Citrus Sinensis ID: 039918

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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
Protein Sequence
MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTPSQ
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccHcccccccccccccccHHHHHHHHHHHHccccccccccccHHcHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MFLGEEAaaqfqlpvletgftADDIQEWLSDLfqsnsgssegstravysdderkkRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILgsmqtpsq
Flexible Loop (DISEMBL)
MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLfqsnsgssegstravysdderkkrrmisnresarrsrwrkkkqleDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYrilgsmqtpsq
Low Complexity Region (SEG)
MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTPSQ
Disordered region (IsUnstruct)
*********QFQLPVLETGFTADDIQEWLSDLF********************************************************NQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG*******
Disordered Region (DISOPRED)
*************************************************************RESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL*SM*****
Disordered Region (DISEMBL)
MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQ***************************************KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTPSQ
Disordered Region (DISPRO)
********AQFQLPVLETGFTADDIQEWLSDLFQ************************************RKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTPSQ
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	140	2.2.26 [Sep-21-2011]
P24068	151	Ocs element-binding facto	N/A	no	0.714	0.662	0.31	1e-06
P25032	354	DNA-binding protein EMBP-	N/A	no	0.457	0.180	0.402	3e-06
P42774	315	G-box-binding factor 1 OS	no	no	0.585	0.260	0.368	5e-06
Q99091	296	Light-inducible protein C	N/A	no	0.5	0.236	0.383	2e-05
Q9FGX2	145	Basic leucine zipper 1 OS	no	no	0.585	0.565	0.360	0.0001
Q99089	411	Common plant regulatory f	N/A	no	0.457	0.155	0.406	0.0002
P23922	349	Transcription factor HBP-	N/A	no	0.485	0.194	0.397	0.0002
Q9SJN0	442	Protein ABSCISIC ACID-INS	no	no	0.328	0.104	0.543	0.0002
Q99142	265	Transcriptional activator	N/A	no	0.442	0.233	0.403	0.0003
P42776	382	G-box-binding factor 3 OS	no	no	0.328	0.120	0.478	0.0004

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

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 54/100 (54%)

Query: 33  FQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQV 92
               +G + GS     +D  R+++R +SNRESARRSR RK++ L++L +E+ R   +N  
Sbjct: 6   LSPTAGRTSGSDGDSAADTHRREKRRLSNRESARRSRLRKQQHLDELVQEVARLQADNAR 65

Query: 93  LKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL 132
           +      + +Q   + +EN  L +    L  RL ++  +L
Sbjct: 66  VAARARDIASQYTRVEQENTVLRARAAELGDRLRSVNEVL 105

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

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 44/67 (65%), Gaps = 3/67 (4%)

Query: 51  DER---KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           DER   ++RR  SNRESARRSR RK+++ E+L ++++     N  L++EL+ +   C  +
Sbjct: 247 DERELKRERRKQSNRESARRSRLRKQQECEELAQKVSELTAANGTLRSELDQLKKDCKTM 306

Query: 108 WKENEQL 114
             EN++L
Sbjct: 307 ETENKKL 313

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|P42774|GBF1_ARATH G-box-binding factor 1 OS=Arabidopsis thaliana GN=GBF1 PE=2 SV=2

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 51/95 (53%), Gaps = 13/95 (13%)

Query: 43  STRAVYSDDER---KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNI 99
           S   V   DER   +++R  SNRESARRSR RK+ + E L + +   + ENQ L++EL  
Sbjct: 211 SQAGVPVKDERELKRQKRKQSNRESARRSRLRKQAECEQLQQRVESLSNENQSLRDELQR 270

Query: 100 VLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS 134
           + ++C  L  EN  +  E          L R+LG+
Sbjct: 271 LSSECDKLKSENNSIQDE----------LQRVLGA 295

Binds to the G-box motif (5'-CCACGTGG-3') of the rbcS-1A gene promoter. G-box and G-box-like motifs are cis-acting elements defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control.

Arabidopsis thaliana (taxid: 3702)

>sp|Q99091|CPRF3_PETCR Light-inducible protein CPRF3 OS=Petroselinum crispum GN=CPRF3 PE=2 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/73 (38%), Positives = 44/73 (60%), Gaps = 3/73 (4%)

Query: 50  DDER---KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYL 106
           +DER   ++RR  SNRESARRSR RK+ + ++L E L+  + EN++L+  L  +   C  
Sbjct: 192 NDERELKRQRRKQSNRESARRSRLRKQAKSDELQERLDNLSKENRILRKNLQRISEACAE 251

Query: 107 LWKENEQLTSEYV 119
           +  EN  +  E +
Sbjct: 252 VTSENHSIKEELL 264

Binds to the G-box-like motif (5'-ACGTGGC-3') of the chalcone synthase (CHS) gene promoter. G-box and G-box-like motifs are defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control.

Petroselinum crispum (taxid: 4043)

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

 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 53/86 (61%), Gaps = 4/86 (4%)

Query: 51  DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNE--LNIVLNQCYLLW 108
           DE+K++R +SNRESARRSR +K+K +ED   E+  S++E ++ +N      V  +   + 
Sbjct: 14  DEKKRKRKLSNRESARRSRLKKQKLMEDTIHEI--SSLERRIKENSERCRAVKQRLDSVE 71

Query: 109 KENEQLTSEYVALRTRLSNLYRILGS 134
            EN  L SE + L + +S+L  ++ +
Sbjct: 72  TENAGLRSEKIWLSSYVSDLENMIAT 97

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|Q99089|CPRF1_PETCR Common plant regulatory factor 1 OS=Petroselinum crispum GN=CPRF1 PE=2 SV=1

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 39/64 (60%)

Query: 51  DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKE 110
           D +++RR  SNRESARRSR RK+ + E+L  +++    EN  LK E+N +      L  +
Sbjct: 269 DLKRERRKQSNRESARRSRLRKQAEAEELAIKVDSLTAENMALKAEINRLTLTAEKLTND 328

Query: 111 NEQL 114
           N +L
Sbjct: 329 NSRL 332

Binds to the G-box-like motif (5'-ACGTGGC-3') of the chalcone synthase (CHS) gene promoter. G-box and G-box-like motifs are defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control.

Petroselinum crispum (taxid: 4043)

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

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 46/78 (58%), Gaps = 10/78 (12%)

Query: 51  DER---KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           DER   K++R +SNRESARRSR RK+ + E+L +       EN  L+ EL+ +       
Sbjct: 249 DERELKKQKRKLSNRESARRSRLRKQAECEELGQRAEALKSENSSLRIELDRIK------ 302

Query: 108 WKENEQLTSEYVALRTRL 125
            KE E+L S+  +L+ +L
Sbjct: 303 -KEYEELLSKNTSLKAKL 319

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 = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 31/46 (67%)

Query: 52  ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNEL 97
           ER++RRMI NRESA RSR RK+    +L  ELN+   EN  LK+ L
Sbjct: 356 ERRQRRMIKNRESAARSRARKQAYTVELEAELNQLKEENAQLKHAL 401

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)

>sp|Q99142|TAF1_TOBAC Transcriptional activator TAF-1 (Fragment) OS=Nicotiana tabacum GN=TAF1 PE=2 SV=1

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 37/62 (59%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENE 112
           ++++R  SNRESARRSR RK+ + E+L   +     EN  LK+E+N ++     L  EN 
Sbjct: 196 KREKRKQSNRESARRSRLRKQAEAEELAIRVQSLTAENMTLKSEINKLMENSEKLKLENA 255

Query: 113 QL 114
            L
Sbjct: 256 AL 257

Trans-activator of a beta-glucuronidase (GUS) reporter gene. Binds to a G-box-related element, (5'-GCAACGTGGC-3'). Also binds to the HEX-motif of wheat histone H3 promoter.

Nicotiana tabacum (taxid: 4097)

>sp|P42776|GBF3_ARATH G-box-binding factor 3 OS=Arabidopsis thaliana GN=GBF3 PE=1 SV=2

 Score = 43.1 bits (100), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 32/46 (69%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELN 98
           +++RR  SNRESARRSR RK+ + E+L  ++     EN  L++ELN
Sbjct: 261 KRERRKQSNRESARRSRLRKQAETEELARKVEALTAENMALRSELN 306

Binds to the G-box motif (5'-CCACGTGG-3') of the rbcS-1A gene promoter. G-box and G-box-like motifs are cis-acting elements defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control.

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	140
224129804	144	predicted protein [Populus trichocarpa]	0.95	0.923	0.568	7e-34
255537986	161	DNA binding protein, putative [Ricinus c	0.957	0.832	0.523	2e-31
224067176	147	predicted protein [Populus trichocarpa]	0.942	0.897	0.547	8e-29
147836458	131	hypothetical protein VITISV_032352 [Viti	0.864	0.923	0.557	2e-28
449447309	152	PREDICTED: ocs element-binding factor 1-	0.957	0.881	0.503	2e-26
449450562	153	PREDICTED: ocs element-binding factor 1-	0.957	0.875	0.472	1e-22
224097230	154	predicted protein [Populus trichocarpa]	0.807	0.733	0.450	3e-16
255585781	201	Ocs element-binding factor, putative [Ri	0.735	0.512	0.523	1e-15
21553445	155	bZIP transcription factor-like protein [	0.971	0.877	0.386	6e-15
18408938	156	basic leucine-zipper 5 [Arabidopsis thal	0.971	0.871	0.386	2e-14

>gi|224129804|ref|XP_002320675.1| predicted protein [Populus trichocarpa] gi|222861448|gb|EEE98990.1| predicted protein [Populus trichocarpa]

 Score =  148 bits (373), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 79/139 (56%), Positives = 103/139 (74%), Gaps = 6/139 (4%)

Query: 1   MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQSNSGS----SEGSTRAVYSDDERKKR 56
           MF  +EA  QF+ PV   GFTA++IQE LS L Q  S +    S GS +AVYS DERK+R
Sbjct: 1   MFSAQEAV-QFEHPVHGPGFTANEIQELLS-LLQPPSPTEISGSRGSNQAVYSIDERKRR 58

Query: 57  RMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTS 116
           RM+SNRESARRSRWRKKK LEDLT++LNR  ++N+ L+N L  ++NQ ++LW+EN +L S
Sbjct: 59  RMVSNRESARRSRWRKKKHLEDLTQQLNRLKIQNRELQNRLGSIINQSHVLWRENGRLMS 118

Query: 117 EYVALRTRLSNLYRILGSM 135
           E VAL+ RLS+L  +L +M
Sbjct: 119 ESVALKARLSDLRLVLAAM 137

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537986|ref|XP_002510058.1| DNA binding protein, putative [Ricinus communis] gi|223550759|gb|EEF52245.1| DNA binding protein, putative [Ricinus communis]

 Score =  140 bits (353), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 78/149 (52%), Positives = 101/149 (67%), Gaps = 15/149 (10%)

Query: 1   MFLGEEAAAQFQLPVLETGFTADDIQEWLS------------DLFQSNSGSSEGSTRAVY 48
           MF  EEA  QF+ PV E G TA DIQ+ LS             L +SNS S   S R V+
Sbjct: 1   MFFSEEAV-QFEKPVFEAGLTASDIQQILSVLESPTTDSPSSSLEESNSIS--NSNRVVH 57

Query: 49  SDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLW 108
             DERK+RRM+SNRESARRSRWRKK+ LEDLT  LN+   +N+ LK++L  VL  C +LW
Sbjct: 58  CVDERKRRRMVSNRESARRSRWRKKRHLEDLTVRLNQLEFQNRDLKSQLGSVLEHCRVLW 117

Query: 109 KENEQLTSEYVALRTRLSNLYRILGSMQT 137
           +EN++LT+EY++L+TRLS+L  +L +MQ 
Sbjct: 118 RENDRLTTEYLSLQTRLSDLCHVLVTMQA 146

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067176|ref|XP_002302393.1| predicted protein [Populus trichocarpa] gi|222844119|gb|EEE81666.1| predicted protein [Populus trichocarpa]

 Score =  131 bits (330), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 75/137 (54%), Positives = 100/137 (72%), Gaps = 5/137 (3%)

Query: 8   AAQFQLPVLETGFTADDIQEWLSDLFQS----NSGSSEGSTRAVYSDDERKKRRMISNRE 63
           A QF+ PV   GFT ++IQE LS L       NSGSS GS +A+YS DER++RRM+SNRE
Sbjct: 7   AVQFECPVQGPGFTDNEIQELLSLLRSPSPGQNSGSS-GSNQALYSLDERRRRRMLSNRE 65

Query: 64  SARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT 123
           SARRSRWRKK+ LEDLT++LNR  + N+ LKN L  +LNQ ++LW+EN++L  E +AL++
Sbjct: 66  SARRSRWRKKRHLEDLTQQLNRLKIVNRELKNRLGSILNQSHVLWRENDRLMLESIALKS 125

Query: 124 RLSNLYRILGSMQTPSQ 140
           RLS+L  +  +MQ   Q
Sbjct: 126 RLSDLCYVFAAMQKSQQ 142

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147836458|emb|CAN59722.1| hypothetical protein VITISV_032352 [Vitis vinifera]

 Score =  130 bits (327), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 73/131 (55%), Positives = 96/131 (73%), Gaps = 10/131 (7%)

Query: 11  FQLPVLETGFTADDIQEWLSDLFQSNS-----GSSEGSTRAVYSDDERKKRRMISNRESA 65
           FQLPVL+      +IQE LS LFQ++        SE +  AV S DERK++RMISNRESA
Sbjct: 4   FQLPVLDET----EIQELLS-LFQTDHQVASQSGSEDTNPAVCSTDERKRKRMISNRESA 58

Query: 66  RRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL 125
           RRSRWRKKK LE+L+ E+NR  V+N+  K+ L  V +QC+L+ ++NE+LT EY+ALRT+L
Sbjct: 59  RRSRWRKKKHLENLSNEVNRLLVQNREYKHRLGSVTHQCHLVGRDNERLTYEYLALRTKL 118

Query: 126 SNLYRILGSMQ 136
            +LYRIL +MQ
Sbjct: 119 YDLYRILVTMQ 129

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447309|ref|XP_004141411.1| PREDICTED: ocs element-binding factor 1-like [Cucumis sativus] gi|449517423|ref|XP_004165745.1| PREDICTED: ocs element-binding factor 1-like [Cucumis sativus]

 Score =  124 bits (310), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/139 (50%), Positives = 95/139 (68%), Gaps = 5/139 (3%)

Query: 1   MFLGEEAAAQFQLPVLETGFTADDIQE-W--LSDLFQSNSGSSEGSTRAVYSDDERKKRR 57
           MF  E    +F  P  E GFT+ +IQE W  L D  +SNSGS +        D+ER+++R
Sbjct: 1   MFYPEGEIVEFHRP--EPGFTSAEIQELWSLLEDPARSNSGSQDSFQAISLIDEERRRKR 58

Query: 58  MISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSE 117
           MISNRESARRSR RKK+ LE+L  + +R  ++NQ LK +LN+V+N+CY++ ++NE L SE
Sbjct: 59  MISNRESARRSRLRKKRHLENLAIQTDRLKMKNQELKRQLNLVVNRCYMVRRQNEGLWSE 118

Query: 118 YVALRTRLSNLYRILGSMQ 136
           +VAL  RLS+LYRI   MQ
Sbjct: 119 FVALHARLSDLYRISVPMQ 137

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450562|ref|XP_004143031.1| PREDICTED: ocs element-binding factor 1-like [Cucumis sativus] gi|449519438|ref|XP_004166742.1| PREDICTED: ocs element-binding factor 1-like [Cucumis sativus]

 Score =  111 bits (277), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 70/148 (47%), Positives = 91/148 (61%), Gaps = 14/148 (9%)

Query: 3   LGEEAAA-QFQLPVLETG--FTADDIQEWLSDLFQSNSGS------SEGSTRAVYS---- 49
           +GE     Q ++P  +    FTA +I+E LS    +N G       S+GS R   +    
Sbjct: 6   MGENGVGFQCEVPDHQNNHEFTASEIEELLSLFLANNDGPPSPGSDSQGSMRTSVTNCST 65

Query: 50  -DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLW 108
            DDERK RRMISNRESARRSRWRKK+ LEDLT E+NR  ++N+ LK  L  VLN  +++ 
Sbjct: 66  NDDERKLRRMISNRESARRSRWRKKRHLEDLTSEVNRLMMQNRELKERLGRVLNSRHMVM 125

Query: 109 KENEQLTSEYVALRTRLSNLYRILGSMQ 136
           +EN+ L  E + LR RLS+L RIL  MQ
Sbjct: 126 RENDWLWMESMGLRARLSDLCRILAVMQ 153

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097230|ref|XP_002310886.1| predicted protein [Populus trichocarpa] gi|222853789|gb|EEE91336.1| predicted protein [Populus trichocarpa]

 Score = 90.1 bits (222), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 55/122 (45%), Positives = 71/122 (58%), Gaps = 9/122 (7%)

Query: 11  FQLPVLETGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRW 70
           FQ    E GFT      W  D F     + +       S DERK+RRM+SNRESARRSR 
Sbjct: 20  FQF--FENGFTP-----W--DCFDPFPSAPQSPKPFGSSSDERKRRRMVSNRESARRSRM 70

Query: 71  RKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR 130
           RK+K +++L  ++NR  VEN+ L N L IVL  C+ +  EN+ L SEY  LR +LS   +
Sbjct: 71  RKQKHMDNLRNQVNRLRVENRELTNRLRIVLYHCHSVRTENDWLRSEYSMLRKKLSETSQ 130

Query: 131 IL 132
           IL
Sbjct: 131 IL 132

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255585781|ref|XP_002533570.1| Ocs element-binding factor, putative [Ricinus communis] gi|223526547|gb|EEF28805.1| Ocs element-binding factor, putative [Ricinus communis]

 Score = 88.2 bits (217), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 56/107 (52%), Positives = 72/107 (67%), Gaps = 4/107 (3%)

Query: 30  SDLFQSNSGSS---EGSTRAVYS-DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNR 85
           SD   +NS SS   E + R V S  DERK+RRMISNRESARRSR RK+K LE+L  ++NR
Sbjct: 66  SDPTPANSNSSSDQEPNQRTVASVIDERKRRRMISNRESARRSRMRKQKHLENLRNQVNR 125

