/DNA complex; HET: DNA; 2.20A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D

Probab=99.29  E-value=5.8e-12  Score=86.50  Aligned_cols=46  Identities=28%  Similarity=0.364  Sum_probs=40.1

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 044691           39 ISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHY   84 (172)
Q Consensus        39 lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~   84 (172)
                      .+||+||+|||.||++|+++|+.+|..|+.+|..|..++..|++.+
T Consensus        15 ~rNreAArrsR~RK~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~l   60 (63)
T 2dgc_A           15 ARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLV   60 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4599999999999999999999999999998888887777766544

>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A

Probab=99.21  E-value=3.5e-11  Score=81.85  Aligned_cols=49  Identities=24%  Similarity=0.432  Sum_probs=42.7

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           34 KRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        34 r~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      +.+|..+||+||++||.||++++++|+.+|..|+.+|..|..++..|..
T Consensus         2 ~errr~rNr~AA~k~R~rKk~~~~~Le~~v~~L~~~n~~L~~~v~~L~~   50 (62)
T 1jnm_A            2 AERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLRE   50 (62)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677889999999999999999999999999999888888877665433

>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=99.14  E-value=1.7e-10  Score=80.98  Aligned_cols=60  Identities=28%  Similarity=0.330  Sum_probs=45.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           34 KRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSV   93 (172)
Q Consensus        34 r~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~   93 (172)
                      ..||+..||.|+|.+|.||.+|+.+|+.+|..|+..+..|..++..|..++..|..||..
T Consensus         9 ~~kR~~qNR~AQRafReRK~~~i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~   68 (70)
T 1gd2_E            9 SSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRI   68 (70)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468899999999999999999999999999999988887654444444444444444433

>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1

Probab=99.00  E-value=1.1e-09  Score=74.87  Aligned_cols=48  Identities=25%  Similarity=0.374  Sum_probs=37.3

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      |+.+++.+||.||+|+|.||+++.++|+.++..|+.+|..|..++..|
T Consensus         2 k~~rKr~rNr~AA~R~R~KKk~~~~~le~~~~~L~~~N~~L~~~i~~L   49 (63)
T 1ci6_A            2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSL   49 (63)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677888999999999999999999999999999988877777666543

>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA complex, transcription factor, BZIP, C/EBP; 1.80A {Homo sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A 1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A

Probab=98.68  E-value=1.2e-07  Score=67.61  Aligned_cols=49  Identities=16%  Similarity=0.208  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINI   79 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~   79 (172)
                      |+....|..+|.++|+|||.++++...+++.++..|+.||..|..+|..
T Consensus        13 d~~Y~~rR~rNN~AakrSR~krk~r~~e~~~r~~~L~~eN~~L~~~v~~   61 (78)
T 1gu4_A           13 SDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQ   61 (78)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566789999999999999999999999999887766666655543

>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1

Probab=98.67  E-value=1.4e-07  Score=68.49  Aligned_cols=62  Identities=21%  Similarity=0.295  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           31 DQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        31 deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      |++...|..+|.++|+|||.++++...+++.++..|+.                     ||..|++++..|...+..|..
T Consensus        13 d~~Y~~rR~rNN~AarrSR~krk~r~~e~~~r~~~Le~---------------------EN~~Lr~~v~~L~~E~~~Lr~   71 (87)
T 1hjb_A           13 SDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTA---------------------ENERLQKKVEQLSRELSTLRN   71 (87)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHH
Confidence            44566667899999999999999999999888888765                     555555555556666666666


Q ss_pred             HHH
Q 044691          111 IIS  113 (172)
Q Consensus       111 il~  113 (172)
                      ++.
T Consensus        72 ll~   74 (87)
T 1hjb_A           72 LFK   74 (87)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor, acetylation, DNA-binding, isopeptide bond, nucleus; 2.80A {Mus musculus}

Probab=98.52  E-value=2.8e-09  Score=80.21  Aligned_cols=70  Identities=23%  Similarity=0.467  Sum_probs=50.8

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           29 LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        29 ~~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      ..+-|.+||.++||.+|+.||.||.+..++||.++..|+.+...|              ..||..|+.++..|..++..|
T Consensus        33 ~~~lK~~RR~lKNR~yAq~CR~rk~~~~~~LE~e~~~L~~e~e~L--------------~~En~~l~~E~~~lk~k~e~L   98 (107)
T 3a5t_A           33 IIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKL--------------ASENASMKLELDALRSKYEAL   98 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTTTTT--------------TSTTSHHHHTTTSSSSCC---
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHH
Confidence            345588999999999999999999999999998888777665555              456777777777777666666


Q ss_pred             HHHH
Q 044691          109 NEII  112 (172)
Q Consensus       109 ~~il  112 (172)
                      ..++
T Consensus        99 ~~~a  102 (107)
T 3a5t_A           99 QNFA  102 (107)
T ss_dssp             ----
T ss_pred             HHHH
Confidence            5544

>2wt7_B Transcription factor MAFB; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 2wty_A* 1k1v_A

Probab=98.12  E-value=2.7e-05  Score=56.85  Aligned_cols=65  Identities=18%  Similarity=0.270  Sum_probs=49.5

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           29 LMDQRKRKRMISNRESARRSRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHS  107 (172)
Q Consensus        29 ~~deRr~rR~lsNRESARRSR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~  107 (172)
                      ...-|.+||-++||..|+-+|.||....++||.++..|..+...|.              .||..+..++..+..++..
T Consensus        23 v~~lKq~RRtlKNRgyAq~CR~Kr~~q~~~LE~e~~~L~~e~~~L~--------------~e~~~~~~e~d~~k~k~~~   87 (90)
T 2wt7_B           23 VIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLK--------------QEVSRLARERDAYKVKSEK   87 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHH
Confidence            4566888999999999999999999999999998888876666555              4455555555555555543

>2oqq_A Transcription factor HY5; homodimer leucine zipper; 2.00A {Arabidopsis thaliana}

Probab=97.03  E-value=0.0019  Score=40.89  Aligned_cols=39  Identities=26%  Similarity=0.432  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      +.|+.+||.++..|+..|.+|..++..       |..||.-||+-+
T Consensus         2 KaYl~eLE~r~k~le~~naeLEervst-------Lq~EN~mLRqvl   40 (42)
T 2oqq_A            2 SAYLSELENRVKDLENKNSELEERLST-------LQNENQMLRHIL   40 (42)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhHHHHHHHh
Confidence            579999999999999888888776654       678999998755

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

Probab=96.73  E-value=0.018  Score=41.18  Aligned_cols=57  Identities=21%  Similarity=0.330  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +.-|..++..|+.+|..|..++..+......+..||..|+.+......||+.|-.-+
T Consensus        22 I~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLgk~   78 (81)
T 2jee_A           22 ITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGRM   78 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            334556777777777777777777777777788899999999988888888775543