Query: 86  SAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL 132
             VEN+ + N L  VL     + +EN+QL SE+  LR +LSN+ +IL
Sbjct: 126 LRVENREMTNRLRFVLYHWQSVRRENDQLRSEHSMLRQKLSNIRQIL 172

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21553445|gb|AAM62538.1| bZIP transcription factor-like protein [Arabidopsis thaliana]

 Score = 85.5 bits (210), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 58/150 (38%), Positives = 82/150 (54%), Gaps = 14/150 (9%)

Query: 1   MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQSN------SGSSEGSTRAVYSD---- 50
           +F  E       LP  ET FT  DI    S +F S+      S    GS   + SD    
Sbjct: 7   VFSTEPGLLTSVLPAFETSFTPWDISHLFS-VFDSSIDPKPVSTHDYGSVNQIGSDMSPT 65

Query: 51  ---DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
              DERKK+R +SNRESA+RSR +K+K LE+++ +LN+  ++NQ LKN+L  VL  C   
Sbjct: 66  DNTDERKKKRKLSNRESAKRSREKKQKHLEEMSIQLNQLKIQNQELKNQLRYVLYHCQRT 125

Query: 108 WKENEQLTSEYVALRTRLSNLYRILGSMQT 137
             EN++L  E+  L  +L N+ ++L   QT
Sbjct: 126 KMENDRLLMEHRILHDKLLNIRQVLMFRQT 155

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18408938|ref|NP_566925.1| basic leucine-zipper 5 [Arabidopsis thaliana] gi|89111868|gb|ABD60706.1| At3g49760 [Arabidopsis thaliana] gi|110742133|dbj|BAE98995.1| bZIP transcription factor AtbZip5 [Arabidopsis thaliana] gi|332645066|gb|AEE78587.1| basic leucine-zipper 5 [Arabidopsis thaliana]

 Score = 84.3 bits (207), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 58/150 (38%), Positives = 81/150 (54%), Gaps = 14/150 (9%)

Query: 1   MFLGEEAAAQFQLPVLETGFTADDIQEWLSDLFQS------NSGSSEGSTRAVYSD---- 50
           +F  E       LP  ET FT  DI    S +F S       S    GS   + SD    
Sbjct: 8   VFSTEPGLLTSVLPAFETSFTPWDISHLFS-VFDSLIDPKPVSTHDYGSVNQIGSDMSPT 66

Query: 51  ---DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
              DERKK+R +SNRESA+RSR +K+K LE+++ +LN+  ++NQ LKN+L  VL  C   
Sbjct: 67  DNTDERKKKRKLSNRESAKRSREKKQKHLEEMSIQLNQLKIQNQELKNQLRYVLYHCQRT 126

Query: 108 WKENEQLTSEYVALRTRLSNLYRILGSMQT 137
             EN++L  E+  L  +L N+ ++L   QT
Sbjct: 127 KMENDRLLMEHRILHDKLLNIRQVLMFRQT 156

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	140
TAIR|locus:2202852	148	bZIP4 "AT1G59530" [Arabidopsis	0.835	0.790	0.466	7.2e-20
TAIR|locus:2097315	156	bZIP5 "AT3G49760" [Arabidopsis	0.892	0.801	0.401	3.2e-17
TAIR|locus:2053124	171	bZIP2 "AT2G18160" [Arabidopsis	0.764	0.625	0.401	7.7e-16
TAIR|locus:2137539	305	bZIP7 "AT4G37730" [Arabidopsis	0.842	0.386	0.385	2.6e-15
TAIR|locus:2059211	227	bZIP6 "AT2G22850" [Arabidopsis	0.585	0.361	0.475	3e-14
TAIR|locus:2009932	196	bZIP58 "AT1G13600" [Arabidopsi	0.7	0.5	0.428	1.6e-13
TAIR|locus:2143191	186	bZIP3 "AT5G15830" [Arabidopsis	0.792	0.596	0.375	2.1e-13
TAIR|locus:2827461	166	bZIP48 "AT2G04038" [Arabidopsi	0.692	0.584	0.412	3.1e-12
TAIR|locus:2092595	173	bZIP42 "AT3G30530" [Arabidopsi	0.835	0.676	0.361	8.2e-12
TAIR|locus:2166650	165	bZIP43 "AT5G38800" [Arabidopsi	0.771	0.654	0.361	2.2e-11

TAIR|locus:2202852 bZIP4 "AT1G59530" [Arabidopsis thaliana (taxid:3702)]

 Score = 236 (88.1 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 55/118 (46%), Positives = 75/118 (63%)

Query:    21 TADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLT 80
             T D+I + L+ L    S +  G    V  DD +K+RR ISNRESA+RSR +KKK+ E+LT
Sbjct:    19 TGDEIIDILAFLQSDESDNPSGINEVVPVDD-KKRRRTISNRESAKRSRMKKKKRFEELT 77

Query:    81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTP 138
             EE+NR  + NQ LKN L  V++    + +EN +L +E V L  RL  LYR L +MQ+P
Sbjct:    78 EEVNRLNIRNQELKNRLANVVSCGNFISRENNRLKTESVCLEIRLLELYRFLVAMQSP 135

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:0009410 "response to xenobiotic stimulus" evidence=RCA

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

TAIR|locus:2097315 bZIP5 "AT3G49760" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 55/137 (40%), Positives = 77/137 (56%)

Query:    13 LPVLETGFTADDIQEWLS---DLFQSNSGSSE--GSTRAVYSD-------DERKKRRMIS 60
             LP  ET FT  DI    S    L      S+   GS   + SD       DERKK+R +S
Sbjct:    20 LPAFETSFTPWDISHLFSVFDSLIDPKPVSTHDYGSVNQIGSDMSPTDNTDERKKKRKLS 79

Query:    61 NRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVA 120
             NRESA+RSR +K+K LE+++ +LN+  ++NQ LKN+L  VL  C     EN++L  E+  
Sbjct:    80 NRESAKRSREKKQKHLEEMSIQLNQLKIQNQELKNQLRYVLYHCQRTKMENDRLLMEHRI 139

Query:   121 LRTRLSNLYRILGSMQT 137
             L  +L N+ ++L   QT
Sbjct:   140 LHDKLLNIRQVLMFRQT 156

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:0009410 "response to xenobiotic stimulus" evidence=RCA

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

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

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 45/112 (40%), Positives = 74/112 (66%)

Query:    30 SDLFQSNSGSSEGSTR---AVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRS 86
             S  ++S+S S  G+     +V + DERK++RM+SNRESARRSR RK+K ++DLT ++N+ 
Sbjct:     5 SSTYRSSSSSDGGNNNPSDSVVTVDERKRKRMLSNRESARRSRMRKQKHVDDLTAQINQL 64

Query:    87 AVENQVLKNELNIVLNQCYL-LWKENEQLTSEYVALRTRLSNLYRILGSMQT 137
             + +N+ + N L +  +Q Y+ +  EN  LT++   L TRL +L  I+  +Q+
Sbjct:    65 SNDNRQILNSLTVT-SQLYMKIQAENSVLTAQMEELSTRLQSLNEIVDLVQS 115

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:2137539 bZIP7 "AT4G37730" [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 47/122 (38%), Positives = 74/122 (60%)

Query:    22 ADDIQEWLSDLFQSNSGSSEGSTRAVYSD---DERKKRRMISNRESARRSRWRKKKQLED 78
             +DD ++ L+ +    SG +  + + +      DERK++RM SNRESA+RSR RK+  +++
Sbjct:   164 SDDTKQ-LTAITNFGSGENNHNRKKMIQPEMTDERKRKRMESNRESAKRSRMRKQSHIDN 222

Query:    79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTP 138
             L E++NR  +EN+ L N L +VL+Q   +  +N +L +E   LR RLS + RIL   Q  
Sbjct:   223 LREQVNRLDLENRELGNRLRLVLHQLQRVNSDNNRLVTEQEILRLRLSEMRRILIIRQLQ 282

Query:   139 SQ 140
              Q
Sbjct:   283 QQ 284

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

TAIR|locus:2059211 bZIP6 "AT2G22850" [Arabidopsis thaliana (taxid:3702)]

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 39/82 (47%), Positives = 55/82 (67%)

Query:    51 DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKE 110
             D+RK++RM SNRESA+RSR RK++ +++L +E NR  +EN+ L N L IVL    L+  +
Sbjct:   127 DDRKRKRMESNRESAKRSRMRKQRHIDNLKDEANRLGLENRELANRLRIVLYNIALMCTD 186

Query:   111 NEQLTSEYVALRTRLSNLYRIL 132
             N QL SE   LR R   + +IL
Sbjct:   187 NNQLLSEQEILRRRFLEMRQIL 208

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

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:0009410 "response to xenobiotic stimulus" evidence=RCA

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

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

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 42/98 (42%), Positives = 59/98 (60%)

Query:    31 DLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVEN 90
             DL  SN+ +S+   +     DERK+RRMISNRESARRSR RK++ L++L  ++ R   +N
Sbjct:    64 DLMTSNNSTSDEDHQQSMVIDERKQRRMISNRESARRSRMRKQRHLDELWSQVIRLRTDN 123

Query:    91 QVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL 128
               L ++LN V     L  KEN +L  E   LR  +S +
Sbjct:   124 HCLMDKLNRVSESHELALKENAKLKEETSDLRQLISEI 161

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

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 42/112 (37%), Positives = 70/112 (62%)

Query:    25 IQEW-LSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEEL 83
             IQE  L     +NS +S+ +T  ++  +ERK+RRM+SNRESARRSR RK++ L++L  ++
Sbjct:    45 IQELNLQSPVSNNSTTSDDATEEIFVINERKQRRMVSNRESARRSRMRKQRHLDELLSQV 104

Query:    84 NRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSM 135
                  EN  L ++LN V +   L+ +EN  L  E + LR  ++++ ++ G +
Sbjct:   105 AWLRSENHQLLDKLNQVSDNNDLVIQENSSLKEENLELRQVITSMKKLGGGI 156

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

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 40/97 (41%), Positives = 58/97 (59%)

Query:    32 LFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQ 91
             +  +NS S E   +++   DERK+RRM+SNRESARRSR RK++ L++L  ++ R   EN 
Sbjct:    53 MISNNSTSDEDHHQSIMVLDERKQRRMLSNRESARRSRMRKQRHLDELWSQVIRLRNENN 112

Query:    92 VLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL 128
              L ++LN V      + KEN +L  E   LR  +  L
Sbjct:   113 CLIDKLNRVSETQNCVLKENSKLKEEASDLRQLVCEL 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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 43/119 (36%), Positives = 66/119 (55%)

Query:    12 QLPVLETGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSD--DERKKRRMISNRESARRSR 69
             Q P L  GF +         L  +NS S E   +   ++  +ERK+RRMISNRESARRSR
Sbjct:    38 QNPYLLYGFQSPTNNPQSMSLSSNNSTSDEAEEQQTNNNIINERKQRRMISNRESARRSR 97

Query:    70 WRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL 128
              RK++ L++L  ++    +EN  L ++LN +      + +EN QL  E   L+  +S++
Sbjct:    98 MRKQRHLDELWSQVMWLRIENHQLLDKLNNLSESHDKVLQENAQLKEETFELKQVISDM 156

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

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 39/108 (36%), Positives = 62/108 (57%)

Query:    21 TADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLT 80
             T  +  +++S +  +NS S E         +ERK++R ISNRESARRSR RK++Q+++L 
Sbjct:    40 TGVNTSQFMSLISSNNSTSDEAEENHKEIINERKQKRKISNRESARRSRMRKQRQVDELW 99

Query:    81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL 128
              ++     EN  L  +LN VL     + +EN QL  E   L+  +S++
Sbjct:   100 SQVMWLRDENHQLLRKLNCVLESQEKVIEENVQLKEETTELKQMISDM 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: eugene3.00140057 hypothetical protein (144 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	140
smart00338	65	smart00338, BRLZ, basic region leucin zipper	8e-10
pfam00170	64	pfam00170, bZIP_1, bZIP transcription factor	6e-06
pfam07716	54	pfam07716, bZIP_2, Basic region leucine zipper	6e-04

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

 Score = 51.0 bits (123), Expect = 8e-10
 Identities = 25/65 (38%), Positives = 41/65 (63%)

Query: 49  SDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLW 108
            +DE+++RR   NRE+ARRSR RKK ++E+L  ++ +   EN+ LK E+  +  +   L 
Sbjct: 1   EEDEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLK 60

Query: 109 KENEQ 113
            E E+
Sbjct: 61  SELEE 65

Length = 65

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

 Score = 41.2 bits (97), Expect = 6e-06
 Identities = 26/60 (43%), Positives = 39/60 (65%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENE 112
           +++RR   NRE+ARRSR RKK  +E+L E++     EN+ L++EL  +  +C  L  ENE
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 = 35.7 bits (83), Expect = 6e-04
 Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 1/49 (2%)

Query: 49 SDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNEL 97
           DDE + RR   N E+ARRSR +KK++ E+L E +     EN  L+ ++
Sbjct: 1  KDDEYRDRRR-RNNEAARRSREKKKQREEELEERVKELEEENAQLRQKV 48

Length = 54

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	140
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	99.53
smart00338	65	BRLZ basic region leucin zipper.	99.47
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	99.44
KOG4343	655	consensus bZIP transcription factor ATF6 [Transcri	99.35
KOG3584	348	consensus cAMP response element binding protein an	99.22
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	99.18
KOG0709	472	consensus CREB/ATF family transcription factor [Tr	98.96
PF03131	92	bZIP_Maf: bZIP Maf transcription factor; InterPro:	98.14
KOG0837	279	consensus Transcriptional activator of the JUN fam	97.87
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	97.81
KOG4571	294	consensus Activating transcription factor 4 [Trans	97.54
KOG3119	269	consensus Basic region leucine zipper transcriptio	97.5
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	96.98
KOG3863	604	consensus bZIP transcription factor NRF1 [Transcri	96.82
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.81
PRK15422	79	septal ring assembly protein ZapB; Provisional	96.71
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	96.64
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.6
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	96.49
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	96.49
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	96.32
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	96.23
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	95.92
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	95.84
PRK13169	110	DNA replication intiation control protein YabA; Re	95.8
PRK13169	110	DNA replication intiation control protein YabA; Re	95.74
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	95.53
PRK10884	206	SH3 domain-containing protein; Provisional	95.4
COG4467	114	Regulator of replication initiation timing [Replic	94.84
PF14662	193	CCDC155: Coiled-coil region of CCDC155	94.72
COG4026	290	Uncharacterized protein containing TOPRIM domain,	94.71
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	94.29
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	94.1
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.03
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	93.97
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	93.88
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	93.81
PRK10884	206	SH3 domain-containing protein; Provisional	93.77
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	93.58
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	93.54
KOG3119	269	consensus Basic region leucine zipper transcriptio	93.52
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	93.15
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	93.11
PRK11637	428	AmiB activator; Provisional	93.06
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	93.01
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.98
smart00338	65	BRLZ basic region leucin zipper.	92.78
COG4467	114	Regulator of replication initiation timing [Replic	92.4
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	92.33
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	92.25
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	92.18
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.15
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	92.12
KOG4571	294	consensus Activating transcription factor 4 [Trans	92.09
PRK15422	79	septal ring assembly protein ZapB; Provisional	91.98
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	91.77
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	91.68
TIGR00219	283	mreC rod shape-determining protein MreC. MreC (mur	91.62
PF12808	52	Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2	91.53
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	91.43
PF15294	278	Leu_zip: Leucine zipper	91.26
smart00340	44	HALZ homeobox associated leucin zipper.	91.2
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	91.11
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	91.07
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	90.98
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	90.72
PRK11637	428	AmiB activator; Provisional	90.47
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	90.44
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	90.33
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	90.24
PRK02119	73	hypothetical protein; Provisional	90.24
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	90.05
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	90.04
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	90.0
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	89.93
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	89.82
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	89.74
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	89.23
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	89.19
PRK04406	75	hypothetical protein; Provisional	88.71
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	88.52
KOG3650	120	consensus Predicted coiled-coil protein [General f	88.47
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	88.38
PRK00888	105	ftsB cell division protein FtsB; Reviewed	88.23
PF15233	134	SYCE1: Synaptonemal complex central element protei	88.17
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	87.74
PRK04325	74	hypothetical protein; Provisional	87.67
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	87.63
PRK13922	276	rod shape-determining protein MreC; Provisional	87.61
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	87.5
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	87.49
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	87.36
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	87.25
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	87.11
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	86.89
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	86.74
PRK02793	72	phi X174 lysis protein; Provisional	86.1
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	86.06
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	86.04
KOG2077	832	consensus JNK/SAPK-associated protein-1 [Signal tr	85.99
PRK00846	77	hypothetical protein; Provisional	85.68
COG4026	290	Uncharacterized protein containing TOPRIM domain,	85.66
PRK02119	73	hypothetical protein; Provisional	85.42
PF14662	193	CCDC155: Coiled-coil region of CCDC155	85.33
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	85.04
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	84.94
PRK00295	68	hypothetical protein; Provisional	84.94
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	84.62
PF04999	97	FtsL: Cell division protein FtsL; InterPro: IPR007	84.62
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	84.13
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	84.04
PF05812	118	Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro:	83.8
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	83.38
PRK00888	105	ftsB cell division protein FtsB; Reviewed	82.88
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	82.76
PF06632	342	XRCC4: DNA double-strand break repair and V(D)J re	82.65
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	82.52
KOG1962	216	consensus B-cell receptor-associated protein and r	82.39
PF12711	86	Kinesin-relat_1: Kinesin motor; InterPro: IPR02465	82.21
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	82.16
PF07558	46	Shugoshin_N: Shugoshin N-terminal coiled-coil regi	81.87
PRK02793	72	phi X174 lysis protein; Provisional	81.76
PF10506	67	MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for U	81.74
PF15058	200	Speriolin_N: Speriolin N terminus	81.33
PHA03162	135	hypothetical protein; Provisional	81.25
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	80.99
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	80.75
COG4942	420	Membrane-bound metallopeptidase [Cell division and	80.72
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	80.71
PF10482	120	CtIP_N: Tumour-suppressor protein CtIP N-terminal	80.46
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	80.42
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	80.35
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	80.32
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	80.01

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=99.53  E-value=2.2e-13  Score=112.10  Aligned_cols=83  Identities=33%  Similarity=0.403  Sum_probs=79.4

Q ss_pred             ChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           49 SDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        49 ~~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      +.|||-.||++|||.+|+-+|.|||+++++++.+|..|..||+.|..+++.|+.+.+.|..+|..|..++..++..|..+
T Consensus        65 S~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~  144 (292)
T KOG4005|consen   65 SWEEKVQRRKLKNRVAAQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAEL  144 (292)
T ss_pred             CHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhh
Confidence            56888899999999999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             HHH
Q 039918          129 YRI  131 (140)
Q Consensus       129 ~~i  131 (140)
                      .+.
T Consensus       145 ~~~  147 (292)
T KOG4005|consen  145 KQQ  147 (292)
T ss_pred             HHH
Confidence            653

>smart00338 BRLZ basic region leucin zipper

Probab=99.47  E-value=5.4e-13  Score=88.51  Aligned_cols=62  Identities=39%  Similarity=0.523  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKEN  111 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN  111 (140)
                      .|+|+.+|+++||+||++||.||+.|+.+|+.+|..|..+|..|..++..|..++..|..+|
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            46799999999999999999999999999999999999999999998887766666655554

>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=99.44  E-value=1.2e-12  Score=86.63  Aligned_cols=63  Identities=40%  Similarity=0.544  Sum_probs=56.4

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENE  112 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~  112 (140)
                      .+.++.+|+++||+||++||.||+.++++|+.+|..|..+|..|..++..|...+..|..+|.
T Consensus         2 ~~~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~~   64 (64)
T PF00170_consen    2 KEDKRERRRERNREAARRSRQRKKQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSENH   64 (64)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            356789999999999999999999999999999999999999999999999888888888773

; 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=99.35  E-value=2.7e-12  Score=114.93  Aligned_cols=66  Identities=36%  Similarity=0.383  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLT  115 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr  115 (140)
                      .--||+.|||+|||||..||+|||+|+..||.++..|..||+.|+.++..|+.++..++.||..|+
T Consensus       278 kv~krqQRmIKNResA~~SRkKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~En~~~k  343 (655)
T KOG4343|consen  278 KVLKRQQRMIKNRESACQSRKKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVSENQRLK  343 (655)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhcCcccc
Confidence            335888899999999999999999999999999999999999999999999999999999999985

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

Probab=99.22  E-value=3.3e-11  Score=101.52  Aligned_cols=55  Identities=25%  Similarity=0.387  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC  104 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~  104 (140)
                      .--||+-|++||||+||.||+|||+|+.+||.+|+.|+.+|..|-.++..|++-|
T Consensus       288 ~trKRevRLmKNREAARECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLY  342 (348)
T KOG3584|consen  288 ATRKREVRLMKNREAARECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELY  342 (348)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHHHh
Confidence            3347777999999999999999999999999999999999999999998887654

>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=2.2e-10  Score=73.78  Aligned_cols=52  Identities=42%  Similarity=0.630  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      +|+++.+|. +||+||++||.||+.++.+|+.+|..|..+|..|..++..|..
T Consensus         2 ~~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L~~   53 (54)
T PF07716_consen    2 DEEKRERRE-RNREAARRSRQRKKQREEELEQEVQELEEENEQLRQEIAQLER   53 (54)
T ss_dssp             CHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            467777888 9999999999999999999999999999999999888877653

; 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 ....

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

Probab=98.96  E-value=1.1e-09  Score=96.65  Aligned_cols=69  Identities=29%  Similarity=0.378  Sum_probs=59.1

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      -||-||+|+|.+||+.||+|||.|++.||.+|....++|+.|..++..       |+.+|..|-+++..|++.+..
T Consensus       250 LKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~-------Le~~N~sLl~qL~klQt~v~q  318 (472)
T KOG0709|consen  250 LKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEE-------LELSNRSLLAQLKKLQTLVIQ  318 (472)
T ss_pred             HHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHH-------HhhccHHHHHHHHHHHHHHhh
Confidence            367789999999999999999999999999999999999999987655       567777777777777766543

>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=98.14  E-value=2.3e-08  Score=70.75  Aligned_cols=52  Identities=33%  Similarity=0.457  Sum_probs=43.2

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      -|..||..+||.+|+.||.||..++++|+.++..|..+...|..++..+...
T Consensus        29 lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~~l~~~~~~L~~e~~~l~~e   80 (92)
T PF03131_consen   29 LKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIEQLRQEIEQLQQELSELRQE   80 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4788999999999999999999999999999998887766666655554433

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=97.87  E-value=7e-05  Score=62.67  Aligned_cols=50  Identities=28%  Similarity=0.428  Sum_probs=43.9

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           55 KRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC  104 (140)
Q Consensus        55 ~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~  104 (140)
                      .|..+.||++|.+||.||-+|+..|+.+|..|..+|..|...+..|.++.
T Consensus       208 eRkrlrnreaa~Kcr~rkLdrisrLEdkv~~lk~~n~~L~~~l~~l~~~v  257 (279)
T KOG0837|consen  208 ERKRLRNREAASKCRKRKLDRISRLEDKVKTLKIYNRDLASELSKLKEQV  257 (279)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHH
Confidence            44589999999999999999999999999999999999888876665544

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=97.81  E-value=0.00046  Score=52.49  Aligned_cols=72  Identities=24%  Similarity=0.295  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      |-+||-+|||=-|+-+|-|+...-++||.+-..|..+              ++.|..||++++.++..+..++..+....
T Consensus        53 KQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qq--------------v~~L~~e~s~~~~E~da~k~k~e~l~~~~  118 (135)
T KOG4196|consen   53 KQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQ--------------VEKLKEENSRLRRELDAYKSKYEALQNSA  118 (135)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            5567899999999999999999888888776665543              45566778888899999999998887776


Q ss_pred             HhccCC
Q 039918          133 GSMQTP  138 (140)
Q Consensus       133 ~~~~~~  138 (140)
                      ....+.
T Consensus       119 ~~~~~~  124 (135)
T KOG4196|consen  119 VSVGAS  124 (135)
T ss_pred             hhccCC
Confidence            654443

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=97.54  E-value=0.001  Score=56.47  Aligned_cols=50  Identities=32%  Similarity=0.375  Sum_probs=37.4

Q ss_pred             hHHHHHHH-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRR-MISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNI   99 (140)
Q Consensus        50 ~eeRr~RR-~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~   99 (140)
                      .++++.+| .+.|..+|-|=|+||++..+.|..++..|..+|.+|+.++..
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            34555554 677777799999999999998888887777777666665444

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

Probab=97.50  E-value=0.00062  Score=56.68  Aligned_cols=50  Identities=24%  Similarity=0.404  Sum_probs=36.9

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNI   99 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~   99 (140)
                      .+.+-..|+.+|-+++++||.+.+...+++..+|..|..||..|+.++..
T Consensus       191 ~~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~  240 (269)
T KOG3119|consen  191 KDPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQ  240 (269)
T ss_pred             CCHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566778889999999999999998877777777766665555554433

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.98  E-value=0.0069  Score=41.90  Aligned_cols=55  Identities=29%  Similarity=0.284  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      -+.-|.-+|..|..+|..|..+...+......|+.||..|+.+-...+.+|..|.
T Consensus        19 TI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsLL   73 (79)
T COG3074          19 TITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRALL   73 (79)
T ss_pred             HHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455778899999999999999999999999999999999999999998887653

>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]

Probab=96.82  E-value=0.0032  Score=57.97  Aligned_cols=47  Identities=26%  Similarity=0.286  Sum_probs=41.4

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           54 KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        54 r~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      --||+=|||.||+++|+||-..+..||..|..|+.+-++|..+-..+
T Consensus       491 DIRRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~~~  537 (604)
T KOG3863|consen  491 DIRRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERDEL  537 (604)
T ss_pred             ccccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35788999999999999999999999999999999988888765444

>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=96.81  E-value=0.037  Score=37.92  Aligned_cols=54  Identities=37%  Similarity=0.391  Sum_probs=35.3

Q ss_pred             HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELN-------RSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        76 leeLe~~v~-------~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ++.|+.+|.       .|+.+|..|+.++..+......|..||..|+.+...+..+|..+-
T Consensus         6 l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL   66 (72)
T PF06005_consen    6 LEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLL   66 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555       455566666666666666677777777777777777777776553

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.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=96.71  E-value=0.018  Score=40.33  Aligned_cols=56  Identities=23%  Similarity=0.230  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      -+.=|.-+|+.|+.+|..|..++..+......|..||..|+.+...+..+|..|--
T Consensus        19 tI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLG   74 (79)
T PRK15422         19 TITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLG   74 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45557788888999999999999988888999999999999999999999877643

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=96.64  E-value=0.027  Score=38.09  Aligned_cols=57  Identities=18%  Similarity=0.140  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      ..|+.+|..|-.....|+.++..|..+...+..|+..|.++...-+.++..|-.=|.
T Consensus         3 ~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk   59 (65)
T TIGR02449         3 QALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLK   59 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            445555555555555555555555555555555555555555555555555443333

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.

>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=96.60  E-value=0.064  Score=36.74  Aligned_cols=53  Identities=19%  Similarity=0.126  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      ..+.-|+.++..|+.+|..|..++..|......+..+-......+..|=.++.
T Consensus        18 eti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~kl~   70 (72)
T PF06005_consen   18 ETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLGKLE   70 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44566777777777777777777777777777777666666666655555443

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=96.49  E-value=0.06  Score=36.40  Aligned_cols=57  Identities=32%  Similarity=0.324  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      ..++.|-..+..|+.||..|+.++..+......|...|..-+.++..+-.+|..|.+
T Consensus         7 ~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk~leq   63 (65)
T TIGR02449         7 AQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLKALEQ   63 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence            568889999999999999999999999999999999999999999999999988754

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.

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=96.49  E-value=0.041  Score=43.20  Aligned_cols=60  Identities=23%  Similarity=0.217  Sum_probs=51.3

Q ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTE---ELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        74 ~~leeLe~---~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      ..+..|..   ....+..||..|..++..|..++..|..||..|..++..+..-+..|-.||.
T Consensus        87 ~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~  149 (161)
T TIGR02894        87 SFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMD  149 (161)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555553   4778889999999999999999999999999999999999999999888875

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.

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

Probab=96.32  E-value=0.039  Score=40.44  Aligned_cols=49  Identities=31%  Similarity=0.300  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .++..+...-..|..++..|+.+...+..||..|+-|...|+.+|..+.
T Consensus         8 ~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~   56 (107)
T PF06156_consen    8 DRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELE   56 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444455555555555555555556666666666666666666665543

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

>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=96.23  E-value=0.024  Score=35.61  Aligned_cols=42  Identities=26%  Similarity=0.307  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           85 RSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        85 ~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      +|+.+-..|+.....|...+..|..||..|++++..|..++.
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            355666677777777888888888888888888888887764

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

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

Probab=95.92  E-value=0.064  Score=39.29  Aligned_cols=50  Identities=28%  Similarity=0.343  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      ..+..|+.++..+-.+-..|+..+..|.+....|..||..||..+..+..
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            56889999999999999999999999999999999999999999988755

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

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=95.84  E-value=0.17  Score=34.38  Aligned_cols=56  Identities=30%  Similarity=0.387  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      +.+++.+..++.....+|..|..+......++...-.+|..|++++..|+..|...
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            46778888888888888888888888888888888899999999999998887654

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=95.80  E-value=0.075  Score=39.24  Aligned_cols=47  Identities=30%  Similarity=0.338  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVAL  121 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L  121 (140)
                      .+..|+.++..+-.+-..|+..+..+.+....|..||..||..+..+
T Consensus         9 ~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          9 ALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555555555555555555555555555555555555544444443

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=95.74  E-value=0.11  Score=38.44  Aligned_cols=53  Identities=30%  Similarity=0.305  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .+|=.++..+...-..|..++..|......+..||..|+-+...|+.+|..+.
T Consensus         4 ~elfd~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~   56 (110)
T PRK13169          4 KEIFDALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEELE   56 (110)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            35667899999999999999999999999999999999999999999999763

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

Probab=95.53  E-value=0.24  Score=34.12  Aligned_cols=61  Identities=25%  Similarity=0.298  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCY--------LLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~--------~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      +.+.+..++.|..||=.|+-++-.|.++..        .+..+|-.|+.++..|+..|......|.-.+
T Consensus         2 lrEqe~~i~~L~KENF~LKLrI~fLee~l~~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~   70 (75)
T PF07989_consen    2 LREQEEQIDKLKKENFNLKLRIYFLEERLQKLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEAE   70 (75)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457889999999999999999999987776        4578999999999999999988887776543

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.40  E-value=0.21  Score=40.38  Aligned_cols=33  Identities=12%  Similarity=0.081  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           98 NIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        98 ~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      .........|..+|+.|++++..++.++..+..
T Consensus       128 ~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~  160 (206)
T PRK10884        128 AQSDSVINGLKEENQKLKNQLIVAQKKVDAANL  160 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444555555555555555554444433

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

Probab=94.84  E-value=0.18  Score=37.50  Aligned_cols=47  Identities=28%  Similarity=0.249  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      .+|..|....-.|..++..+.++...+..||..|+-+...|+.+|+.
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            34555555555666677777777888888888888888888888876

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=94.72  E-value=0.37  Score=38.89  Aligned_cols=59  Identities=25%  Similarity=0.239  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      ..+|-..|+.|..-|++|..++..|......++..|+.|..++..|+..+..+.+.+..
T Consensus         3 t~dL~~~v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~   61 (193)
T PF14662_consen    3 TSDLLSCVEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQK   61 (193)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35677888888889999999999998888889999999999999999888888777654

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

Probab=94.71  E-value=0.28  Score=41.03  Aligned_cols=58  Identities=26%  Similarity=0.237  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      +..++++..+-..|..+|..|..++..+++++..++.||+.|......|-..+.+|..
T Consensus       141 kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~  198 (290)
T COG4026         141 KEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKK  198 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHH
Confidence            4556777777777888888888888888999999999999998877777666666543

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

Probab=94.29  E-value=1.6  Score=40.24  Aligned_cols=81  Identities=20%  Similarity=0.271  Sum_probs=65.5

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           55 KRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        55 ~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      ...+++-..........-+.+++.|+..+...+.++..|..+...+......+..|+..|..+...+..++..+.+-|..
T Consensus       152 ~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~LEedi~~  231 (546)
T PF07888_consen  152 KEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIRELEEDIKT  231 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33466666666667777778888888888888888888888888888888888999999999888888888888877765


Q ss_pred             c
Q 039918          135 M  135 (140)
Q Consensus       135 ~  135 (140)
                      |
T Consensus       232 l  232 (546)
T PF07888_consen  232 L  232 (546)
T ss_pred             H
Confidence            5

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 [].

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

Probab=94.10  E-value=1.1  Score=42.22  Aligned_cols=63  Identities=21%  Similarity=0.090  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      +.-+-+..+..+|+.|-..|+.++....+++..++.|...|+....+-......|...|..||
T Consensus       538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amq  600 (697)
T PF09726_consen  538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQ  600 (697)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            444557778888888888888888888888888888887777653333334555556666665

; GO: 0016021 integral to membrane

>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=94.03  E-value=1.6  Score=32.72  Aligned_cols=82  Identities=20%  Similarity=0.235  Sum_probs=64.7

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      ....|=..-|+..-....++...++.|...+..|..++..+..++..+......+..++..+...+......+..+...+
T Consensus        45 ~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~  124 (151)
T PF11559_consen   45 QQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQL  124 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556667788888888888888888999999999888888888888888888888888888777777777776666555


Q ss_pred             Hh
Q 039918          133 GS  134 (140)
Q Consensus       133 ~~  134 (140)
                      ..
T Consensus       125 ~~  126 (151)
T PF11559_consen  125 QQ  126 (151)
T ss_pred             HH
Confidence            43

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.

>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=93.97  E-value=1.7  Score=32.11  Aligned_cols=65  Identities=17%  Similarity=0.190  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           68 SRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        68 SR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      |+.-.+..+-.|+..+.........|..+-..|......|..+|..+-..+..|++++.++..-|
T Consensus        10 s~~el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~l   74 (107)
T PF09304_consen   10 SQNELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNL   74 (107)
T ss_dssp             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555666666666666666666666666666666666666666666666666666654443

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.

>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=93.88  E-value=1.4  Score=32.90  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 039918          110 ENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus       110 EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      +...|+.++..|..++..+.++
T Consensus        69 ~~~~L~~el~~l~~ry~t~Lel   90 (120)
T PF12325_consen   69 EVEELEQELEELQQRYQTLLEL   90 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444333

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 [].

>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=93.81  E-value=0.76  Score=39.54  Aligned_cols=54  Identities=28%  Similarity=0.367  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      +.|...++.|+.+|..|+.++.....++..|..+|..|+.....+..+...-.+
T Consensus        23 ~~l~~~~~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr~~sv~~~~~aEqEEE   76 (310)
T PF09755_consen   23 EQLRKRIESLQQENRVLKRELETEKARCKHLQEENRALREASVRIQAKAEQEEE   76 (310)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788888999999999999999999999999999999999888888777655433

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.77  E-value=0.76  Score=37.10  Aligned_cols=43  Identities=19%  Similarity=0.145  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      ..+......++.|..+|+.|+.++..++.+...+..+|..++.
T Consensus       125 ~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~  167 (206)
T PRK10884        125 QKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQR  167 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444445555555555555555555555444555444443

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=93.58  E-value=0.29  Score=44.28  Aligned_cols=51  Identities=16%  Similarity=0.117  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      +...++||.+++.|+.+.+.+......+.+++..++.||..|+.++..+..
T Consensus        75 Q~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~  125 (475)
T PRK13729         75 QVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGA  125 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            457889999999999999999999999999999999999999999865543

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

Probab=93.54  E-value=2.9  Score=32.79  Aligned_cols=62  Identities=16%  Similarity=0.146  Sum_probs=30.7

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           57 RMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        57 R~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      .....+.+-+.-.......+.+...-+..|..|...|.-++..+..++..+..||..|-.+.
T Consensus       120 ~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw  181 (194)
T PF08614_consen  120 ELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW  181 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333444445555555555555555555555555555555555555554443

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.