>1deb_A APC protein, adenomatous polyposis coli protein; coiled coil, tumor suppressor, structural protein; 2.40A {Homo sapiens} SCOP: h.1.18.1

Probab=96.22  E-value=0.022  Score=37.50  Aligned_cols=48  Identities=25%  Similarity=0.426  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      .+.|-.||+.|+.||.-|++++..-..++.+|+.|-.-+++-+..|..
T Consensus         5 YdQL~~QVe~Lk~ENshLrrEL~dNS~~lskLE~ets~mKevlk~lq~   52 (54)
T 1deb_A            5 YDQLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVLKQLQG   52 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHcc
Confidence            578999999999999999999999999999999998888876665543

>1skn_P DNA-binding domain of SKN-1; complex (transcription factor/DNA), transcription/DNA complex; HET: DNA LDA; 2.50A {Caenorhabditis elegans} SCOP: a.37.1.1

Probab=96.08  E-value=0.0035  Score=45.72  Aligned_cols=32  Identities=28%  Similarity=0.301  Sum_probs=26.4

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 044691           30 MDQRKRKRMISNRESARRSRMRKQKHLDDLMA   61 (172)
Q Consensus        30 ~deRr~rR~lsNRESARRSR~RKq~~leeLe~   61 (172)
                      ...|..||..+||.+|+++|.||....+.|+.
T Consensus        59 ~~ir~~RRR~KNr~AA~~CRkrK~~~~d~l~~   90 (92)
T 1skn_P           59 QLIRKIRRRGKNKVAARTCRQRRTDRHDKMSH   90 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTTC--
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhc
Confidence            34578889999999999999999998877653

>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=0.082  Score=40.69  Aligned_cols=63  Identities=13%  Similarity=0.169  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           51 RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        51 RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      +.++..+.|+.++..+..|...|..++..+..++..+..++..|+.++.+|..++..|+.-+.
T Consensus        72 k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~~  134 (138)
T 3hnw_A           72 KAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELN  134 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667888888888888888888888888888888888888888888888888888765543

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

Probab=95.79  E-value=0.15  Score=36.35  Aligned_cols=60  Identities=18%  Similarity=0.132  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      .-++.|+.+|.++-....-|.-++..|+++...+..+|..++.....|.+....|..-..
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~   65 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQN   65 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            347889999999988888888888888888888888888865555555555444444433

>2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus}

Probab=95.40  E-value=0.08  Score=35.91  Aligned_cols=41  Identities=27%  Similarity=0.289  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRA   96 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRa   96 (172)
                      +..-|++|.+|.+-|..|..++..+...++.|..||..||.
T Consensus        22 LaaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~~Lr~   62 (63)
T 2w6a_A           22 LATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENLQLRQ   62 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhhhhcc
Confidence            45568899999999999999999999999999999999984

>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1

Probab=95.13  E-value=0.067  Score=38.47  Aligned_cols=54  Identities=20%  Similarity=0.338  Sum_probs=33.0

Q ss_pred             HHHHHHHHHhHHHHHHHHH---HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRM---RKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYM   85 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~---RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~   85 (172)
                      +||.|=-++=|-|-...|.   --+..++.|+.+-..|+.+...|..++..|...+.
T Consensus        18 ~rR~rNN~AarrSR~krk~r~~e~~~r~~~Le~EN~~Lr~~v~~L~~E~~~Lr~ll~   74 (87)
T 1hjb_A           18 IRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFK   74 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444433343333333333   34567889999999999888877766665554443

>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1

Probab=94.93  E-value=0.096  Score=35.15  Aligned_cols=40  Identities=18%  Similarity=0.315  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      ...+..+..+...|+.+|..|+.++..|...+..|..+|.
T Consensus        22 k~~~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~Lk~ll~   61 (63)
T 1ci6_A           22 RAEQEALTGECKELEKKNEALKERADSLAKEIQYLKDLIE   61 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4456777888889999999999999999999999998874

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=94.65  E-value=0.13  Score=34.42  Aligned_cols=40  Identities=18%  Similarity=0.234  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           75 TSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISF  114 (172)
Q Consensus        75 ~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~  114 (172)
                      ..+..|...+..|+.+|..|+.++..|...+..|..++..
T Consensus        23 ~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk~~l~~   62 (63)
T 2wt7_A           23 ELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFILAA   62 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4467778888999999999999999999999999998854

>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA complex, transcription/DNA complex; 3.00A {Homo sapiens} SCOP: h.1.3.1

Probab=94.42  E-value=0.16  Score=33.57  Aligned_cols=38  Identities=13%  Similarity=0.243  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           75 TSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        75 ~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ..+..|...+..|+.+|..|+.++..|+..+..|..+|
T Consensus        22 ~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk~~l   59 (61)
T 1t2k_D           22 VWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLL   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45677788888999999999999999999999988776

>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA complex, transcription factor, BZIP, C/EBP; 1.80A {Homo sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A 1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A

Probab=94.28  E-value=0.34  Score=34.07  Aligned_cols=37  Identities=16%  Similarity=0.324  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           76 SINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        76 ~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      ....+.+.+..|+.||..|+.++..|...+..|..+|
T Consensus        37 r~~e~~~r~~~L~~eN~~L~~~v~~L~~E~~~Lr~ll   73 (78)
T 1gu4_A           37 RNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF   73 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445667777888888888888888888888777665

>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=93.46  E-value=0.26  Score=36.29  Aligned_cols=30  Identities=13%  Similarity=0.222  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHY   84 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~   84 (172)
                      .+..|..+|..|+.||..|..++..|.-++
T Consensus        13 ~~~~lr~ei~~Le~E~~rLr~~~~~LE~~L   42 (100)
T 1go4_E           13 EADTLRLKVEELEGERSRLEEEKRMLEAQL   42 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666777777777777777776665443

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

Probab=93.42  E-value=1.1  Score=34.31  Aligned_cols=58  Identities=12%  Similarity=0.080  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           59 LMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        59 Le~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      +..++..|+.+...+..++..+......+..++..++.++.+|..++..|..-+..++
T Consensus        73 ~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le  130 (138)
T 3hnw_A           73 AKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLE  130 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566666666666666666666666666666666666777777666666665554

>3he5_A Synzip1; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=93.42  E-value=0.4  Score=30.43  Aligned_cols=44  Identities=20%  Similarity=0.226  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      .+..|+.+|+.|+.||..|....-.-+....-|+.|-..||..+
T Consensus         4 lvaqlenevaslenenetlkkknlhkkdliaylekeianlrkki   47 (49)
T 3he5_A            4 LVAQLENEVASLENENETLKKKNLHKKDLIAYLEKEIANLRKKI   47 (49)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccHHHHHhcccHHHHHHHHHHHHHHHHHHh
Confidence            35678999999999999998776555555555666666665554