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

Probab=93.52  E-value=0.82  Score=38.11  Aligned_cols=63  Identities=19%  Similarity=0.168  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      +|.+-.+.....++..-..=+.....+..+...|+.||..|+.++..|+..+..+.+++....
T Consensus       194 ~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~~~~  256 (269)
T KOG3119|consen  194 EYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRRLFLQLP  256 (269)
T ss_pred             HHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444444444444444444444555778889999999999999999999999999999987643

>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=93.15  E-value=0.51  Score=29.54  Aligned_cols=40  Identities=23%  Similarity=0.251  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           93 LKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        93 L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      |-.....|...|..|..+|..|..+...|++.+..+...+
T Consensus         3 lE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl   42 (45)
T PF02183_consen    3 LERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKL   42 (45)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5566778888888888888888888888888888876654

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

>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=93.11  E-value=3.1  Score=31.88  Aligned_cols=82  Identities=26%  Similarity=0.194  Sum_probs=59.0

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      +|-..-...|.+.+-.-=.-+++.+..|+.++..+..+...|..++..++.....|..+-...+.++..|.....++...
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            34455567777777777777778888888888888888877877777777777777766667777777776666666555


Q ss_pred             HH
Q 039918          132 LG  133 (140)
Q Consensus       132 l~  133 (140)
                      |.
T Consensus       110 l~  111 (140)
T PF10473_consen  110 LQ  111 (140)
T ss_pred             HH
Confidence            54

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

>PRK11637 AmiB activator; Provisional

Probab=93.06  E-value=4.1  Score=35.49  Aligned_cols=63  Identities=17%  Similarity=0.153  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           68 SRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        68 SR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      .....+..+.+++.++..+..+...+..++..+..++..+..+-..|..++..++.++.....
T Consensus        62 ~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         62 SVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334445555555555555555555555555555555555555555555555555544433

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

Probab=93.01  E-value=0.77  Score=40.28  Aligned_cols=60  Identities=18%  Similarity=0.201  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           68 SRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        68 SR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      -=.|-+.+...||.-+.+++.||+.|.-+++.+.+.|...+.|+..|..|+.+-.+.-+.
T Consensus       121 vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~  180 (401)
T PF06785_consen  121 VFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQE  180 (401)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHH
Confidence            345667778888888999999999999999999999999999988887666555444333

>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=92.98  E-value=3  Score=31.26  Aligned_cols=60  Identities=25%  Similarity=0.242  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           70 WRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        70 ~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .|=..+.+.|..++..+..++..|...+..|..++..+..+...+......+...+..+.
T Consensus        48 ~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~  107 (151)
T PF11559_consen   48 DRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLE  107 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555555555555555555555554444444444444443

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.

>smart00338 BRLZ basic region leucin zipper

Probab=92.78  E-value=0.68  Score=30.16  Aligned_cols=38  Identities=32%  Similarity=0.301  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           95 NELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        95 ~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      ..+..|..++..|..+|..|+.++..|...+..+..++
T Consensus        26 ~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~   63 (65)
T smart00338       26 AEIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL   63 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35667777888888888888888888888888887765

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

Probab=92.40  E-value=0.84  Score=33.94  Aligned_cols=47  Identities=28%  Similarity=0.290  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVA  120 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~  120 (140)
                      ..+.+|+.++..+-++...|+..+..+.+....|.-||..||..+..
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            46789999999999999999999999999999999999999999876

>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=92.33  E-value=1.8  Score=30.28  Aligned_cols=45  Identities=24%  Similarity=0.175  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVAL  121 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L  121 (140)
                      ++|..++..|+..-..|..++..+...+..|..||..|..=+..|
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            455556666666666666666666666666666666555555444

The exact function is unknown.

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

Probab=92.25  E-value=0.28  Score=38.63  Aligned_cols=52  Identities=31%  Similarity=0.405  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      ++++|.++++.-..|.-|..++.    +-..|..++++||.|+..|+..| .+.+.+
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            78999999999999999999883    35667788888888888887777 554433

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.

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=92.18  E-value=2.7  Score=35.41  Aligned_cols=55  Identities=24%  Similarity=0.196  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           80 TEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        80 e~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      ..+.+.+..+...|..++..|...+..|...|..|-.+-.+|..+|..+++-|+-
T Consensus        89 KaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~  143 (292)
T KOG4005|consen   89 KARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAE  143 (292)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh
Confidence            3556667777777777777777777777777777777888888888877776653

>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=92.15  E-value=1.2  Score=34.14  Aligned_cols=54  Identities=30%  Similarity=0.326  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQC--YLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~--~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      +.+|..++..|..++..|..++..|....  ..+..+...|+.++..|..+|..+.
T Consensus        81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~  136 (169)
T PF07106_consen   81 IKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLR  136 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444555555555555555544443221  3344444445555555555554443

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 [].

>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=92.12  E-value=3.8  Score=30.52  Aligned_cols=16  Identities=25%  Similarity=0.393  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q 039918          116 SEYVALRTRLSNLYRI  131 (140)
Q Consensus       116 ~e~~~L~~~l~~l~~i  131 (140)
                      +++.+|+.-+.++..+
T Consensus        96 E~veEL~~Dv~DlK~m  111 (120)
T PF12325_consen   96 EEVEELRADVQDLKEM  111 (120)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444555555555443

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 [].

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=92.09  E-value=1.5  Score=37.52  Aligned_cols=45  Identities=20%  Similarity=0.191  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           92 VLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        92 ~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      +=+.+-+.+.-+++.|+.+|.+||.++.+|...+..|.++|-.++
T Consensus       245 KkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~~  289 (294)
T KOG4571|consen  245 KKRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEVY  289 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566778889999999999999999999999999999987654

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=91.98  E-value=2.5  Score=29.71  Aligned_cols=51  Identities=14%  Similarity=0.153  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTR  124 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~  124 (140)
                      +-++.|+.+|...-....-|.-++..|.++...+..|+..++..-..|...
T Consensus         4 EvleqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~e   54 (79)
T PRK15422          4 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERE   54 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            346788888888888888888888888888888888777744444444433

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

Probab=91.77  E-value=3  Score=30.11  Aligned_cols=62  Identities=24%  Similarity=0.281  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIV--LNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l--~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      +..++.|...+......-..+..++..+  ....+.|..+=..++.++..+..++..+.+.+..
T Consensus        34 ~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~l   97 (106)
T PF10805_consen   34 REDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDL   97 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3444445444444444444444444444  4455555555666666666666666666555543

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

>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=91.68  E-value=5  Score=32.53  Aligned_cols=49  Identities=14%  Similarity=0.140  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      +.+..+...|..+...|..++..+......+...-..++.++..|..++
T Consensus        45 d~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi   93 (251)
T PF11932_consen   45 DQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQI   93 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333333

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.

>TIGR00219 mreC rod shape-determining protein MreC

Probab=91.62  E-value=0.58  Score=39.18  Aligned_cols=37  Identities=30%  Similarity=0.202  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCY----LLWKENEQLTSE  117 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~----~l~~EN~~Lr~e  117 (140)
                      ..+..|..||.+|+.++..+..+..    .+..||.+||+-
T Consensus        66 ~~~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~L  106 (283)
T TIGR00219        66 KDVNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLREL  106 (283)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555677888888888766643333    266677776663

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.

>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=91.53  E-value=0.68  Score=30.02  Aligned_cols=50  Identities=22%  Similarity=0.196  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           71 RKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        71 RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      |+..++++|+.++..=+   +.=...-......+..+..||..|++++..++.
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            35667777777665533   122223345667788889999999999887654

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 [, ].

>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=91.43  E-value=6.1  Score=32.04  Aligned_cols=46  Identities=17%  Similarity=0.157  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSE  117 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e  117 (140)
                      -.+.+..|..+++.|+..|..|...+.........|..+...+..-
T Consensus        54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~   99 (251)
T PF11932_consen   54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEET   99 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555444444433

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.

>PF15294 Leu_zip: Leucine zipper

Probab=91.26  E-value=1.3  Score=37.61  Aligned_cols=48  Identities=25%  Similarity=0.329  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      |..++..|+.||..|+.++..+..+|.....|+..|..++..|+....
T Consensus       130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~~~~  177 (278)
T PF15294_consen  130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQDEQG  177 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            778999999999999999999999999999999999999999988443

>smart00340 HALZ homeobox associated leucin zipper

Probab=91.20  E-value=0.65  Score=29.11  Aligned_cols=27  Identities=30%  Similarity=0.395  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           97 LNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        97 ~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      ...|...|..|..||.+|..++.+|++
T Consensus         7 Ce~LKrcce~LteeNrRL~ke~~eLra   33 (44)
T smart00340        7 CELLKRCCESLTEENRRLQKEVQELRA   33 (44)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456778899999999999999999875

>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=91.11  E-value=2.8  Score=35.63  Aligned_cols=64  Identities=19%  Similarity=0.330  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQT  137 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~~  137 (140)
                      ..|+.+...+..|..+|..++.+.......+..+..|+..+..++..+..++..|..+...||.
T Consensus       244 ~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~~~~k~~kLe~LcRaLQ~  307 (309)
T PF09728_consen  244 KEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEKLKKKIEKLEKLCRALQA  307 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5677888888999999999999999999999999999999999999999999999999888885

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 [].

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=91.07  E-value=1.9  Score=39.05  Aligned_cols=59  Identities=22%  Similarity=0.237  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLW-KENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~-~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      .+..|..+-+.|..||+.|+.+...+..+..... .+...|..+...|...++.+...|.
T Consensus        74 ~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~  133 (472)
T TIGR03752        74 RLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLID  133 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666677777777777766665554444333 5455555555555444444444433

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.

>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=90.98  E-value=1.1  Score=39.23  Aligned_cols=54  Identities=26%  Similarity=0.247  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhcc
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLT----SEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr----~e~~~L~~~l~~l~~il~~~~  136 (140)
                      .+...|+.||..|+.++..|+.+.+.|  ||..|+    ..+.........+..|+.-|+
T Consensus        32 ~e~~aLr~EN~~LKkEN~~Lk~eVerL--E~e~l~s~V~E~vet~dv~~d~i~Kimnk~R   89 (420)
T PF07407_consen   32 DENFALRMENHSLKKENNDLKIEVERL--ENEMLRSHVCEDVETNDVIYDKIVKIMNKMR   89 (420)
T ss_pred             hhhhhHHHHhHHHHHHHHHHHHHHHHH--HHHhhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            456678889999999999998888888  666775    222333444444555555443

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

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

Probab=90.72  E-value=3.1  Score=32.67  Aligned_cols=53  Identities=28%  Similarity=0.390  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      +..+..|+..+.....-|+.|..++..|.-++..++.....|..+-..|-.|+
T Consensus       129 ~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw  181 (194)
T PF08614_consen  129 EEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW  181 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555555555555555554

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

>PRK11637 AmiB activator; Provisional

Probab=90.47  E-value=7.5  Score=33.90  Aligned_cols=65  Identities=18%  Similarity=0.123  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           64 SARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        64 SArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      ..+.....-...+..|+.++..+..+-..+..++..+..+...+..+-..++.++..++..|...
T Consensus        65 ~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~r  129 (428)
T PRK11637         65 QQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQ  129 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445556777788888888888888888888888888877777777777776666555444

>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=90.44  E-value=4.6  Score=28.26  Aligned_cols=63  Identities=25%  Similarity=0.266  Sum_probs=47.7

Q ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           74 KQLEDLTE-ELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        74 ~~leeLe~-~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ..++.++. .-+.|..+-..|...+..|..++..+..||..|+.+-.-|...+.+|..--...+
T Consensus         8 ~d~e~~~~e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~s~v~~   71 (80)
T PF10224_consen    8 EDIEKLEKEEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMSSSSVFQ   71 (80)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            34444443 3667778888888888888999999999999999999999998888855443333

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=90.33  E-value=2.1  Score=27.81  Aligned_cols=37  Identities=24%  Similarity=0.264  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           94 KNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        94 ~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      +..+..|...+..|..+|..|+.++..|...+..|..
T Consensus        25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~   61 (64)
T PF00170_consen   25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLKS   61 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3455666667777777777777777777777766654

; 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 ....

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

Probab=90.24  E-value=4.1  Score=34.53  Aligned_cols=60  Identities=23%  Similarity=0.226  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      ..+..+..++..+..+....+.++..+..+...+..+-..+.++..++...+..+.+++.
T Consensus       209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~  268 (325)
T PF08317_consen  209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIRE  268 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556667777777777777777777777777777777777777777777777777776664

>PRK02119 hypothetical protein; Provisional

Probab=90.24  E-value=4.3  Score=27.63  Aligned_cols=49  Identities=6%  Similarity=0.043  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .++.+||.+++....       -+..|..-...-..+...|+.++..|..+|.++.
T Consensus         9 ~Ri~~LE~rla~QE~-------tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~   57 (73)
T PRK02119          9 NRIAELEMKIAFQEN-------LLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ   57 (73)
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            345555555555544       4444444444444555666667777766666643

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans

Probab=90.05  E-value=2.2  Score=33.25  Aligned_cols=56  Identities=27%  Similarity=0.321  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      ..+|..+|..|+.+|..|...+..+..+...+......|+.+...++.+-..+.+.
T Consensus        91 ~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~~e~~~l~er~~e~l~~  146 (158)
T PF09744_consen   91 RKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELKKEYNRLHERERELLRK  146 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            34677888888888988888888888888888888888888888888877666443

Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=90.04  E-value=2.8  Score=28.35  Aligned_cols=40  Identities=25%  Similarity=0.174  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVA  120 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~  120 (140)
                      .....|..|+......+...-..+..|..||..|+.++..
T Consensus        26 ~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~   65 (69)
T PF14197_consen   26 IENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEE   65 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444333

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

Probab=90.00  E-value=3.8  Score=37.84  Aligned_cols=62  Identities=24%  Similarity=0.333  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           64 SARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        64 SArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      .|.+.+.--...+.+....+..++++...++..+..+......|..||.+|+.++..++..|
T Consensus       131 ~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l  192 (546)
T KOG0977|consen  131 KAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL  192 (546)
T ss_pred             HHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            33334444445566667777788888888888888888888888888888888888877644

>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=89.93  E-value=3.9  Score=31.23  Aligned_cols=52  Identities=23%  Similarity=0.253  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNEL--NIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~--~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      -+..+.+|...+..|..+...|....  ..+......+..|+..|..++..|+.
T Consensus        84 L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   84 LREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44667777777777777777777665  56667777777777777777777765

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 [].

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

Probab=89.82  E-value=2.8  Score=27.98  Aligned_cols=49  Identities=16%  Similarity=0.109  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALR  122 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~  122 (140)
                      .++.+||.+++.+..-...|...+..-...+..|..+...|..++..+.
T Consensus         4 ~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    4 ERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5677888888888777777777666665555555555555554444443

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.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=89.74  E-value=3.7  Score=35.02  Aligned_cols=30  Identities=20%  Similarity=0.056  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918          102 NQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus       102 ~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      ++...|+.+|+.+++....|+..+..|.+.
T Consensus        91 ~q~s~Leddlsqt~aikeql~kyiReLEQa  120 (333)
T KOG1853|consen   91 QQESQLEDDLSQTHAIKEQLRKYIRELEQA  120 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345567788888888888888877777654

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.23  E-value=5.7  Score=33.55  Aligned_cols=63  Identities=21%  Similarity=0.237  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           71 RKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        71 RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      .+...+.+++..+..++.+...|..++..+..+...+..++..+.+++..|...+..+..=|.
T Consensus        35 ~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~   97 (265)
T COG3883          35 NQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIV   97 (265)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355566777777777777777777777777777777777777777777777766666654443

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

Probab=89.19  E-value=7.1  Score=29.62  Aligned_cols=55  Identities=16%  Similarity=0.241  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      ...+.++.++..|..+|..+-.++..|..+...++.+-..+...+..+...+...
T Consensus        14 ~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~   68 (143)
T PF12718_consen   14 DRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEES   68 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4455566666666666665555555555555555555555555554444444433

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 [].

>PRK04406 hypothetical protein; Provisional

Probab=88.71  E-value=5.9  Score=27.14  Aligned_cols=52  Identities=8%  Similarity=0.041  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           78 DLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        78 eLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .++.++..|+......-.-+..|..-...-..+...|+.++..|..+|..+.
T Consensus         8 ~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   59 (75)
T PRK04406          8 QLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD   59 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3445555555544444455555555555555555777777777777776543

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

Probab=88.52  E-value=0.031  Score=48.77  Aligned_cols=56  Identities=20%  Similarity=0.158  Sum_probs=47.3

Q ss_pred             CcCCChHHHHHHHHHHhhHHHHH---HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 039918           45 RAVYSDDERKKRRMISNRESARR---SRWRKKKQLEDLTEELNRSA-VENQVLKNELNIV  100 (140)
Q Consensus        45 ~~~~~~eeRr~RR~~sNReSArr---SR~RKk~~leeLe~~v~~L~-~eN~~L~~~~~~l  100 (140)
                      .....++.++..|+..|+.+|..   +|.+++.+...|..+|+.|. ..|..|..++..|
T Consensus       146 ~~~~~~~~~~~~rr~rn~~aA~~~~~~r~~~~~~t~~l~~qv~~l~~~~~~~l~~~is~L  205 (395)
T KOG1414|consen  146 VLTPEPEEKRLLRRERNPVAAAKPIPCRNRKKPSTSPLQRQVELLPPGINSPLSPQISPL  205 (395)
T ss_pred             CCCCcchHHHHhhccccccccCCCCCCccccccccccccchHhhcCCCCCcccCcccccc
Confidence            33467888999999999999999   99999999999999999999 7777755555444

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

Probab=88.47  E-value=4.6  Score=29.86  Aligned_cols=43  Identities=23%  Similarity=0.201  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 039918           96 ELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQTP  138 (140)
Q Consensus        96 ~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~~~  138 (140)
                      -+..|.++...+..||-.||.+-..|-+.+.+|...-...|++
T Consensus        71 TLdDLSqRVdsVKEEnLKLrSENQVLGQYIeNLMSaSSVFQst  113 (120)
T KOG3650|consen   71 TLDDLSQRVDSVKEENLKLRSENQVLGQYIENLMSASSVFQST  113 (120)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHhhhhhhhcC
Confidence            3344444445555555555555555556666665555555543

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

Probab=88.38  E-value=8.7  Score=29.15  Aligned_cols=52  Identities=19%  Similarity=0.164  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           78 DLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        78 eLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ....++..+...+..|-.++..+...+..|...|..|..++..+...|..+.
T Consensus        11 ~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k   62 (143)
T PF12718_consen   11 NAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAK   62 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444444444443

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 [].

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=88.23  E-value=2.4  Score=30.66  Aligned_cols=27  Identities=15%  Similarity=0.154  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      +.+.+++.++..++.+|..|..++..|
T Consensus        34 ~q~~~~~~e~~~l~~~n~~L~~eI~~L   60 (105)
T PRK00888         34 DQVAAQQQTNAKLKARNDQLFAEIDDL   60 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333444444444444444444444333

>PF15233 SYCE1: Synaptonemal complex central element protein 1

Probab=88.17  E-value=6.6  Score=30.06  Aligned_cols=62  Identities=26%  Similarity=0.244  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ++++|-.+++.|+.-......++......+.+|..|-..|..+...|..-|..-..++..+|
T Consensus         7 ~iE~LInrInelQQaKKk~~EELgEa~~l~eaL~~ELDsL~~EkvhLeeilnkKqe~l~iLq   68 (134)
T PF15233_consen    7 QIEDLINRINELQQAKKKSSEELGEAQALWEALQRELDSLNGEKVHLEEILNKKQETLRILQ   68 (134)
T ss_pred             hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            57888899999998888888888888888889999999998888888777776666666555

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=87.74  E-value=8.6  Score=30.29  Aligned_cols=57  Identities=14%  Similarity=0.151  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      ...+..+...|+.++..|..++..|...+..|..+...+......|-.-+...++++
T Consensus        99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARkl~  155 (161)
T TIGR02894        99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARKLA  155 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555556666666666666666655555554443

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.

>PRK04325 hypothetical protein; Provisional

Probab=87.67  E-value=6.9  Score=26.65  Aligned_cols=48  Identities=10%  Similarity=0.058  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ++.+||.+++..+.-...|...+.       .-..+...|+.++..|..+|.++.
T Consensus        10 Ri~~LE~klAfQE~tIe~LN~vv~-------~Qq~~I~~L~~ql~~L~~rl~~~~   57 (74)
T PRK04325         10 RITELEIQLAFQEDLIDGLNATVA-------RQQQTLDLLQAQLRLLYQQMRDAN   57 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhc
Confidence            366666666665555555544443       334444666677777777776653

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

Probab=87.63  E-value=13  Score=29.69  Aligned_cols=78  Identities=14%  Similarity=0.123  Sum_probs=46.1

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRS-------AVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L-------~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      +-.+.++....+-+-.+.+...+...++.++..-       ..+-..|..++..++++...+..++..-..++..|....
T Consensus        89 ~~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~  168 (190)
T PF05266_consen   89 KFLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEA  168 (190)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777888888888888888888777755       444444555555555554444444444444555554444


Q ss_pred             HHHHH
Q 039918          126 SNLYR  130 (140)
Q Consensus       126 ~~l~~  130 (140)
                      ..+.+
T Consensus       169 ~~l~~  173 (190)
T PF05266_consen  169 EALKE  173 (190)
T ss_pred             HHHHH
Confidence            44443

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=87.61  E-value=1.9  Score=35.21  Aligned_cols=34  Identities=29%  Similarity=0.140  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Q 039918           84 NRSAVENQVLKNELNIVLNQC---YLLWKENEQLTSE  117 (140)
Q Consensus        84 ~~L~~eN~~L~~~~~~l~~~~---~~l~~EN~~Lr~e  117 (140)
                      ..+..||..|+.++..+..+.   ..+..||.+|+.-
T Consensus        72 ~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~l  108 (276)
T PRK13922         72 FDLREENEELKKELLELESRLQELEQLEAENARLREL  108 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444443333   2556666666653

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

Probab=87.50  E-value=7  Score=26.57  Aligned_cols=62  Identities=23%  Similarity=0.230  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      |-+.+..|-.+-..|......+...+..|+.+...++.+...|+..+..+...+..+...+.
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            55667777777777777777777777777777777777777777777777777777766553

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.

>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=87.49  E-value=0.9  Score=30.23  Aligned_cols=29  Identities=28%  Similarity=0.289  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           89 ENQVLKNELNIVLNQCYLLWKENEQLTSE  117 (140)
Q Consensus        89 eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e  117 (140)
                      |...|+.++..|..+...|+.||..||+-
T Consensus        15 EVevLK~~I~eL~~~n~~Le~EN~~Lk~~   43 (59)
T PF01166_consen   15 EVEVLKEQIAELEERNSQLEEENNLLKQN   43 (59)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44456666666666666777777777654

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.

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

Probab=87.36  E-value=0.14  Score=44.82  Aligned_cols=48  Identities=31%  Similarity=0.335  Sum_probs=42.1

Q ss_pred             CCChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           47 VYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLK   94 (140)
Q Consensus        47 ~~~~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~   94 (140)
                      -..+++++.+=.++||.+|-++|.|||.....|+.....+..+|..|.
T Consensus       279 ~~~p~~~~~~~lern~~aas~~r~~~k~~~~~~~~~~~~~~~~n~~l~  326 (395)
T KOG1414|consen  279 DEDPDERRRRFLERNRAAASRCRQKKKVWVLSLEKKAEELSSENGQLL  326 (395)
T ss_pred             CCCchhhhhhhhhhhhhhhccccCCcccccccccccccchhhhhcccc
Confidence            346677775559999999999999999999999999999999998887

>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=87.25  E-value=8.5  Score=33.15  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 039918          112 EQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus       112 ~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      ..|.+++..|+.++..+..+|.-
T Consensus       272 ~~L~aEL~elqdkY~E~~~mL~E  294 (306)
T PF04849_consen  272 RQLQAELQELQDKYAECMAMLHE  294 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666555543

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 [].

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

Probab=87.11  E-value=6.5  Score=26.21  Aligned_cols=51  Identities=16%  Similarity=0.209  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ++.++..|+.....+-.-+..|..-...-..+-..|+.++..|..+|.++.
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            678899999988888888888888888888888888888888888888775

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.

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=86.89  E-value=8.7  Score=27.03  Aligned_cols=75  Identities=17%  Similarity=0.228  Sum_probs=62.1

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      .++..+.+.+=|++=..|.-+.....+++.++..|......|-.++.....++..|+.-|..+...+...-..+.
T Consensus        10 l~rL~~aid~LE~~v~~r~~~~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e~Ir   84 (89)
T PF13747_consen   10 LTRLEAAIDRLEKAVDRRLERDRKRDELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIETIR   84 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            366777788888887777777777799999999999999999999999999999999999888877766554443

>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=86.74  E-value=7.2  Score=25.92  Aligned_cols=44  Identities=27%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALR  122 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~  122 (140)
                      +..++...+..|..+.+++.....+...|..+-..|+.++.+++
T Consensus        16 ~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r   59 (61)
T PF08826_consen   16 IQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELR   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33444555566666666665555555555555455555444444

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

>PRK02793 phi X174 lysis protein; Provisional

Probab=86.10  E-value=8.4  Score=26.08  Aligned_cols=49  Identities=16%  Similarity=0.108  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      +++.+||.+++....-...|...       ...-..+...|..++..|..+|..+.
T Consensus         8 ~Ri~~LE~~lafQe~tIe~Ln~~-------v~~Qq~~I~~L~~~l~~L~~rl~~~~   56 (72)
T PRK02793          8 ARLAELESRLAFQEITIEELNVT-------VTAHEMEMAKLRDHLRLLTEKLKASQ   56 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            45556666666555544444444       34444445666677777777776653

>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=86.06  E-value=7.1  Score=37.44  Aligned_cols=64  Identities=27%  Similarity=0.293  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           70 WRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        70 ~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      .||+..+..+..++..+..++..++..+..+...+.....++..|.+++..|+.+|...+..+.
T Consensus       297 ~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~  360 (775)
T PF10174_consen  297 SRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLE  360 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            3566788888888888888888888888888888888888888888888888888877766554

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 [].

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=86.04  E-value=16  Score=31.53  Aligned_cols=75  Identities=13%  Similarity=0.088  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           62 RESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        62 ReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      -|+++|--.-.+.++.+++.-...=+..-.....+-..+.+++.++..||-.|++++...+.+...-..++--+|
T Consensus       181 lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~K~~~kek~ViniQ  255 (305)
T PF14915_consen  181 LESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHNKADNKEKTVINIQ  255 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            567777777778888888877776666667777788889999999999999999999999888877665554444

>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]

Probab=85.99  E-value=4  Score=38.45  Aligned_cols=54  Identities=20%  Similarity=0.265  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      .+|-++|+.|..||..|+.++...+.....|+..+..|.+++..+++.+-+.++
T Consensus       325 NDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ea~~ar~  378 (832)
T KOG2077|consen  325 NDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKAEAEDARQ  378 (832)
T ss_pred             HHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478899999999999999999999988889999999999999998888877644

>PRK00846 hypothetical protein; Provisional

Probab=85.68  E-value=9.8  Score=26.44  Aligned_cols=51  Identities=10%  Similarity=-0.050  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ++.++..|+......-.-+..|.........+...|+.++..|..+|.++.
T Consensus        11 le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846         11 LEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            444444444444444444555555555556666777777777777777764

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

Probab=85.66  E-value=7.7  Score=32.61  Aligned_cols=53  Identities=25%  Similarity=0.250  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ++..+++..++..+..+|..|..++..+...+..+...-.+|+.+...|...+
T Consensus       134 ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~  186 (290)
T COG4026         134 KEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEML  186 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666666667777777777666666666555555555555554444433

>PRK02119 hypothetical protein; Provisional

Probab=85.42  E-value=8.9  Score=26.07  Aligned_cols=41  Identities=15%  Similarity=0.007  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           96 ELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        96 ~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ++.....-+..|...-..-..++..|+.+|..|.+=|..++
T Consensus        17 rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~   57 (73)
T PRK02119         17 KIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ   57 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            45555555555544444555666777777777766666554

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=85.33  E-value=10  Score=30.72  Aligned_cols=43  Identities=21%  Similarity=0.172  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVAL  121 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L  121 (140)
                      |..++..|+.+|..|..+...+..++..|..+|..|+-++-..
T Consensus       100 L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~  142 (193)
T PF14662_consen  100 LVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEF  142 (193)
T ss_pred             HHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHH
Confidence            4445555555555555555555555555555555554444333

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=85.04  E-value=7.4  Score=26.05  Aligned_cols=44  Identities=25%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           88 VENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        88 ~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      .....+..++..+..+...+..||..|+.++..|.+ ...+.++.
T Consensus        24 ~~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~-~~rIe~~A   67 (85)
T TIGR02209        24 HQTRQLNNELQKLQLEIDKLQKEWRDLQLEVAELSR-HERIEKIA   67 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-HHHHHHHH
Confidence            344556666666677777777777777777777754 33344433

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.

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

Probab=84.94  E-value=14  Score=31.91  Aligned_cols=60  Identities=23%  Similarity=0.244  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      .+.+|+.++..+..||..|...+......-..|..|...|+.+..+....|....+=|..
T Consensus       242 qivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQEElk~  301 (306)
T PF04849_consen  242 QIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQEELKT  301 (306)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555566666666666666666666666666666666666666666555544433

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 [].

>PRK00295 hypothetical protein; Provisional

Probab=84.94  E-value=9.3  Score=25.57  Aligned_cols=49  Identities=18%  Similarity=0.138  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      +++.+||.+++....-...|...+..-       ..+...|+.++..|..+|.++.
T Consensus         5 ~Ri~~LE~kla~qE~tie~Ln~~v~~Q-------q~~I~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00295          5 ERVTELESRQAFQDDTIQALNDVLVEQ-------QRVIERLQLQMAALIKRQEEMV   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHhh
Confidence            347777777777766555555544443       4444666677777777776654

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

Probab=84.62  E-value=22  Score=29.57  Aligned_cols=80  Identities=15%  Similarity=0.160  Sum_probs=49.9

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVL---------NQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~---------~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      +-.+.+..-.+.++..=.-++..+++++.+|..++.+-+.+..++..+.         .++..|..|-..++.+...|..
T Consensus        31 ~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~  110 (239)
T COG1579          31 KALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLED  110 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555566666666777777777777777777777766666554         4455555566666666666666


Q ss_pred             HHHHHHHHH
Q 039918          124 RLSNLYRIL  132 (140)
Q Consensus       124 ~l~~l~~il  132 (140)
                      .|.++...+
T Consensus       111 el~~l~~~~  119 (239)
T COG1579         111 ELAELMEEI  119 (239)
T ss_pred             HHHHHHHHH
Confidence            666555443

>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum

Probab=84.62  E-value=10  Score=26.29  Aligned_cols=47  Identities=30%  Similarity=0.259  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           86 SAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        86 L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      ...+...+..++..+..+...+..||..|+-|...|.+ ...+.++..
T Consensus        33 ~~~~~~~~~~~l~~l~~~~~~l~~e~~~L~lE~~~l~~-~~rIe~iA~   79 (97)
T PF04999_consen   33 SRHQSRQLFYELQQLEKEIDQLQEENERLRLEIATLSS-PSRIERIAR   79 (97)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC-HHHHHHHHH
Confidence            44566777788888888888899999999999888854 444444444

One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane

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

Probab=84.13  E-value=18  Score=32.84  Aligned_cols=56  Identities=20%  Similarity=0.137  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      ..+.++.++..|..+|..|+..+..|...+..+..+-.++-.++..++.++....+
T Consensus       298 e~Enlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~~eq~  353 (502)
T KOG0982|consen  298 EKENLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLICEQK  353 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Confidence            45667778888999999999999999999999999998888888888888766544

>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=84.04  E-value=13  Score=31.63  Aligned_cols=61  Identities=20%  Similarity=0.285  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSM  135 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~  135 (140)
                      .+...+.++...+.+-..+..++..+..++.....+...|..++.....+|.....++..+
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            4455555666666666666677777777777888888888888888888888888877654

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.

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

Probab=83.80  E-value=2.3  Score=31.92  Aligned_cols=30  Identities=33%  Similarity=0.531  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      |..-+++|..++..|+-||..|+.++..-.
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            445789999999999999999999886543

; PDB: 2OA5_B 2H3R_D.

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

Probab=83.38  E-value=26  Score=30.99  Aligned_cols=70  Identities=29%  Similarity=0.308  Sum_probs=48.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIV--------------LNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l--------------~~~~~~l~~EN~~Lr~e~  118 (140)
                      -|.|.+.-|-|.-|..|    +-+++=+.+..+|+..|++|++++..+              ..-.+.+..||..|..++
T Consensus        75 ~kirk~~e~~eglr~i~----es~~e~q~e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL  150 (401)
T PF06785_consen   75 TKIRKITEKDEGLRKIR----ESVEERQQESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQL  150 (401)
T ss_pred             HHHHHHHhccHHHHHHH----HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhH
Confidence            34455666667766666    456666677778888888888776544              345566778888888888


Q ss_pred             HHHHHHHH
Q 039918          119 VALRTRLS  126 (140)
Q Consensus       119 ~~L~~~l~  126 (140)
                      .++...+.
T Consensus       151 ~~l~~e~~  158 (401)
T PF06785_consen  151 DALQQECG  158 (401)
T ss_pred             HHHHHHHh
Confidence            77766663

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=82.88  E-value=5.9  Score=28.63  Aligned_cols=39  Identities=15%  Similarity=0.093  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           90 NQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        90 N~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      ...+..++..+..+...+..+|..|+.++..|+.--..+
T Consensus        29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyi   67 (105)
T PRK00888         29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAI   67 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHH
Confidence            344555555555555666666666666666665533333

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=82.76  E-value=18  Score=28.65  Aligned_cols=43  Identities=21%  Similarity=0.264  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           80 TEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALR  122 (140)
Q Consensus        80 e~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~  122 (140)
                      ..+.+.|..-|.-|+.++.........|..++..|..+...++
T Consensus        73 qqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~  115 (182)
T PF15035_consen   73 QQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLR  115 (182)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444433333333334444333333333

>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=82.65  E-value=16  Score=31.80  Aligned_cols=39  Identities=26%  Similarity=0.204  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQL  114 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~L  114 (140)
                      +..|..++.+|..+|..|..+...+..++..+..+...+
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            445556666666666666666666666666666555544

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=82.52  E-value=7.6  Score=25.33  Aligned_cols=26  Identities=27%  Similarity=0.487  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      .+.+|+.+++.+..+|..|..++..+
T Consensus        25 ei~~l~~~i~~l~~e~~~L~~ei~~l   50 (80)
T PF04977_consen   25 EIAELQKEIEELKKENEELKEEIERL   50 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444444333

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

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

Probab=82.39  E-value=6.8  Score=32.17  Aligned_cols=26  Identities=27%  Similarity=0.311  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           98 NIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        98 ~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      ..+..+...+..|-++|.++...|+.
T Consensus       182 ~al~Kq~e~~~~EydrLlee~~~Lq~  207 (216)
T KOG1962|consen  182 DALKKQSEGLQDEYDRLLEEYSKLQE  207 (216)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>PF12711 Kinesin-relat_1: Kinesin motor; InterPro: IPR024658 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport

Probab=82.21  E-value=8.4  Score=27.33  Aligned_cols=42  Identities=24%  Similarity=0.259  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Q 039918           84 NRSAVENQVLKNELNIVLN------QCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        84 ~~L~~eN~~L~~~~~~l~~------~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ..+..+|..|..++..|+.      .......||-+|+.++..|+...
T Consensus        20 ~~~~~e~~~L~eEI~~Lr~qve~nPevtr~A~EN~rL~ee~rrl~~f~   67 (86)
T PF12711_consen   20 SYLEEENEALKEEIQLLREQVEHNPEVTRFAMENIRLREELRRLQSFY   67 (86)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666777777777764      44567889999999998888766

The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. Kinesin-like proteins KLP2 (or KIF15) also contain a kinesin 'motor' domain. They are involved in mitotic spindle assembly, playing a role in positioning spindle poles during mitosis, specifically at prometaphase []. This entry represents a domain of unknown function found in this type of kinesin-like proteins.