>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=93.24  E-value=0.6  Score=34.52  Aligned_cols=42  Identities=12%  Similarity=0.196  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIIT-------SINIATQHYMNIESENSVLRAQ   97 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~-------~l~~l~q~~~~le~EN~~LRaq   97 (172)
                      .-+|+..++.|+.||..|+.       ++..|...+..|.+||..|+.+
T Consensus        39 Yl~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe~everL~~ENq~L~~e   87 (104)
T 3s9g_A           39 YLELEKSLSRMEDENNRLRLESKRLDARVRELELELDRLRAENLQLLTE   87 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34678888888888877776       4444444444455555555444

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=92.44  E-value=1.1  Score=32.78  Aligned_cols=52  Identities=15%  Similarity=0.238  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           54 KHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        54 ~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      ..+..|+.+++....+...|...+..-......++.++..+..++.+|+.-|
T Consensus        12 e~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTasL   63 (97)
T 2eqb_B           12 EDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASL   63 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555556666666666666666666666666666666544

>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F 2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A

Probab=92.43  E-value=0.18  Score=33.44  Aligned_cols=40  Identities=15%  Similarity=0.238  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      ...+..|...+..|+.+|..|+.++..|...+..|..+|-
T Consensus        21 k~~~~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~Lk~~l~   60 (62)
T 1jnm_A           21 LERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQKVM   60 (62)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677888888999999999999999999888877663

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

Probab=92.33  E-value=1.9  Score=42.63  Aligned_cols=57  Identities=19%  Similarity=0.328  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINI----ATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~----l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      ++.+++|+.++..+.+|...+..++..    |.++...|+.||..|++++.+|...+...+
T Consensus       990 ~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~~~~~~~~ 1050 (1080)
T 2dfs_A          990 QEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQA 1050 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444332    234445566777777777777765554443

>3vmx_A Voltage-gated hydrogen channel 1; coiled-coil, ION channel, ION transport, membrane protein; 1.45A {Mus musculus}

Probab=92.25  E-value=0.77  Score=29.70  Aligned_cols=39  Identities=26%  Similarity=0.183  Sum_probs=33.8

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           60 MAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        60 e~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      +.++..|+.-|..|..++..|...|..++.|+..|++=+
T Consensus         3 eq~l~kLKe~n~~L~~kv~~Le~~c~~~eQEieRL~~LL   41 (48)
T 3vmx_A            3 ERQILRLKQINIQLATKIQHLEFSCSEKEQEIERLNKLL   41 (48)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHH
Confidence            567888999999999999999999999999988887644

>2c9l_Y EB1, zebra, BZLF1 trans-activator protein; viral protein, epstein-BARR virus, EBV; 2.25A {Human herpesvirus 4} SCOP: h.1.3.1 PDB: 2c9n_Y

Probab=92.16  E-value=0.96  Score=30.22  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=19.0

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHH
Q 044691           38 MISNRESARRSRMRKQKHLDDLMA   61 (172)
Q Consensus        38 ~lsNRESARRSR~RKq~~leeLe~   61 (172)
                      .-+||.++|++|.|=++.++....
T Consensus         6 ryknr~asrk~rakfkn~lqh~r~   29 (63)
T 2c9l_Y            6 RYKNRVAARKSRAKFKQLLQHYRE   29 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468999999999998877655443

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

Probab=92.14  E-value=1.3  Score=31.29  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           83 HYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        83 ~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      ++..+..|...||.+++++...|.
T Consensus        28 Ql~~Lq~Ev~~LRGqiE~~~~~l~   51 (83)
T 2xdj_A           28 QLSDNQSDIDSLRGQIQENQYQLN   51 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHH
Confidence            333333334444444444333333

>3a2a_A Voltage-gated hydrogen channel 1; voltage-gated proton channel, alternative splicing, coiled C transport, ionic channel, membrane, transmembrane; 2.00A {Homo sapiens}

Probab=91.86  E-value=0.53  Score=31.37  Aligned_cols=40  Identities=23%  Similarity=0.152  Sum_probs=33.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           60 MAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLG   99 (172)
Q Consensus        60 e~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~   99 (172)
                      +.++..|+.-|-.|..++..|+.+|...+.|+..|++-+.
T Consensus        10 e~q~~kLKq~n~~L~~kv~~Le~~c~e~eQEieRL~~LLk   49 (58)
T 3a2a_A           10 ERQLLRLKQMNVQLAAKIQHLEFSCSEKEQEIERLNKLLR   49 (58)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4678888889999999999999999999999988876443

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

Probab=91.67  E-value=1.8  Score=38.40  Aligned_cols=59  Identities=19%  Similarity=0.184  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      .+.+..++.+.+.+..+++.+..+++...+.+..++.|...|+.++.+-.+++..+.+-
T Consensus       508 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e  566 (597)
T 3oja_B          508 NKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQE  566 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHH
Confidence            33444555666666677777777777777777777777777766665555555544433

>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=91.35  E-value=0.42  Score=32.97  Aligned_cols=38  Identities=21%  Similarity=0.239  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           71 HQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSL  108 (172)
Q Consensus        71 ~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l  108 (172)
                      ..|..++..+......+..||..|+.++..|..++..|
T Consensus        32 ~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~l   69 (70)
T 1gd2_E           32 KALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRIL   69 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34455555566666677888899999888888887654

>1p9i_A Cortexillin I/GCN4 hybrid peptide; coiled-coil, unknown function; 1.17A {Synthetic} SCOP: h.1.10.1

Probab=91.25  E-value=0.31  Score=28.28  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 044691           83 HYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        83 ~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      -+..+++||..|++.+.+|-.++
T Consensus         7 llasleaenkqlkakveellakv   29 (31)
T 1p9i_A            7 LLASLEAENKQLKAKVEELLAKV   29 (31)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            45667888999999888886654

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=91.21  E-value=2  Score=30.10  Aligned_cols=61  Identities=15%  Similarity=0.192  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIA------TQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l------~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      -|+.++.|+.++..|+.+...|...+..-      -..+..+..+-..+..++..+-.|+..|.++.
T Consensus        20 eqrEle~le~~Ie~LE~~i~~le~~ladp~~y~~d~~~~~~l~~~l~~~e~eLe~~~erWeeLe~~~   86 (89)
T 2lw1_A           20 LQRELEQLPQLLEDLEAKLEALQTQVADASFFSQPHEQTQKVLADMAAAEQELEQAFERWEYLEALK   86 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            35578999999999999999999988642      24667778888888888888888888776654

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

Probab=90.30  E-value=3.8  Score=29.46  Aligned_cols=55  Identities=11%  Similarity=0.062  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      -....+.++.++..++..+..+..++..|+.++..++.+-..+..++.+...+|.
T Consensus        21 a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLe   75 (101)
T 3u1c_A           21 ALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLL   75 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555666666666666666666666666666665555555555544444333

>2zxx_A Geminin; coiled-coil, cell cycle, coiled coil, DNA replication inhibitor, phosphoprotein, DNA-binding, nucleus, proto-oncogene; HET: DNA; 2.80A {Mus musculus}

Probab=90.21  E-value=0.83  Score=32.34  Aligned_cols=44  Identities=23%  Similarity=0.366  Sum_probs=33.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           68 KDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        68 ~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .||..|..++..+...+..|..||..|+    +|...++.|-+||+.+
T Consensus        34 ~EN~~Lh~~ie~~~eEi~~LkeEN~~L~----el~~~~~~laevl~~l   77 (79)
T 2zxx_A           34 KENEKLHKEIEQKDSEIARLRKENKDLA----EVAEHVQYMAEVIERL   77 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Confidence            5889999999988888888899998874    5556666666666543

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

Probab=90.16  E-value=2.4  Score=29.41  Aligned_cols=47  Identities=15%  Similarity=0.224  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      .++..++..++.+|..|..++..+++.+..-..+-..++.++..+..
T Consensus         3 ~~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~~e   49 (72)
T 3cve_A            3 HNSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTLLE   49 (72)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            36778888999999999999999998888888777777777665443

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

Probab=90.07  E-value=2.7  Score=33.99  Aligned_cols=61  Identities=20%  Similarity=0.218  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      +..|+.++..|+..+..|...|..|.+....++....++..-+..+..++...-+-..+++
T Consensus        90 ~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~alLE  150 (189)
T 2v71_A           90 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFLE  150 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            3444444445555555555555555555555555555555555555555555555444443

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=89.87  E-value=3.5  Score=28.98  Aligned_cols=61  Identities=10%  Similarity=0.206  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      =++.+..-.+++..|+.-...|..--..+..-+..++.|-..|...+.-|+++...|..++
T Consensus        16 l~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL~~~l   76 (78)
T 3iv1_A           16 MKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEELSSAL   76 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3566777788888888888888888788888888888888888888888888888776553

>2oxj_A Hybrid alpha/beta peptide based on the GCN4-P1 Se heptad positions B and F substituted...; helix bundle, foldamer, unknown function; HET: B3K B3D B3E B3S B3Y B3X B3A BAL; 2.00A {Synthetic} PDB: 2oxk_A*

Probab=89.59  E-value=0.75  Score=27.70  Aligned_cols=26  Identities=15%  Similarity=0.180  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      ++..||.+|..|-.+|..|..++..|
T Consensus         2 RMnQLE~kVEeLl~~n~~Le~eV~rL   27 (34)
T 2oxj_A            2 RMXQLEXKVXELLXKNXHLEXEVXRL   27 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            46677777777776666666555444

>3m48_A General control protein GCN4; leucine zipper, synthetic peptide, alpha helix, activa amino-acid biosynthesis, DNA-binding, nucleus; 1.45A {Synthetic} PDB: 3i1g_A 2ahp_A* 2o7h_A

Probab=89.55  E-value=0.45  Score=28.55  Aligned_cols=26  Identities=19%  Similarity=0.266  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      +..||.+|..|-.+|..|..++..|+
T Consensus         2 M~QLE~kVEeLl~~n~~Le~EV~RLk   27 (33)
T 3m48_A            2 MAQLEAKVEELLSKNWNLENEVARLK   27 (33)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            45677777777776666666655443

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=89.39  E-value=1.3  Score=30.95  Aligned_cols=48  Identities=8%  Similarity=0.106  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      ++.+||.+++-++.       .|..|......-..+-..|+.++..|..|++.+.
T Consensus        15 Ri~~LE~klAfqE~-------tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~   62 (78)
T 3efg_A           15 RLVELETRLSFQEQ-------ALTELSEALADARLTGARNAELIRHLLEDLGKVR   62 (78)
T ss_dssp             HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            44455555554444       4444444444444555556666666666655544

>1kd8_B GABH BLL, GCN4 acid base heterodimer base-D12LA16L; coiled coil heterodimer, de novo protein; 1.90A {Synthetic} SCOP: h.1.3.1 PDB: 1kd9_B 1kdd_B

Probab=89.15  E-value=0.98  Score=27.51  Aligned_cols=28  Identities=14%  Similarity=0.266  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      ++..|+.+|..|-.+|..|..++..|+.
T Consensus         2 RMnQLE~KVEeLl~~~~~Le~eV~RLk~   29 (36)
T 1kd8_B            2 KVKQLKAKVEELKSKLWHLKNKVARLKK   29 (36)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            5667888888887777777666655543

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

Probab=89.02  E-value=5.1  Score=31.44  Aligned_cols=43  Identities=16%  Similarity=0.031  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLG   99 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~   99 (172)
                      .+-..-+..|+.|...|.-+++.+..+...++.||..|-.+.+
T Consensus        92 ~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RWM  134 (152)
T 3a7p_A           92 ALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARWL  134 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333556666777777777777777777777777776655444

>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=88.90  E-value=2.8  Score=31.75  Aligned_cols=49  Identities=22%  Similarity=0.205  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      +.|+.+.++-++..++|..+|..|.+++....+|-..||.+...|..|+
T Consensus        60 ~SL~~ekaq~q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~  108 (121)
T 3mq7_A           60 ASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRI  108 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHh
Confidence            3444444444444555555555555555555666555655555555444

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

Probab=88.83  E-value=3.5  Score=29.02  Aligned_cols=49  Identities=14%  Similarity=0.236  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHR  104 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~r  104 (172)
                      .+++..++..++.+|..|..++..+++.+..-..+-..++.++..+...
T Consensus         8 ~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l~e~   56 (79)
T 3cvf_A            8 REETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRAAQL   56 (79)
T ss_dssp             --CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778888888899999999888888888777777777776654433

>1kd8_A GABH AIV, GCN4 acid base heterodimer acid-D12IA16V; coiled coil heterodimer, de novo protein; 1.90A {Synthetic} SCOP: h.1.3.1 PDB: 1kdd_A 1kd9_A

Probab=88.77  E-value=0.64  Score=28.34  Aligned_cols=28  Identities=11%  Similarity=0.245  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      ++..||.+|..|..+|..|..++..|+.
T Consensus         2 RMnQLE~kVEeLl~~~~~Le~EV~RL~~   29 (36)
T 1kd8_A            2 EVKQLEAEVEEIESEVWHLENEVARLEK   29 (36)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4567888888887777777666655544