>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=82.16  E-value=11  Score=24.60  Aligned_cols=34  Identities=29%  Similarity=0.283  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           90 NQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        90 N~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      ...+..++..+..+...+..+|..|+.++..|+.
T Consensus        19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~   52 (80)
T PF04977_consen   19 YYQLNQEIAELQKEIEELKKENEELKEEIERLKN   52 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3455566666667777777777777777777733

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

>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=81.87  E-value=1.9  Score=26.92  Aligned_cols=37  Identities=22%  Similarity=0.153  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           83 LNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYV  119 (140)
Q Consensus        83 v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~  119 (140)
                      ...+-..|..+..++..+...+..|..||..||+.+.
T Consensus         9 n~~laK~Ns~l~~ki~~le~~~s~L~~en~~lR~~~~   45 (46)
T PF07558_consen    9 NRELAKRNSALSIKIQELENEVSKLLNENVNLRELVL   45 (46)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHhHHHHhHHHHHHhHHHHHHHHHHHHHHHhc
Confidence            3445556666777777777777777777777776653

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.

>PRK02793 phi X174 lysis protein; Provisional

Probab=81.76  E-value=14  Score=25.06  Aligned_cols=51  Identities=22%  Similarity=0.057  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918           79 LTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus        79 Le~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ++.++..|+.       ++.....-+..|...-.....++..|..+|..|.+=|..+.
T Consensus         6 ~e~Ri~~LE~-------~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   56 (72)
T PRK02793          6 LEARLAELES-------RLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ   56 (72)
T ss_pred             HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4445544444       33333333333444444445566777777777766555554

>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=81.74  E-value=14  Score=25.07  Aligned_cols=50  Identities=22%  Similarity=0.185  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           78 DLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        78 eLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      .|...+.+|...|..|...+..-..++..+......-.+....|+-.+..
T Consensus         2 rL~~~ie~L~~~n~~L~~~le~~k~~se~Ls~~lgk~es~~~alrlal~y   51 (67)
T PF10506_consen    2 RLKRRIEELKSQNEMLSSTLEERKQQSEELSMDLGKYESNATALRLALKY   51 (67)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            46777888888888888888888888888888777777777777655543

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 [, ].

>PF15058 Speriolin_N: Speriolin N terminus

Probab=81.33  E-value=3.8  Score=33.28  Aligned_cols=34  Identities=32%  Similarity=0.472  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSE  117 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e  117 (140)
                      .++|.++++.|..||++|+..+..        ..||..||.=
T Consensus         7 yeGlrhqierLv~ENeeLKKlVrL--------irEN~eLksa   40 (200)
T PF15058_consen    7 YEGLRHQIERLVRENEELKKLVRL--------IRENHELKSA   40 (200)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHH--------HHHHHHHHHH
Confidence            577888999999999999887654        4567777654

>PHA03162 hypothetical protein; Provisional

Probab=81.25  E-value=1.3  Score=33.93  Aligned_cols=28  Identities=29%  Similarity=0.584  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           71 RKKKQLEDLTEELNRSAVENQVLKNELN   98 (140)
Q Consensus        71 RKk~~leeLe~~v~~L~~eN~~L~~~~~   98 (140)
                      +++.-+++|..++..|+-||..|+.++.
T Consensus        10 k~~~tmEeLaaeL~kLqmENK~LKkkl~   37 (135)
T PHA03162         10 KAQPTMEDLAAEIAKLQLENKALKKKIK   37 (135)
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667899999999999999999999983

>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=80.99  E-value=19  Score=33.32  Aligned_cols=53  Identities=28%  Similarity=0.304  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNEL-------NIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~-------~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ..|+.++..|+.++..|..++       ..|..++..+...+..|..+...|...+..+.
T Consensus       160 ~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~  219 (546)
T PF07888_consen  160 EQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEAR  219 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444433       33444444444444455555555555555443

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 [].

>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=80.75  E-value=17  Score=31.16  Aligned_cols=81  Identities=19%  Similarity=0.222  Sum_probs=35.8

Q ss_pred             ChHHHHHHHHHHhhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           49 SDDERKKRRMISNRESARRSRWRK--KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        49 ~~eeRr~RR~~sNReSArrSR~RK--k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      ..++|.++=|++|   |+.==.|-  .-.++-|...+..++.....|..++......+..+......|+.++..|+..|.
T Consensus        88 evEekyrkAMv~n---aQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L~  164 (302)
T PF09738_consen   88 EVEEKYRKAMVSN---AQLDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQLK  164 (302)
T ss_pred             HHHHHHHHHHHHH---hhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567788888888   22211111  122333333333333333333333333333333344444444445555554444


Q ss_pred             HHHHHH
Q 039918          127 NLYRIL  132 (140)
Q Consensus       127 ~l~~il  132 (140)
                      ...++|
T Consensus       165 ~rdeli  170 (302)
T PF09738_consen  165 QRDELI  170 (302)
T ss_pred             HHHHHH
Confidence            444433

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.

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

Probab=80.72  E-value=32  Score=30.93  Aligned_cols=70  Identities=16%  Similarity=0.172  Sum_probs=44.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALR  122 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~  122 (140)
                      +++.-+.++=+.-..+....+.....|+.+++.++.+...+..++.........+...++.+...+..|.
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~  107 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALE  107 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHH
Confidence            5555555555555555666667777777777777777777777666666555555555555555555553

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

Probab=80.71  E-value=26  Score=32.67  Aligned_cols=64  Identities=20%  Similarity=0.259  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSM  135 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~  135 (140)
                      ..+.+++|+.++..+..+-..+..++..+...+..+..+....+.+...+...+.-..+++..+
T Consensus       326 ~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL  389 (594)
T PF05667_consen  326 QEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELL  389 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3456666666666666666666666666666666666666666666666666665555554443

>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=80.46  E-value=21  Score=26.89  Aligned_cols=61  Identities=16%  Similarity=0.204  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           66 RRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        66 rrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      .+-+.=-...+.+|+.++..|..+--.=...+..+-.+.+.+..++..|..-+..|..+|.
T Consensus         6 ~kLkE~He~ev~glq~K~~~L~~erc~Daqrleel~~knqqLreQqk~L~e~i~~LE~RLR   66 (120)
T PF10482_consen    6 NKLKEIHEKEVQGLQNKLLELKKERCLDAQRLEELFSKNQQLREQQKTLHENIKVLENRLR   66 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHcccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334444456777888888887776666666677767777777777777777777777664

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 [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=80.42  E-value=37  Score=35.95  Aligned_cols=59  Identities=27%  Similarity=0.275  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSM  135 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~  135 (140)
                      +..+.....+.++...|...+..+..+...+..+|..|..++..|...+.++..-+..+
T Consensus      1459 d~aq~e~r~~~tel~kl~~~lee~~e~~e~l~renk~l~~ei~dl~~~~~e~~k~v~el 1517 (1930)
T KOG0161|consen 1459 DAAQRELRQLSTELQKLKNALEELLEQLEELRRENKNLSQEIEDLEEQKDEGGKRVHEL 1517 (1930)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444455555556666666666666666666666666666666666665554433

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

Probab=80.35  E-value=24  Score=35.18  Aligned_cols=60  Identities=25%  Similarity=0.293  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           71 RKKKQLEDLTEELNRSAVEN-QVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        71 RKk~~leeLe~~v~~L~~eN-~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      +++..++.|+.++..+..+- ..+..++......+..|..|+..|...+..|+..+.++.+
T Consensus       369 ~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~  429 (1074)
T KOG0250|consen  369 KLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKE  429 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555543 4444444444444444444444444444444444444433

>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=80.32  E-value=14  Score=24.24  Aligned_cols=29  Identities=17%  Similarity=0.300  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918          103 QCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus       103 ~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      ....+..||..|+..+..+..-+.++..+
T Consensus        15 ~i~tvk~en~~i~~~ve~i~envk~ll~l   43 (55)
T PF05377_consen   15 SINTVKKENEEISESVEKIEENVKDLLSL   43 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556667777777777777666555433

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) [].

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.01  E-value=26  Score=29.58  Aligned_cols=55  Identities=9%  Similarity=0.170  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      .+++.+|..|..+-..+..++..+..+...+..+-..|..++..+...+..-..+
T Consensus        48 ~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~  102 (265)
T COG3883          48 KNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQEL  102 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555555555555554444333

---

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	140
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	3e-07
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	4e-06
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	5e-06
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	7e-06
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	3e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	2e-04
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	3e-04
2wt7_B	90	Transcription factor MAFB; transcription, transcri	3e-04
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	5e-04
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	6e-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 = 43.6 bits (103), Expect = 3e-07
 Identities = 15/52 (28%), Positives = 30/52 (57%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC 104
           +++ R++ NRE+AR SR +KK+ ++ L   +     +N+ L  EL  + +  
Sbjct: 1   KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLY 52

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

 Score = 40.8 bits (96), Expect = 4e-06
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           +K ++M  N+ +A R R +K+ + E LT E      +N+ LK   + +  +   L
Sbjct: 2   KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYL 56

>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 = 40.8 bits (96), Expect = 5e-06
 Identities = 13/55 (23%), Positives = 32/55 (58%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           ++++ +  NR +A RSR ++K  ++ L ++    +  N  L++E+ ++ N+   L
Sbjct: 1   KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQL 55

>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 = 40.2 bits (94), Expect = 7e-06
 Identities = 13/56 (23%), Positives = 29/56 (51%)

Query: 52  ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           E+++ R   N+ +A + R R+++  + L  E ++   E   L+ E+  +L +   L
Sbjct: 1   EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKL 56

>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 = 38.5 bits (90), Expect = 3e-05
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLL 107
           + +R+ + NR +A +SR RK +++  L E++     +N  L +  N++  Q   L
Sbjct: 1   KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQL 55

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

 Score = 39.8 bits (92), Expect = 1e-04
 Identities = 25/128 (19%), Positives = 47/128 (36%), Gaps = 19/128 (14%)

Query: 13  LPVLETGFTAD-DIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRES-ARRSRW 70
           L V E  F  + D ++ + D             +++ S +E     M  +  S   R  W
Sbjct: 22  LSVFEDAFVDNFDCKD-VQD-----------MPKSILSKEEIDHIIMSKDAVSGTLRLFW 69

Query: 71  RKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR 130
                L    EE+ +  VE +VL+     +++      ++   +T  Y+  R RL N  +
Sbjct: 70  ----TLLSKQEEMVQKFVE-EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124

Query: 131 ILGSMQTP 138
           +       
Sbjct: 125 VFAKYNVS 132

>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 = 37.3 bits (86), Expect = 2e-04
 Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 14/86 (16%)

Query: 43  STRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLN 102
           + + V    +  K R   N  + R+SR + K +  +   ++     EN+ L+ ++     
Sbjct: 5   AKKTVDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKV----- 59

Query: 103 QCYLLWKENEQLTSEYVALRTRLSNL 128
                    EQL+ E   LR     L
Sbjct: 60  ---------EQLSRELSTLRNLFKQL 76

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

 Score = 37.0 bits (85), Expect = 3e-04
 Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 7/80 (8%)

Query: 51  DERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKE 110
             +++RR + NR  A   R ++  Q E+L ++      E + L +E          +  E
Sbjct: 35  QLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLASENA-------SMKLE 87

Query: 111 NEQLTSEYVALRTRLSNLYR 130
            + L S+Y AL+     + R
Sbjct: 88  LDALRSKYEALQNFARTVAR 107

>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 = 36.5 bits (84), Expect = 3e-04
 Identities = 15/64 (23%), Positives = 34/64 (53%)

Query: 53  RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENE 112
           ++KRR + NR  A+  R+++ +Q   L  E  +   + + LK E++ +  +      ++E
Sbjct: 27  KQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKSE 86

Query: 113 QLTS 116
           +L +
Sbjct: 87  KLAN 90

>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 = 35.8 bits (82), Expect = 5e-04
 Identities = 16/66 (24%), Positives = 27/66 (40%)

Query: 49  SDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLW 108
           SD E   +R   NR + R  R RK+  L+ L  ++      +     E + +  +   L 
Sbjct: 4   SDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLE 63

Query: 109 KENEQL 114
           +E   L
Sbjct: 64  EELRIL 69

>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 = 35.6 bits (82), Expect = 6e-04
 Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 14/86 (16%)

Query: 43  STRAVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLN 102
           + + V    +  K R   N  + R+SR + K +  +   ++     EN+ L+ ++     
Sbjct: 5   AKKTVDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKV----- 59

Query: 103 QCYLLWKENEQLTSEYVALRTRLSNL 128
                    EQL+ E   LR     L
Sbjct: 60  ---------EQLSRELSTLRNLFKQL 76

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	140
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	99.59
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	99.43
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	99.39
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	99.33
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	99.27
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	99.06
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	99.01
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	98.82
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	98.81
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	98.6
2wt7_B	90	Transcription factor MAFB; transcription, transcri	98.3
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	97.08
1skn_P	92	DNA-binding domain of SKN-1; complex (transcriptio	96.77
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	96.71
1deb_A	54	APC protein, adenomatous polyposis coli protein; c	96.0
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.81
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	95.36
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	95.32
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	95.08
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	95.0
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	94.86
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	94.65
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	94.59
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	93.97
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	93.95
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.53
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	93.21
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	93.09
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	92.68
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	92.62
2c9l_Y	63	EB1, zebra, BZLF1 trans-activator protein; viral p	92.59
3vmx_A	48	Voltage-gated hydrogen channel 1; coiled-coil, ION	92.59
3m48_A	33	General control protein GCN4; leucine zipper, synt	92.39
2kz5_A	91	Transcription factor NF-E2 45 kDa subunit; structu	91.78
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	91.71
1kd8_B	36	GABH BLL, GCN4 acid base heterodimer base-D12LA16L	91.32
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	91.17
3c3f_A	34	Alpha/beta peptide with the GCN4-PLI SIDE chain S	90.6
3a2a_A	58	Voltage-gated hydrogen channel 1; voltage-gated pr	90.55
3c3g_A	33	Alpha/beta peptide with the GCN4-PLI SIDE chain S	89.81
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	89.32
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	89.15
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	89.02
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	88.98
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	88.95
2bni_A	34	General control protein GCN4; four helix bundle, a	88.75
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	88.68
1kd8_A	36	GABH AIV, GCN4 acid base heterodimer acid-D12IA16V	88.66
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	88.58
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	88.51
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	88.15
1uo4_A	34	General control protein GCN4; four helix bundle, c	87.94
2zxx_A	79	Geminin; coiled-coil, cell cycle, coiled coil, DNA	87.79
2wq1_A	33	General control protein GCN4; TAA, nucleus, coiled	87.7
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	87.67
3ra3_A	28	P1C; coiled coil domain, fiber, KIH interactions,	87.66
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	87.61
2hy6_A	34	General control protein GCN4; protein design, para	87.46
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	87.37
1t6f_A	37	Geminin; coiled-coil, cell cycle; 1.47A {Synthetic	87.1
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	87.01
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	86.48
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	86.32
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	86.21
3m48_A	33	General control protein GCN4; leucine zipper, synt	85.78
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	84.97
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	84.87
2wvr_A	209	Geminin; DNA replication license, DNA replication	84.81
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	84.8
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	84.76
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	84.75
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	84.72
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	84.6
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	84.48
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	84.3
1dip_A	78	Delta-sleep-inducing peptide immunoreactive peptid	84.21
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	83.5
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	83.13
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	83.13
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	83.05
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	82.8
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	82.61
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	82.53
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	82.52
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	82.16
3c3g_A	33	Alpha/beta peptide with the GCN4-PLI SIDE chain S	82.12
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	82.05
3ra3_B	28	P2F; coiled coil domain, fiber, KIH interactions,	81.63
3c3f_A	34	Alpha/beta peptide with the GCN4-PLI SIDE chain S	81.54
1fmh_A	33	General control protein GCN4; coiled coil, leucine	81.34
1gk6_A	59	Vimentin; intermediate filament, dimer, parallel c	81.2
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	81.16
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	81.05
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	81.01
2r2v_A	34	GCN4 leucine zipper; coiled coils, anti-parallel t	80.93
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	80.21

>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=1.7e-15  Score=97.96  Aligned_cols=52  Identities=29%  Similarity=0.452  Sum_probs=47.8

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC  104 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~  104 (140)
                      |+.+|+++||+||++||.||++|+++|+.+|..|..+|..|..++..|...+
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            5789999999999999999999999999999999999999999888876543

>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=99.43  E-value=6.9e-13  Score=87.42  Aligned_cols=53  Identities=23%  Similarity=0.355  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC  104 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~  104 (140)
                      ||+.+|+++||+||++||.||++++++|+.+|..|..+|..|..++..|..++
T Consensus         1 Ekr~rrrerNR~AA~rcR~rKk~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~   53 (63)
T 2wt7_A            1 EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEK   53 (63)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            58899999999999999999999999999999999999988888775554443

>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=99.39  E-value=7.3e-13  Score=87.67  Aligned_cols=57  Identities=25%  Similarity=0.309  Sum_probs=43.8