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

Probab=88.40  E-value=2.7  Score=34.17  Aligned_cols=60  Identities=18%  Similarity=0.234  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      +++++.-..-|+.|..||..|..++....+....|..+-..|+++...+...+....+-+
T Consensus        12 q~ql~~ad~LV~~L~~En~~L~~ql~~k~~ei~~L~~ql~sl~~~~~~~~~~~~~~~e~i   71 (190)
T 4emc_A           12 KQQIDSADLLVANLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVKELKTQTSQQAENS   71 (190)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhh
Confidence            344455555677777777777777776666666666666666666655554444444433

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

Probab=88.20  E-value=8  Score=30.32  Aligned_cols=47  Identities=15%  Similarity=0.167  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELT  102 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~  102 (172)
                      +.+|+..+..-.+.+..|..++..|.-++..++.....|.++-..|-
T Consensus        84 i~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV  130 (152)
T 3a7p_A           84 IRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLV  130 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333444444444444444444444444444444433

>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2zxx_A*

Probab=88.16  E-value=5.4  Score=28.39  Aligned_cols=46  Identities=22%  Similarity=0.338  Sum_probs=34.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           67 RKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        67 ~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      -.||..|...+..+......+..||..|+    +|....+.|-++|+.+.
T Consensus        37 L~EN~~Lh~~ie~~~eEi~~Lk~en~~L~----elA~~~q~la~~i~~L~   82 (83)
T 1wlq_A           37 LKENEKLHKEIEQKDSEIARLRKENKDLA----EVAEHVQYMAEVIERLS   82 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTH----HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhc
Confidence            35788888888888888888888888765    46667777777777653

>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=87.79  E-value=5.9  Score=35.06  Aligned_cols=58  Identities=12%  Similarity=0.055  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .|+..+..++...+.+..++....+.......+-..|+.+..++..+++.....+..+
T Consensus       506 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l  563 (597)
T 3oja_B          506 NLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAEL  563 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHH
Confidence            3334444444444444444444444444444444444455555555555555444444

>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding, eukaryotic regulatory protein, transcription/DNA complex; HET: DNA; 2.20A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D

Probab=87.58  E-value=0.87  Score=30.48  Aligned_cols=33  Identities=12%  Similarity=0.171  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           74 ITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        74 ~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      ...+..|..+...|..+|..|+.++..|+..|.
T Consensus        29 ~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~l~   61 (63)
T 2dgc_A           29 LQRMKQLEDKVEELLSKNYHLENEVARLKKLVG   61 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345667777888888999999999988877653

>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=87.06  E-value=6.4  Score=28.60  Aligned_cols=77  Identities=16%  Similarity=0.176  Sum_probs=54.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044691           40 SNRESARRSRMRKQKHLDDLMAQVAQLR---KDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLD  116 (172)
Q Consensus        40 sNRESARRSR~RKq~~leeLe~qv~~L~---~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~  116 (172)
                      .|-.+|-..=..|+..+++|...+.+++   ..+..|..++..-...+..-.+.=..|-.+..+|...|..|..-+..++
T Consensus         9 ~~L~~aEeaL~~kq~~id~lke~~~q~~~~~E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~~L~   88 (94)
T 3jsv_C            9 QQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKLK   88 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            4455666666779999999999998888   4566678888888777777667666777777777777776666554443

>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=86.79  E-value=5.6  Score=39.30  Aligned_cols=24  Identities=17%  Similarity=0.300  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           83 HYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        83 ~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      .+..+..+...|..++.+|..++.
T Consensus       914 ~l~~l~~~~~~Le~~l~ele~ele  937 (1184)
T 1i84_S          914 MRVRLAAKKQELEEILHEMEARIE  937 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444433333

>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Homo sapiens}

Probab=86.70  E-value=0.046  Score=39.80  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHH
Q 044691           32 QRKRKRMISNRESARRSRMRKQK   54 (172)
Q Consensus        32 eRr~rR~lsNRESARRSR~RKq~   54 (172)
                      -|..||.-+||.+|+++|.||..
T Consensus        65 IrdiRRRgKNKvAAqnCRKRKld   87 (91)
T 2kz5_A           65 VRDIRRRGKNKVAAQNYRKRKLE   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTSCCCCCCC
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH
Confidence            47788899999999999999853

>3c3f_A Alpha/beta peptide with the GCN4-PLI SIDE chain S AN (alpha-alpha-alpha-beta) backbone...; helix bundle, foldamer, unknown function, de novo protein; HET: B3K B3D B3E BIL B3L BAL; 2.00A {Synthetic} SCOP: h.1.3.1

Probab=86.59  E-value=1.5  Score=26.35  Aligned_cols=27  Identities=0%  Similarity=-0.071  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      ++..||.+|..|-.+|..|..++..|+
T Consensus         2 RMnQLEdKVEeLl~~~~~Le~EV~RLk   28 (34)
T 3c3f_A            2 RMXQIEXKLEXILSXLYHXENEXARIX   28 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            456677777777666666655554443

>3m91_A Proteasome-associated ATPase; coil COIL alpha helix, ATP-binding, chaperone, nucleotide-BI proteasome, S-nitrosylation; 1.80A {Mycobacterium tuberculosis} PDB: 3m9h_A

Probab=86.32  E-value=4.2  Score=26.32  Aligned_cols=20  Identities=20%  Similarity=0.453  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHhHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSI   77 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l   77 (172)
                      +|..++..|...|..|...+
T Consensus        13 ~l~~~l~~L~~rN~rL~~~L   32 (51)
T 3m91_A           13 QLEARIDSLAARNSKLMETL   32 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444333

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

Probab=86.23  E-value=7.5  Score=27.90  Aligned_cols=62  Identities=10%  Similarity=0.215  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           48 SRMRKQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        48 SR~RKq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      .+.++-..+..|..++..|+.+...+...+......+..-+..-..-.+++..|.+|++.|.
T Consensus        38 ~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~RriqllE   99 (101)
T 3u1c_A           38 RSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            33444444445555555555544444444444444444333333334456677777776654

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

Probab=86.11  E-value=11  Score=29.87  Aligned_cols=41  Identities=17%  Similarity=0.213  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           58 DLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQL   98 (172)
Q Consensus        58 eLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~   98 (172)
                      ++...++.++..+..|...+..|......|+.|...|.+++
T Consensus        38 El~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L   78 (168)
T 3o0z_A           38 EMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAIL   78 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555555555555555554444433

>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure, leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP: h.1.12.1

Probab=85.97  E-value=0.62  Score=32.80  Aligned_cols=28  Identities=18%  Similarity=0.294  Sum_probs=17.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           69 DNHQIITSINIATQHYMNIESENSVLRA   96 (172)
Q Consensus        69 EN~~L~~~l~~l~q~~~~le~EN~~LRa   96 (172)
                      |...|+.+|..|..+...|+.||..||.
T Consensus        16 EVevLKe~I~EL~e~~~qLE~EN~~Lk~   43 (78)
T 1dip_A           16 EVEILKEQIRELVEKNSQLERENTLLKT   43 (78)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445556666666666666777777764

>3m91_A Proteasome-associated ATPase; coil COIL alpha helix, ATP-binding, chaperone, nucleotide-BI proteasome, S-nitrosylation; 1.80A {Mycobacterium tuberculosis} PDB: 3m9h_A

Probab=85.96  E-value=4.6  Score=26.12  Aligned_cols=37  Identities=24%  Similarity=0.235  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           79 IATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFL  115 (172)
Q Consensus        79 ~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~  115 (172)
                      .+..+...|...|..|-+-+.+-+++|..|.+.|+.+
T Consensus        13 ~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lkeele~L   49 (51)
T 3m91_A           13 QLEARIDSLAARNSKLMETLKEARQQLLALREEVDRL   49 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444445555566666666666666666666666554

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

Probab=85.60  E-value=7.9  Score=27.59  Aligned_cols=53  Identities=11%  Similarity=0.045  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           52 KQKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHR  104 (172)
Q Consensus        52 Kq~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~r  104 (172)
                      -....+.++.++..++..+..+...+..|+.++..++.+-..+..++.....+
T Consensus        21 a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~k   73 (101)
T 3u59_A           21 AIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEK   73 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666666666666666666666666666555555554444444433

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

Probab=85.57  E-value=7.9  Score=27.54  Aligned_cols=22  Identities=14%  Similarity=0.256  Sum_probs=12.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHH
Q 044691           61 AQVAQLRKDNHQIITSINIATQ   82 (172)
Q Consensus        61 ~qv~~L~~EN~~L~~~l~~l~q   82 (172)
                      .+|..|+.+|..|..++..+.+
T Consensus        23 dKVR~LEqqN~~Le~~i~~l~~   44 (93)
T 3s4r_A           23 DKVRFLEQQNKILLAELEQLKG   44 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            4555566666666555555443

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

Probab=85.53  E-value=0.99  Score=38.11  Aligned_cols=41  Identities=24%  Similarity=0.254  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           77 INIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        77 l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      +..+..++..+...|..|++.+.+++.+|..|.+-++.+..
T Consensus        56 l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~s   96 (251)
T 3m9b_A           56 IHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQ   96 (251)
T ss_dssp             HHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            34455556666677777777788888888888888877764

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

Probab=85.48  E-value=13  Score=29.96  Aligned_cols=47  Identities=19%  Similarity=0.089  Sum_probs=27.9

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           60 MAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLH  106 (172)
Q Consensus        60 e~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~  106 (172)
                      ...+..|+.+...|......+..++..|+..|.-|.........-|.
T Consensus        87 ~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~Sle  133 (189)
T 2v71_A           87 YKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLE  133 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHH
Confidence            34466666666666666666666666666666666554444444444

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

Probab=84.90  E-value=16  Score=36.19  Aligned_cols=27  Identities=15%  Similarity=0.228  Sum_probs=10.2

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 044691           63 VAQLRKDNHQIITSINIATQHYMNIES   89 (172)
Q Consensus        63 v~~L~~EN~~L~~~l~~l~q~~~~le~   89 (172)
                      +..|+.+...|..++..+......++.
T Consensus       986 v~~L~~e~~~l~~~~~~~~ke~~~lee 1012 (1080)
T 2dfs_A          986 VLSLQEEIAKLRKELHQTQTEKKTIEE 1012 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333

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

Probab=84.73  E-value=1.8  Score=36.49  Aligned_cols=36  Identities=19%  Similarity=0.412  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESE   90 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~E   90 (172)
                      .+.+|+.++..|...|..|...+..+++++..|..|
T Consensus        55 ~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeE   90 (251)
T 3m9b_A           55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREE   90 (251)
T ss_dssp             HHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455677777777777766666555444443333333

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

Probab=84.66  E-value=10  Score=28.20  Aligned_cols=70  Identities=16%  Similarity=0.174  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           43 ESARRSRMRKQKHLDDLMAQVAQLRK---DNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEII  112 (172)
Q Consensus        43 ESARRSR~RKq~~leeLe~qv~~L~~---EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il  112 (172)
                      .+|-..=..|+..+++|..++.+++.   ...-|..++..-...+..=.+.=..|-.+..+|..+|..|..-+
T Consensus        34 ~~AEeaL~~Kq~~idelk~ei~q~~~~lE~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~q~  106 (110)
T 2v4h_A           34 QQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREF  106 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHHHH
Confidence            45555555688888888888888777   55667777777766666555555555555555555555554433

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=84.51  E-value=2.4  Score=27.53  Aligned_cols=14  Identities=14%  Similarity=0.256  Sum_probs=6.2

Q ss_pred             HHHHHHHhHHHHHH
Q 044691           62 QVAQLRKDNHQIIT   75 (172)
Q Consensus        62 qv~~L~~EN~~L~~   75 (172)
                      .+..|+.||..|+.
T Consensus        20 d~eaLk~E~~eLk~   33 (53)
T 2yy0_A           20 EIELLRLELAEMKE   33 (53)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHH
Confidence            34444444444443

>3c3g_A Alpha/beta peptide with the GCN4-PLI SIDE chain S AN (alpha-alpha-beta) backbone; helix bundle, foldamer, unknown function protein; HET: HMR B3Q B3D B3E B3L BIL B3K BAL GOL; 1.80A {Synthetic} PDB: 3heu_A* 3het_A* 3hev_A* 3hew_A* 3hey_A* 3hex_A* 3c3h_A*

Probab=84.43  E-value=2.2  Score=25.45  Aligned_cols=25  Identities=0%  Similarity=0.092  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      +..||.+|..|-.+|..|..++..|
T Consensus         2 MnQLEdKvEeLl~~~~~Le~EV~RL   26 (33)
T 3c3g_A            2 MKXIEXKLXEIXSKXYHXENXLARI   26 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHH
Confidence            4567777777766666665555444

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=84.24  E-value=3.3  Score=28.79  Aligned_cols=52  Identities=12%  Similarity=0.059  Sum_probs=27.4

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044691           66 LRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRLHSLNEIISFLDA  117 (172)
Q Consensus        66 L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL~~l~~il~~~~~  117 (172)
                      |+.....|..++.....-+..|-..-..-..++..|+.+|+.|.+-+..+..
T Consensus        12 le~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~~   63 (78)
T 3efg_A           12 LEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRS   63 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            3333344445555555555555555555566667777777777666665554