Q ss_pred             CChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           48 YSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQC  104 (140)
Q Consensus        48 ~~~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~  104 (140)
                      +.++++..++..+||+||++||.||++|+.+|+.+|..|..+|..|..++..|.+.+
T Consensus         4 ~~~~d~~~~KR~rNreAArrsR~RK~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~l   60 (63)
T 2dgc_A            4 PESSDPAALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLV   60 (63)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CCcccHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555666667799999999999999999999999999999998888887776554

>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=99.33  E-value=7.1e-12  Score=81.83  Aligned_cols=51  Identities=24%  Similarity=0.386  Sum_probs=45.2

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      ||.+|+++||+||++||.||+.++++|+.+|..|..+|..|..++..|..+
T Consensus         1 kR~~r~erNr~AA~k~R~rKk~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e   51 (61)
T 1t2k_D            1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNE   51 (61)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578999999999999999999999999999999999998888877655433

>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=99.27  E-value=1.3e-11  Score=80.86  Aligned_cols=51  Identities=27%  Similarity=0.412  Sum_probs=44.9

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      |+.+|+.+||+||++||.||+.++++|+.+|..|..+|..|..++..|..+
T Consensus         1 K~errr~rNr~AA~k~R~rKk~~~~~Le~~v~~L~~~n~~L~~~v~~L~~e   51 (62)
T 1jnm_A            1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQ   51 (62)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            357889999999999999999999999999999999999888877665443

>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=99.06  E-value=6.6e-10  Score=74.99  Aligned_cols=61  Identities=21%  Similarity=0.168  Sum_probs=50.7

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           54 KKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQL  114 (140)
Q Consensus        54 r~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~L  114 (140)
                      ..+|+..||.|+|..|.||.+|+.+|+.+|..|...|..|..++..|..++..|..||..|
T Consensus         9 ~~kR~~qNR~AQRafReRK~~~i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~l   69 (70)
T 1gd2_E            9 SSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRIL   69 (70)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHC
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3688999999999999999999999999999999998887766666666666666666554

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

Probab=99.01  E-value=1.1e-09  Score=72.19  Aligned_cols=59  Identities=29%  Similarity=0.341  Sum_probs=43.9

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           53 RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        53 Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      |+.+++..||.||+|+|.||+.+.++|+.++..|..+|..|..++..|       ..|+..|+.-+
T Consensus         2 k~~rKr~rNr~AA~R~R~KKk~~~~~le~~~~~L~~~N~~L~~~i~~L-------~~E~~~Lk~ll   60 (63)
T 1ci6_A            2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSL-------AKEIQYLKDLI   60 (63)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             chHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            577889999999999999999999999999999999998888876554       44455555433

>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=98.82  E-value=2.7e-08  Score=68.26  Aligned_cols=57  Identities=19%  Similarity=0.188  Sum_probs=47.5

Q ss_pred             cCCChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           46 AVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        46 ~~~~~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      .++..|+....|..+|.++|++||.+++....+++.++..|..+|..|..++..|..
T Consensus         8 ~~dk~d~~Y~~rR~rNN~AakrSR~krk~r~~e~~~r~~~L~~eN~~L~~~v~~L~~   64 (78)
T 1gu4_A            8 TVDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSR   64 (78)
T ss_dssp             --CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355667788888999999999999999999999999999999888888877765433

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

Probab=98.81  E-value=3.5e-08  Score=69.00  Aligned_cols=55  Identities=20%  Similarity=0.206  Sum_probs=46.7

Q ss_pred             cCCChHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           46 AVYSDDERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        46 ~~~~~eeRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      .++..|++...|+.+|.++|++||.+++....+++.++..|..+|..|..++..|
T Consensus         8 ~~dk~d~~Y~~rR~rNN~AarrSR~krk~r~~e~~~r~~~Le~EN~~Lr~~v~~L   62 (87)
T 1hjb_A            8 TVDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQL   62 (87)
T ss_dssp             --CTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcCcccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556778888999999999999999999999999999999988888888776543

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

Probab=98.60  E-value=9.2e-10  Score=79.76  Aligned_cols=67  Identities=27%  Similarity=0.328  Sum_probs=46.4

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      .|..||.+|||.+|+.||.||.+.+++|+.++..|..+...|              ..||..|+.++..|..++..|.++
T Consensus        36 lK~~RR~lKNR~yAq~CR~rk~~~~~~LE~e~~~L~~e~e~L--------------~~En~~l~~E~~~lk~k~e~L~~~  101 (107)
T 3a5t_A           36 LKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKL--------------ASENASMKLELDALRSKYEALQNF  101 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTTTTT--------------TSTTSHHHHTTTSSSSCC------
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            388999999999999999999999999998877766655443              445556666666666666555544


Q ss_pred             H
Q 039918          132 L  132 (140)
Q Consensus       132 l  132 (140)
                      .
T Consensus       102 a  102 (107)
T 3a5t_A          102 A  102 (107)
T ss_dssp             -
T ss_pred             H
Confidence            3

>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=98.30  E-value=6.7e-06  Score=57.79  Aligned_cols=62  Identities=26%  Similarity=0.356  Sum_probs=46.6

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           52 ERKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        52 eRr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      -|-.||.++||.+|+-||.||.....+|+.++..|..+-..|+.              ||..+..++..+..++..
T Consensus        26 lKq~RRtlKNRgyAq~CR~Kr~~q~~~LE~e~~~L~~e~~~L~~--------------e~~~~~~e~d~~k~k~~~   87 (90)
T 2wt7_B           26 LKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQ--------------EVSRLARERDAYKVKSEK   87 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH
Confidence            47788999999999999999999999999888887766555554              444455555555555543

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

Probab=97.08  E-value=0.0084  Score=41.20  Aligned_cols=56  Identities=23%  Similarity=0.230  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      .+.-|+-+++.|+.+|..|..++..+......+..||..|+.+...+..+|..|..
T Consensus        21 tI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLg   76 (81)
T 2jee_A           21 TITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLG   76 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456678888888888888888888888888999999999999999999977643

>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=96.77  E-value=0.00068  Score=47.59  Aligned_cols=32  Identities=28%  Similarity=0.350  Sum_probs=27.0

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 039918           50 DDERKKRRMISNRESARRSRWRKKKQLEDLTE   81 (140)
Q Consensus        50 ~eeRr~RR~~sNReSArrSR~RKk~~leeLe~   81 (140)
                      ...|..||..+||.+|++||+||....+.|+.
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            44688999999999999999999998887653

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

Probab=96.71  E-value=0.0059  Score=37.12  Aligned_cols=39  Identities=23%  Similarity=0.256  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      |+|+.+||.++..|...|..|..++       ..|..||.-||+-+
T Consensus         2 KaYl~eLE~r~k~le~~naeLEerv-------stLq~EN~mLRqvl   40 (42)
T 2oqq_A            2 SAYLSELENRVKDLENKNSELEERL-------STLQNENQMLRHIL   40 (42)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhHHHHHHHh
Confidence            5899999999999998887777655       45678888888654

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

Probab=96.00  E-value=0.038  Score=34.91  Aligned_cols=48  Identities=21%  Similarity=0.216  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      .+.|-.+|+.|+.||..|++++..=..++..|+.|-.-+++-+..|..
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            578889999999999999999999999999888888887776666543

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

Probab=95.81  E-value=0.11  Score=38.44  Aligned_cols=59  Identities=24%  Similarity=0.168  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      .+...+.|+.++..+..+...|+.++..+..++..+..++..|+.++..|..++..+..
T Consensus        73 ~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~  131 (138)
T 3hnw_A           73 AKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLET  131 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567788888888888888888888888888888888888888888888887777654

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

Probab=95.36  E-value=0.058  Score=37.30  Aligned_cols=43  Identities=21%  Similarity=0.173  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 039918           95 NELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQT  137 (140)
Q Consensus        95 ~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~~  137 (140)
                      .....+......|+.||..|+.++..|...+..|..+|..+..
T Consensus        36 ~r~~e~~~r~~~Le~EN~~Lr~~v~~L~~E~~~Lr~ll~~~p~   78 (87)
T 1hjb_A           36 MRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQLPE   78 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcH
Confidence            3445667788899999999999999999999999999876544

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

Probab=95.32  E-value=0.22  Score=34.06  Aligned_cols=55  Identities=15%  Similarity=0.161  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      .-++.|+.+|..+-....-|.-++..|.++...+..+|..++.....|......+
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qL   60 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHL   60 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3578899999998888888888888888888888888888555444444444433

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

Probab=95.08  E-value=0.11  Score=33.54  Aligned_cols=42  Identities=21%  Similarity=0.285  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039918           93 LKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGS  134 (140)
Q Consensus        93 L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~  134 (140)
                      =+.+...+..++..|..+|..|+.++..|+..+..|.++|.-
T Consensus        21 Kk~~~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~Lk~ll~e   62 (63)
T 1ci6_A           21 KRAEQEALTGECKELEKKNEALKERADSLAKEIQYLKDLIEE   62 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            355677888899999999999999999999999999998853

>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=95.00  E-value=0.1  Score=33.10  Aligned_cols=40  Identities=28%  Similarity=0.191  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           94 KNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        94 ~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      +..+..|...+..+..+|..|+.++..|+..+..|.++|.
T Consensus        21 k~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk~~ll   60 (61)
T 1t2k_D           21 KVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLLL   60 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456778888899999999999999999999999988874

>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=94.86  E-value=0.17  Score=32.93  Aligned_cols=41  Identities=24%  Similarity=0.203  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      +..-+++|.+|..-|..|..++..++..++.|..||..||.
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            44567889999999999999999999999999999999973

>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=94.65  E-value=0.26  Score=35.00  Aligned_cols=47  Identities=28%  Similarity=0.191  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKN-------ELNIVLNQCYLLWKENEQLTSEYVALR  122 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~-------~~~~l~~~~~~l~~EN~~Lr~e~~~L~  122 (140)
                      .-+|+..++.++.+|..|+.       ++..|...+..|..||..|+.+-...+
T Consensus        39 Yl~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe~everL~~ENq~L~~e~~~~~   92 (104)
T 3s9g_A           39 YLELEKSLSRMEDENNRLRLESKRLDARVRELELELDRLRAENLQLLTENELHR   92 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34577777777777777666       566666666666677777766655544

>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=94.59  E-value=0.17  Score=32.42  Aligned_cols=40  Identities=20%  Similarity=0.155  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           94 KNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        94 ~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      +..+..|......|..+|..|+.++..|+..+..|..+|.
T Consensus        22 k~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk~~l~   61 (63)
T 2wt7_A           22 RELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFILA   61 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778888999999999999999999999999998875

>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=93.97  E-value=0.11  Score=35.24  Aligned_cols=39  Identities=23%  Similarity=0.168  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           95 NELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        95 ~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      .....+...+..|..||..|+.++..|...+..|..+|.
T Consensus        36 ~r~~e~~~r~~~L~~eN~~L~~~v~~L~~E~~~Lr~ll~   74 (78)
T 1gu4_A           36 MRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFK   74 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566778889999999999999999999999988763

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

Probab=93.95  E-value=0.33  Score=29.56  Aligned_cols=44  Identities=23%  Similarity=0.145  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      .+..|+.+|+.|+.+|..|+.++-.-..-+..++.|-.-||..+
T Consensus         4 lvaqlenevaslenenetlkkknlhkkdliaylekeianlrkki   47 (49)
T 3he5_A            4 LVAQLENEVASLENENETLKKKNLHKKDLIAYLEKEIANLRKKI   47 (49)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccHHHHHhcccHHHHHHHHHHHHHHHHHHh
Confidence            35678999999999999999877555555555555555555443

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

Probab=93.53  E-value=0.97  Score=34.17  Aligned_cols=94  Identities=23%  Similarity=0.220  Sum_probs=36.0

Q ss_pred             hhhhhhhhhhccCCCCCCCCCCCcCCC-hHH-HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           23 DDIQEWLSDLFQSNSGSSEGSTRAVYS-DDE-RKKRRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        23 ~~~~~~~s~~~~sps~~~~g~~~~~~~-~ee-Rr~RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      +.+..-|+.+|..|||. .|+| .|+. ..+ .....+.+-+.+.+..-......+.+-..-+..+..|...|..++..+
T Consensus        38 d~~E~~~~~l~~e~~~~-~~~~-~vs~~~~~~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~l  115 (152)
T 3a7p_A           38 NDKEAHLNELFQDNSGA-IGGN-IVSHDDALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVL  115 (152)
T ss_dssp             --------------------CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhhccC-CCcc-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555566677644 2222 1211 112 222223333333222222333334444455666666777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 039918          101 LNQCYLLWKENEQLTSEY  118 (140)
Q Consensus       101 ~~~~~~l~~EN~~Lr~e~  118 (140)
                      ..+...+..||..|-.+.
T Consensus       116 E~kl~kLq~EN~~LV~RW  133 (152)
T 3a7p_A          116 QQKLSDLKKEHSQLVARW  133 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777777776664443

>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=93.21  E-value=0.13  Score=32.80  Aligned_cols=40  Identities=18%  Similarity=0.166  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           94 KNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        94 ~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      +..+..|...+..|..+|..|+.++..|+..+..|.++|.
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            3456777888889999999999999999999988877664

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

Probab=93.09  E-value=1.6  Score=32.04  Aligned_cols=55  Identities=16%  Similarity=0.111  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      ...++++..++..|..+...+..++..+......+..++..|..++..|.+.+.+
T Consensus        81 ~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~~~  135 (138)
T 3hnw_A           81 SLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELND  135 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3556666666677777777777777777777777777777777777777766654

>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=92.68  E-value=0.21  Score=28.89  Aligned_cols=27  Identities=15%  Similarity=0.254  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      +|..||.+|..|-.+|..|..++..|+
T Consensus         2 RMnQLE~kVEeLl~~n~~Le~eV~rLk   28 (34)
T 2oxj_A            2 RMXQLEXKVXELLXKNXHLEXEVXRLK   28 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            466777777777777766666665554

>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=92.62  E-value=1.7  Score=30.62  Aligned_cols=63  Identities=16%  Similarity=0.163  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLNQCYL---------------------LWKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~---------------------l~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      .+..|..+++.|+.||..|+.++..|.-++..                     ...-....+..+..|+..+..|+..+.
T Consensus        13 ~~~~lr~ei~~Le~E~~rLr~~~~~LE~~Le~~~l~Gd~~~~~TKVlH~~~NPa~~a~~~~~~~~e~Lq~E~erLr~~v~   92 (100)
T 1go4_E           13 EADTLRLKVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSVARQRLREDHSQLQAECERLRGLLR   92 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCCSCCCTTTEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCccCeeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67777788888888888888888777644333                     011112345566666666666666665


Q ss_pred             hccC
Q 039918          134 SMQT  137 (140)
Q Consensus       134 ~~~~  137 (140)
                      .|+-
T Consensus        93 ~lEe   96 (100)
T 1go4_E           93 AMER   96 (100)
T ss_dssp             TCC-
T ss_pred             HHhc
Confidence            5554

>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=92.59  E-value=0.94  Score=29.04  Aligned_cols=40  Identities=30%  Similarity=0.310  Sum_probs=28.7

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           56 RRMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKN   95 (140)
Q Consensus        56 RR~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~   95 (140)
                      +..-+||.++|+||.|=+..++....-.+.-..||..|+-
T Consensus         4 ~kryknr~asrk~rakfkn~lqh~r~vaaaks~en~rlr~   43 (63)
T 2c9l_Y            4 IKRYKNRVAARKSRAKFKQLLQHYREVAAAKSSENDRLRL   43 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchHHHH
Confidence            3456899999999999888877666555555556655543

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

Probab=92.59  E-value=0.54  Score=29.20  Aligned_cols=39  Identities=18%  Similarity=0.109  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           80 TEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        80 e~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      +.++..|..-|..|..++..|...|..++.|+.+|+.=+
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            567889999999999999999999999999988887543

>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=92.39  E-value=0.18  Score=29.05  Aligned_cols=26  Identities=19%  Similarity=0.247  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      |..||.+|+.|-.+|..|..++..|+
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            45677777777777766666665554

>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Homo sapiens}

Probab=91.78  E-value=0.011  Score=41.43  Aligned_cols=24  Identities=33%  Similarity=0.234  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHHHH
Q 039918           51 DERKKRRMISNRESARRSRWRKKK   74 (140)
Q Consensus        51 eeRr~RR~~sNReSArrSR~RKk~   74 (140)
                      -.|..||.-+||.+|+.+|+||..
T Consensus        64 lIrdiRRRgKNKvAAqnCRKRKld   87 (91)
T 2kz5_A           64 LVRDIRRRGKNKVAAQNYRKRKLE   87 (91)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCCCCC
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHH
Confidence            358899999999999999999853

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

Probab=91.71  E-value=1.8  Score=30.36  Aligned_cols=52  Identities=19%  Similarity=0.184  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ..+..|+.++.....+...|...+..-......++.++..+..++..|.+-|
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            5566677777777777777777777777777788888888888888887666

>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=91.32  E-value=0.53  Score=27.51  Aligned_cols=28  Identities=14%  Similarity=0.188  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      +|..|+.+|+.|-.+|..|..++..|+.
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            5677888888877777777777666544

>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=91.17  E-value=2.4  Score=28.62  Aligned_cols=63  Identities=21%  Similarity=0.247  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           70 WRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        70 ~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      +|=++.+..-..++..|+.-...|..--..|..-...+..|-..|...+..|..+...|.+++
T Consensus        14 rrl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL~~~l   76 (78)
T 3iv1_A           14 WRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEELSSAL   76 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344577888888899998888888888888888899999999999999999999999887764

>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=90.60  E-value=0.49  Score=27.34  Aligned_cols=27  Identities=11%  Similarity=0.154  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      +|..||.+|+.|-.+|..|..++..|+
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            466777777777776666666665554

>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=90.55  E-value=0.99  Score=28.86  Aligned_cols=39  Identities=21%  Similarity=0.122  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           80 TEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        80 e~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      +.++..|..-|-.|..+++.|..+|...+.|+.+|..=+
T Consensus        10 e~q~~kLKq~n~~L~~kv~~Le~~c~e~eQEieRL~~LL   48 (58)
T 3a2a_A           10 ERQLLRLKQMNVQLAAKIQHLEFSCSEKEQEIERLNKLL   48 (58)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457788888899999999999889888888888876543