>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1

Probab=84.16  E-value=1.2  Score=29.03  Aligned_cols=31  Identities=16%  Similarity=0.190  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           75 TSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        75 ~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      ..+..|..+...|+.||..|+.++..|...+
T Consensus        22 ~~~~~LE~~v~~L~~eN~~L~~~~~~L~~~~   52 (55)
T 1dh3_A           22 EYVKSLENRVAVLENQNKTLIEELKALKDLY   52 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4466777778888999999999998887543

>3ra3_A P1C; coiled coil domain, fiber, KIH interactions, synthetic biolo helical reconstruction, de novo protein; HET: PHI; 2.31A {Synthetic}

Probab=83.98  E-value=2  Score=24.32  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           86 NIESENSVLRAQLGELTHRLHSLN  109 (172)
Q Consensus        86 ~le~EN~~LRaq~~eL~~rL~~l~  109 (172)
                      .|+-||..|.+.++.|.+++.+|.
T Consensus         4 alefendaleqkiaalkqkiaslk   27 (28)
T 3ra3_A            4 ALEFENDALEQKIAALKQKIASLK   27 (28)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhccHHHHHHHHHHHHHHHHhc
Confidence            455666666666666666666653

>1fmh_A General control protein GCN4; coiled coil, leucine zipper, inter-helical ION pairing, transcription; NMR {Synthetic} SCOP: k.6.1.1 PDB: 1u2u_A

Probab=83.68  E-value=2.3  Score=24.93  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      +..|+.+|++.+.||-+|.+++..|
T Consensus         3 vaqlekevaqaeaenyqleqevaql   27 (33)
T 1fmh_A            3 VAQLEKEVAQAEAENYQLEQEVAQL   27 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            3456666666655555555544443

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=83.61  E-value=2.6  Score=27.30  Aligned_cols=28  Identities=7%  Similarity=0.096  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           83 HYMNIESENSVLRAQLGELTHRLHSLNE  110 (172)
Q Consensus        83 ~~~~le~EN~~LRaq~~eL~~rL~~l~~  110 (172)
                      .+..|..||..|++++.+|..++..|..
T Consensus        20 d~eaLk~E~~eLk~k~~~L~~~~~el~~   47 (53)
T 2yy0_A           20 EIELLRLELAEMKEKYEAIVEENKKLKA   47 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555444

>2hy6_A General control protein GCN4; protein design, parallel heptamer, protein structure, biosyn protein; 1.25A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 2nrn_A 3crp_A 2b1f_A 3crp_B 2ipz_A 3ck4_A 3ck4_B 2b22_A 1ce9_A

Probab=83.51  E-value=1.9  Score=25.87  Aligned_cols=27  Identities=15%  Similarity=0.262  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      ++..|+.+|..|-.+|..|..++..|+
T Consensus         2 RMnQLEdkVEeLl~~~~~Le~eV~RL~   28 (34)
T 2hy6_A            2 KVKQLADAVEELASANYHLANAVARLA   28 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            456677777777777766666555443

>1t6f_A Geminin; coiled-coil, cell cycle; 1.47A {Synthetic} SCOP: h.1.28.1

Probab=83.24  E-value=2.7  Score=25.63  Aligned_cols=28  Identities=21%  Similarity=0.337  Sum_probs=24.3

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           68 KDNHQIITSINIATQHYMNIESENSVLR   95 (172)
Q Consensus        68 ~EN~~L~~~l~~l~q~~~~le~EN~~LR   95 (172)
                      .||..|...+..-.+++..|..||..|.
T Consensus         7 ~ENekLhk~ie~KdeeIa~Lk~eN~eL~   34 (37)
T 1t6f_A            7 KENEKLHKEIEQKDNEIARLKKENKELA   34 (37)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            5889999999988888999999998875

>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=83.05  E-value=9.8  Score=26.64  Aligned_cols=53  Identities=15%  Similarity=0.210  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           53 QKHLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTHRL  105 (172)
Q Consensus        53 q~~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~rL  105 (172)
                      .....+|+.+...|..+...|..++..+...+..|......|..++.+|..||
T Consensus        34 e~~rkele~~~~~l~~ek~~L~~ql~eaEe~~~~L~~~K~eLE~~l~el~~rl   86 (89)
T 3bas_A           34 ERIKKELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLV   86 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34445677777788888877777788888888888888888888888887776

>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=82.77  E-value=11  Score=37.25  Aligned_cols=17  Identities=35%  Similarity=0.425  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 044691           93 VLRAQLGELTHRLHSLN  109 (172)
Q Consensus        93 ~LRaq~~eL~~rL~~l~  109 (172)
                      .|..+..+|..++..+.
T Consensus       917 ~l~~~~~~Le~~l~ele  933 (1184)
T 1i84_S          917 RLAAKKQELEEILHEME  933 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

>2wq1_A General control protein GCN4; TAA, nucleus, coiled coil, DNA-binding, protein export, ION coordination, polar core residues; 1.08A {Saccharomyces cerevisiae} PDB: 2wq0_A 2wq2_A 2wq3_A 2wpz_A 2wpy_A 1ij0_A 1ij1_A 1gcm_A 1rb5_A 1rb6_A 1rb1_A 1rb4_A 1swi_A 3k7z_A 1zii_A 1zij_A 1ij2_A 1ij3_A 1zil_A 1zim_A ...

Probab=82.56  E-value=3  Score=24.92  Aligned_cols=26  Identities=12%  Similarity=0.087  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      +..||.+|..|-.+|..|..++..++
T Consensus         2 MnQLEdKVEell~~~~~le~EV~Rl~   27 (33)
T 2wq1_A            2 MKQLEDKIEENTSKIYHNTNEIARNT   27 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            55677788877777776666655443

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

Probab=82.50  E-value=6.6  Score=28.97  Aligned_cols=13  Identities=31%  Similarity=0.578  Sum_probs=9.3

Q ss_pred             hhHHHHHHHHHHh
Q 044691           29 LMDQRKRKRMISN   41 (172)
Q Consensus        29 ~~deRr~rR~lsN   41 (172)
                      ..++|-+|-|++|
T Consensus         6 EvEEKyrKAMVsn   18 (103)
T 4h22_A            6 EVEEKYKKAMVSN   18 (103)
T ss_dssp             --CCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4567888889888

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

Probab=82.41  E-value=6.8  Score=27.25  Aligned_cols=49  Identities=16%  Similarity=0.196  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLRAQLGELTH  103 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LRaq~~eL~~  103 (172)
                      ++.+=+.++..|+..-.--.+..+.|.-.+-.+-.||..|..++..|++
T Consensus        26 eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~l~~   74 (75)
T 3a7o_A           26 ELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSDLKK   74 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHHHhc
Confidence            4444445555555444444444555666667788899999888877754

>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=82.11  E-value=9.5  Score=28.84  Aligned_cols=30  Identities=17%  Similarity=0.212  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           84 YMNIESENSVLRAQLGELTHRLHSLNEIIS  113 (172)
Q Consensus        84 ~~~le~EN~~LRaq~~eL~~rL~~l~~il~  113 (172)
                      +..|+.|...|..++.+...++..|..-..
T Consensus        73 vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~  102 (121)
T 3mq7_A           73 VEELEGEITTLNHKLQDASAEVERLRRENQ  102 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Confidence            556666666666666666555555554444

>2bni_A General control protein GCN4; four helix bundle, antiparallel four helix bundle acyl transferase; HET: TYZ; 1.5A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 2ccn_A 1w5k_A* 2ccf_A 2cce_A 1w5j_A* 1uo2_A 1gcl_A 1uo1_A 1unv_A 1uo0_A 1unt_A 1uo5_A 1unz_A 1unx_A 1unu_A 1unw_A 1uo4_A 1uo3_A 1uny_A 1u9f_A* ...

Probab=82.06  E-value=2  Score=25.84  Aligned_cols=26  Identities=8%  Similarity=0.284  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHH
Q 044691           55 HLDDLMAQVAQLRKDNHQIITSINIA   80 (172)
Q Consensus        55 ~leeLe~qv~~L~~EN~~L~~~l~~l   80 (172)
                      ++..||.+|..|-.+|..|..++..|
T Consensus         2 RMnQLEdKvEeLl~~~~~L~~EV~RL   27 (34)
T 2bni_A            2 RMKQIEDKLEEILSKGHHICNELARI   27 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHccHHHHHHHHHH
Confidence            45567777777766666665555444

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

Probab=82.03  E-value=13  Score=27.48  Aligned_cols=29  Identities=10%  Similarity=0.186  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHY   84 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~   84 (172)
                      +..|+.++..++..+..|...+..+..++
T Consensus        47 iq~L~~el~~l~~~~~sLE~~l~e~e~~~   75 (131)
T 3tnu_A           47 MQNLEIELQSQLSMKASLENSLEETKGRY   75 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            34455555555555555555555554443

>1uo4_A General control protein GCN4; four helix bundle, cavity, iodobenzene; 1.70A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1uo3_A 1unt_A 1uo5_A 1unu_A 1unv_A 1uo1_A 2ccf_A 2cce_A 1unx_A 1unw_A 1w5j_A* 1w5k_A* 1u9f_A* 3f86_A* 3f87_A* 3hez_A* 3c3f_A*

Probab=81.58  E-value=2.1  Score=25.72  Aligned_cols=26  Identities=4%  Similarity=0.043  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIAT   81 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~   81 (172)
                      +..||.+|..|-.+|..|..++..|+
T Consensus         3 M~QLEdKVEeLl~~n~~Le~EV~RLk   28 (34)
T 1uo4_A            3 MKQIEDKGEEILSKLYHIENELARIK   28 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            45677777777776666666555443

>1ik9_A DNA repair protein XRCC4; DNA END joining, double-strand break repair, V(D)J recombination, protein-protein complex, coiled coil; HET: DNA; 2.30A {Homo sapiens} SCOP: b.59.1.1 h.1.11.1 PDB: 3ii6_A* 1fu1_A* 3rwr_A*

Probab=80.95  E-value=17  Score=29.54  Aligned_cols=39  Identities=18%  Similarity=0.268  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           57 DDLMAQVAQLRKDNHQIITSINIATQHYMNIESENSVLR   95 (172)
Q Consensus        57 eeLe~qv~~L~~EN~~L~~~l~~l~q~~~~le~EN~~LR   95 (172)
                      ..|+.++..|..+|..|...++.+..++..+..+...+.
T Consensus       135 ~~~~~~~~~L~~e~~~l~~~~~~l~~qlE~~v~~K~~~E  173 (213)
T 1ik9_A          135 AENQAKNEHLQKENERLLRDWNDVQGRFEKAVSAKEALE  173 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555666666666666666666666665555444443

>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B

Probab=80.77  E-value=2.3  Score=29.21  Aligned_cols=27  Identities=11%  Similarity=0.199  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044691           85 MNIESENSVLRAQLGELTHRLHSLNEI  111 (172)
Q Consensus        85 ~~le~EN~~LRaq~~eL~~rL~~l~~i  111 (172)
                      ..|..++..|..++.+|..+...|..-
T Consensus        50 ~~L~~~~~~l~~e~~~L~~~~~~L~~~   76 (83)
T 1nkp_B           50 QYMRRKNHTHQQDIDDLKRQNALLEQQ   76 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444333

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

Probab=80.53  E-value=15  Score=27.09  Aligned_cols=29  Identities=21%  Similarity=0.278  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 044691           56 LDDLMAQVAQLRKDNHQIITSINIATQHY   84 (172)
Q Consensus        56 leeLe~qv~~L~~EN~~L~~~l~~l~q~~   84 (172)
                      +..|+.++..|+..+..|...+..+..++
T Consensus        45 iq~L~~el~~l~~~~~~LE~~l~e~e~~~   73 (129)
T 3tnu_B           45 IQRLRAEIDNVKKQCANLQNAIADAEQRG   73 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            44556666666666666666655555443

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=80.44  E-value=7.4  Score=34.19  Aligned_cols=15  Identities=20%  Similarity=0.034  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHHH
Q 044691           86 NIESENSVLRAQLGE  100 (172)
Q Consensus        86 ~le~EN~~LRaq~~e  100 (172)
                      .++.++..|.+++.+
T Consensus        28 ~~~~~~~~~~~~~~~   42 (403)
T 4etp_A           28 DTELGMKELNEILIK   42 (403)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333344444443333

---

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	172
d1sknp_	74	Skn-1 {Caenorhabditis elegans [TaxId: 6239]}	90.92

>d1sknp_ a.37.1.1 (P:) Skn-1 {Caenorhabditis elegans [TaxId: 6239]}

class: All alpha proteins
fold: A DNA-binding domain in eukaryotic transcription factors
superfamily: A DNA-binding domain in eukaryotic transcription factors
family: A DNA-binding domain in eukaryotic transcription factors
domain: Skn-1
species: Caenorhabditis elegans [TaxId: 6239]

Probab=90.92  E-value=0.051  Score=36.47  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=21.7

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 044691           33 RKRKRMISNRESARRSRMRKQKHLDD   58 (172)
Q Consensus        33 Rr~rR~lsNRESARRSR~RKq~~lee   58 (172)
                      |-.||.=+|+.+|+++|.||-...++
T Consensus        48 rDIRRRGKNKvAAqnCRKRKld~~d~   73 (74)
T d1sknp_          48 RKIRRRGKNKVAARTCRQRRTDRHDK   73 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHhcccHHHHHHHHHhhhhhhcc
Confidence            56678889999999999999876554