>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=89.81  E-value=0.63  Score=26.72  Aligned_cols=26  Identities=12%  Similarity=0.184  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      |..||.+|+.|-.+|..|..++..|+
T Consensus         2 MnQLEdKvEeLl~~~~~Le~EV~RLk   27 (33)
T 3c3g_A            2 MKXIEXKLXEIXSKXYHXENXLARIK   27 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            55667777776666666666655543

>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=89.32  E-value=0.62  Score=29.98  Aligned_cols=33  Identities=15%  Similarity=0.188  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           94 KNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        94 ~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      ...+..|..+...|..+|..|+.++..|+..|.
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            445677788888889999999999999987764

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

Probab=89.15  E-value=2.4  Score=28.68  Aligned_cols=49  Identities=14%  Similarity=0.083  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTR  124 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~  124 (140)
                      .+++..++..+..+|..|..++..+...+..-..+-..++.++..+...
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            4556677888888888888888888887777777777777776655443

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

Probab=89.02  E-value=3.9  Score=27.68  Aligned_cols=39  Identities=15%  Similarity=0.233  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQL  114 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~L  114 (140)
                      +-+|..++..|+.|...|+..++.+..++..+......+
T Consensus        22 ~~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~   60 (83)
T 2xdj_A           22 LTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQI   60 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666666666655555555554444333

>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=88.98  E-value=2.7  Score=26.12  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIV  100 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l  100 (140)
                      +.+|..++..|...|..|..-+...
T Consensus        11 ~~~l~~~l~~L~~rN~rL~~~L~~A   35 (51)
T 3m91_A           11 IHQLEARIDSLAARNSKLMETLKEA   35 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555555555555544443

>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=88.95  E-value=0.97  Score=29.84  Aligned_cols=35  Identities=20%  Similarity=0.132  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           93 LKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSN  127 (140)
Q Consensus        93 L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~  127 (140)
                      |..++..+......+..||..|+.++..|...+..
T Consensus        34 LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~   68 (70)
T 1gd2_E           34 LETQVVTLKELHSSTTLENDQLRQKVRQLEEELRI   68 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555556677888888888777777654

>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=88.75  E-value=0.66  Score=26.81  Aligned_cols=27  Identities=15%  Similarity=0.308  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      +|..||.+|+.|-.+|..|..++..|+
T Consensus         2 RMnQLEdKvEeLl~~~~~L~~EV~RLk   28 (34)
T 2bni_A            2 RMKQIEDKLEEILSKGHHICNELARIK   28 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHccHHHHHHHHHHH
Confidence            456677777777777766666665554

>1p9i_A Cortexillin I/GCN4 hybrid peptide; coiled-coil, unknown function; 1.17A {Synthetic} SCOP: h.1.10.1

Probab=88.68  E-value=0.73  Score=25.61  Aligned_cols=23  Identities=26%  Similarity=0.198  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 039918          103 QCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus       103 ~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      -+..++.||.+|++.+++|-+++
T Consensus         7 llasleaenkqlkakveellakv   29 (31)
T 1p9i_A            7 LLASLEAENKQLKAKVEELLAKV   29 (31)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34567788888888888776655

>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=88.66  E-value=0.78  Score=26.79  Aligned_cols=28  Identities=21%  Similarity=0.259  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      +|..|+.+|..|-.+|..|..++..|+.
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            4567777777777777777776665543

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

Probab=88.58  E-value=5.2  Score=28.59  Aligned_cols=55  Identities=11%  Similarity=0.104  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYR  130 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~  130 (140)
                      +..|+.++..|+..|..|...+..|......|+......-.-+..+..+|..+-+
T Consensus        37 ~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~aiE   91 (111)
T 2v66_B           37 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAIE   91 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4456666666666666666666666666666666666666666666666655433

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

Probab=88.51  E-value=5.3  Score=30.08  Aligned_cols=32  Identities=19%  Similarity=0.080  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           90 NQVLKNELNIVLNQCYLLWKENEQLTSEYVAL  121 (140)
Q Consensus        90 N~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L  121 (140)
                      ++.|..++..|.-++..++.....|.++-..|
T Consensus        98 ~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~L  129 (152)
T 3a7p_A           98 TERLNAALISGTIENNVLQQKLSDLKKEHSQL  129 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333343333333

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

Probab=88.15  E-value=8.7  Score=36.49  Aligned_cols=19  Identities=26%  Similarity=0.183  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 039918          104 CYLLWKENEQLTSEYVALR  122 (140)
Q Consensus       104 ~~~l~~EN~~Lr~e~~~L~  122 (140)
                      ...|..||..|++++..|.
T Consensus      1025 v~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A         1025 VSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344445555555554444

>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=87.94  E-value=0.8  Score=26.46  Aligned_cols=27  Identities=11%  Similarity=0.176  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      +|..||.+|+.|-.+|..|..++..|.
T Consensus         2 RM~QLEdKVEeLl~~n~~Le~EV~RLk   28 (34)
T 1uo4_A            2 RMKQIEDKGEEILSKLYHIENELARIK   28 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            356677777777777766666665554

>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=87.79  E-value=1.2  Score=30.19  Aligned_cols=37  Identities=24%  Similarity=0.193  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           87 AVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRT  123 (140)
Q Consensus        87 ~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~  123 (140)
                      -.||..|..++..+...+..+..||..|+.-+...+.
T Consensus        33 L~EN~~Lh~~ie~~~eEi~~LkeEN~~L~el~~~~~~   69 (79)
T 2zxx_A           33 LKENEKLHKEIEQKDSEIARLRKENKDLAEVAEHVQY   69 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3589999999999999999999999888654444433

>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=87.70  E-value=1.1  Score=25.75  Aligned_cols=26  Identities=12%  Similarity=0.170  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVL  101 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~  101 (140)
                      |..||.+|+.|-.+|..|..++..++
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            56778888887777777777766654

>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=87.67  E-value=1.4  Score=27.45  Aligned_cols=15  Identities=20%  Similarity=0.242  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHH
Q 039918           82 ELNRSAVENQVLKNE   96 (140)
Q Consensus        82 ~v~~L~~eN~~L~~~   96 (140)
                      .|+.|+.||..|+.+
T Consensus        20 d~eaLk~E~~eLk~k   34 (53)
T 2yy0_A           20 EIELLRLELAEMKEK   34 (53)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence            344444444444433

>3ra3_A P1C; coiled coil domain, fiber, KIH interactions, synthetic biolo helical reconstruction, de novo protein; HET: PHI; 2.31A {Synthetic}

Probab=87.66  E-value=0.8  Score=24.92  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 039918          106 LLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus       106 ~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .|+-||..|.+.+..|.++++.+.
T Consensus         4 alefendaleqkiaalkqkiaslk   27 (28)
T 3ra3_A            4 ALEFENDALEQKIAALKQKIASLK   27 (28)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhccHHHHHHHHHHHHHHHHhc
Confidence            567778888888877777776654

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

Probab=87.61  E-value=4.6  Score=26.83  Aligned_cols=48  Identities=15%  Similarity=0.133  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTR  124 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~  124 (140)
                      .++..++..+..+|..|..++..+...+..-..+-..++.++..+...
T Consensus         3 ~~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~~e~   50 (72)
T 3cve_A            3 HNSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTLLEI   50 (72)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356778888888888888888888888877777777777777665443

>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=87.46  E-value=0.89  Score=26.24  Aligned_cols=28  Identities=18%  Similarity=0.277  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      +|..|+.+|+.|-.+|..|..++..|..
T Consensus         2 RMnQLEdkVEeLl~~~~~Le~eV~RL~~   29 (34)
T 2hy6_A            2 KVKQLADAVEELASANYHLANAVARLAK   29 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4567777777777777777776665543

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

Probab=87.37  E-value=0.83  Score=37.08  Aligned_cols=42  Identities=21%  Similarity=0.288  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLT  115 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr  115 (140)
                      ..+.+|+.++..|...|..|...+..++.++..|..|+..|+
T Consensus        54 ~~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~   95 (251)
T 3m9b_A           54 RDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLG   95 (251)
T ss_dssp             HHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            446677777777777777777777776666666666655554

>1t6f_A Geminin; coiled-coil, cell cycle; 1.47A {Synthetic} SCOP: h.1.28.1

Probab=87.10  E-value=1.3  Score=25.94  Aligned_cols=30  Identities=33%  Similarity=0.317  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           87 AVENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        87 ~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      -.||.+|...+..-.+++..|..||..|.+
T Consensus         6 L~ENekLhk~ie~KdeeIa~Lk~eN~eL~E   35 (37)
T 1t6f_A            6 LKENEKLHKEIEQKDNEIARLKKENKELAE   35 (37)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHh
Confidence            358999999999999999999999988863

>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=87.01  E-value=8.1  Score=32.85  Aligned_cols=39  Identities=23%  Similarity=0.119  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           78 DLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        78 eLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      .++.+.+.+..+++.+..+++...+.+..+..|...|+.
T Consensus       513 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~  551 (597)
T 3oja_B          513 HLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEK  551 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHH
Confidence            333344444444444444444444444444444444433

>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=86.48  E-value=6  Score=27.98  Aligned_cols=30  Identities=27%  Similarity=0.302  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           73 KKQLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        73 k~~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      -..+.+|+.+|..|+.||+.|..+......
T Consensus        64 ~~~v~eLe~everL~~ENq~L~~e~~~~~~   93 (104)
T 3s9g_A           64 DARVRELELELDRLRAENLQLLTENELHRQ   93 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            467889999999999999999998776543

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

Probab=86.32  E-value=4.1  Score=31.74  Aligned_cols=52  Identities=21%  Similarity=0.231  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ++++.-..-|..|..||..|..++.....+...|..+-+.|+.++......+
T Consensus        13 ~ql~~ad~LV~~L~~En~~L~~ql~~k~~ei~~L~~ql~sl~~~~~~~~~~~   64 (190)
T 4emc_A           13 QQIDSADLLVANLVNENFVLSEKLDTKATEIKQLQKQIDSLNAQVKELKTQT   64 (190)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHH
Confidence            4455555667777777777777776666566555555555555554444444

>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=86.21  E-value=1.5  Score=25.25  Aligned_cols=29  Identities=17%  Similarity=0.194  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           97 LNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        97 ~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ...|..++..|..+|..|..++..|+.-|
T Consensus         3 MnQLE~kVEeLl~~n~~Le~eV~rLk~ll   31 (34)
T 2oxj_A            3 MXQLEXKVXELLXKNXHLEXEVXRLKXLV   31 (34)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            34566677788888888888888887765

>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=85.78  E-value=1  Score=25.82  Aligned_cols=28  Identities=18%  Similarity=0.127  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           98 NIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        98 ~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ..|..++..|..+|..|..++..|+.-|
T Consensus         3 ~QLE~kVEeLl~~n~~Le~EV~RLk~Ll   30 (33)
T 3m48_A            3 AQLEAKVEELLSKNWNLENEVARLKKLV   30 (33)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            3566677888899999999998887755

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

Probab=84.97  E-value=8.3  Score=27.29  Aligned_cols=14  Identities=36%  Similarity=0.494  Sum_probs=8.9

Q ss_pred             CChHHHHHHHHHHh
Q 039918           48 YSDDERKKRRMISN   61 (140)
Q Consensus        48 ~~~eeRr~RR~~sN   61 (140)
                      ...++|-++-|++|
T Consensus         5 ~EvEEKyrKAMVsn   18 (103)
T 4h22_A            5 AEVEEKYKKAMVSN   18 (103)
T ss_dssp             ---CCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            35567778888887

>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=84.87  E-value=2.2  Score=26.53  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           90 NQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        90 N~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      ...|+.++..|+.++..|..++..|++
T Consensus        21 ~eaLk~E~~eLk~k~~~L~~~~~el~~   47 (53)
T 2yy0_A           21 IELLRLELAEMKEKYEAIVEENKKLKA   47 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444333333333333

>2wvr_A Geminin; DNA replication license, DNA replication inhibitor, phosphoprotein, UBL conjugation, DNA-binding, polymorphism; HET: DNA; 3.30A {Homo sapiens}

Probab=84.81  E-value=11  Score=29.61  Aligned_cols=45  Identities=24%  Similarity=0.186  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           87 AVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        87 ~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      -.||..|..++..+.+.+..+..||..|+.=+..++....-+.++
T Consensus       114 LeEN~~Lh~~ie~l~eEi~~LkeEn~eLkeLae~~q~la~vi~~l  158 (209)
T 2wvr_A          114 LKENEKLHKEIEQKDNEIARLKKENKELAEVAEHVQYMAELIERL  158 (209)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            358999999999999999999999988877665555444444444

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=84.80  E-value=3.8  Score=27.32  Aligned_cols=49  Identities=14%  Similarity=0.038  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      .++.+||.+++.+..-...|...+..-..       +-..|+.++..|..++..+.
T Consensus        14 ~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~-------~Id~L~~ql~~L~~rl~~~~   62 (78)
T 3efg_A           14 ARLVELETRLSFQEQALTELSEALADARL-------TGARNAELIRHLLEDLGKVR   62 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhh
Confidence            35666666666666655555555544444       44455555555555554443

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

Probab=84.76  E-value=19  Score=34.27  Aligned_cols=58  Identities=17%  Similarity=0.121  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLL----WKENEQLTSEYVALRTRLSNLYRILG  133 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l----~~EN~~Lr~e~~~L~~~l~~l~~il~  133 (140)
                      +..|+.+++.|+.+...+..+...+.+.+..+    ...-..|..+...|++.+.++...+.
T Consensus       986 v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~~~~~ 1047 (1080)
T 2dfs_A          986 VLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIH 1047 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444443333222    23333455566666666666664443

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

Probab=84.75  E-value=11  Score=28.67  Aligned_cols=43  Identities=16%  Similarity=0.113  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYV  119 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~  119 (140)
                      .++...+..+...+..|...+..|......|..+...|.+.+.
T Consensus        37 tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~   79 (168)
T 3o0z_A           37 TEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILE   79 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555555555555555544443

>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=84.72  E-value=5.2  Score=24.80  Aligned_cols=36  Identities=6%  Similarity=0.013  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      .++..|+.++..|..++..|..-+.....+-..|++
T Consensus         9 ~r~~~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lke   44 (51)
T 3m91_A            9 RDIHQLEARIDSLAARNSKLMETLKEARQQLLALRE   44 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444333333333333333

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

Probab=84.60  E-value=4.8  Score=24.21  Aligned_cols=32  Identities=25%  Similarity=0.211  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918          101 LNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus       101 ~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      ..+...++.-|+.|.+.+..|...=.-|++||
T Consensus         9 E~r~k~le~~naeLEervstLq~EN~mLRqvl   40 (42)
T 2oqq_A            9 ENRVKDLENKNSELEERLSTLQNENQMLRHIL   40 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHh
Confidence            33334444444444444444444444444443

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

Probab=84.48  E-value=1.2  Score=27.83  Aligned_cols=31  Identities=23%  Similarity=0.244  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           95 NELNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        95 ~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ..+..|..++..|..||..|+.++..|...+
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            3466677778888999999999998887654

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

Probab=84.30  E-value=7.8  Score=26.44  Aligned_cols=31  Identities=16%  Similarity=0.111  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           98 NIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        98 ~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      ..|+.++..+..+|..|..++..|...+.++
T Consensus        59 ~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~   89 (93)
T 3s4r_A           59 RELRRQVDQLTNDKARVEVERDNLAEDIMRL   89 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444455555555555555554444443

>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure, leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP: h.1.12.1

Probab=84.21  E-value=0.77  Score=31.02  Aligned_cols=28  Identities=25%  Similarity=0.368  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           89 ENQVLKNELNIVLNQCYLLWKENEQLTS  116 (140)
Q Consensus        89 eN~~L~~~~~~l~~~~~~l~~EN~~Lr~  116 (140)
                      |...|+.++..|.++...|+.||..||.
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            3345666666666666777777777765

>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=83.50  E-value=9.2  Score=27.73  Aligned_cols=37  Identities=22%  Similarity=0.202  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           90 NQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        90 N~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      .+.|..+|..|.+++.....|-.+||.+...|..++.
T Consensus        73 vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~  109 (121)
T 3mq7_A           73 VEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIA  109 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhh
Confidence            4445555555555555555555555555555555543

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=83.13  E-value=8.1  Score=25.76  Aligned_cols=60  Identities=15%  Similarity=0.136  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           72 KKKQLEDLTEELNRSAVENQVLKNELNIV------LNQCYLLWKENEQLTSEYVALRTRLSNLYRI  131 (140)
Q Consensus        72 Kk~~leeLe~~v~~L~~eN~~L~~~~~~l------~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~i  131 (140)
                      -+..++.|+.++..|..+...|..++..-      -..+..+..+-..+..++..+-.++..|..+
T Consensus        20 eqrEle~le~~Ie~LE~~i~~le~~ladp~~y~~d~~~~~~l~~~l~~~e~eLe~~~erWeeLe~~   85 (89)
T 2lw1_A           20 LQRELEQLPQLLEDLEAKLEALQTQVADASFFSQPHEQTQKVLADMAAAEQELEQAFERWEYLEAL   85 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34578999999999999999999888642      2567778888888999999998888877654

>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=83.13  E-value=7.4  Score=27.32  Aligned_cols=56  Identities=25%  Similarity=0.268  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNI---------------------VLNQCYLLWKENEQLTSEYVALRTRLSNLY  129 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~---------------------l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~  129 (140)
                      ..++.|+.+...|+.++..|..++..                     ....+.....+-..|++++..|+.++..|.
T Consensus        19 ~ei~~Le~E~~rLr~~~~~LE~~Le~~~l~Gd~~~~~TKVlH~~~NPa~~a~~~~~~~~e~Lq~E~erLr~~v~~lE   95 (100)
T 1go4_E           19 LKVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSVARQRLREDHSQLQAECERLRGLLRAME   95 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSSCCSCCCTTTEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCccCeeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34666777777777777776666655                     124445566777778888888887776553

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

Probab=83.05  E-value=8.4  Score=27.27  Aligned_cols=31  Identities=16%  Similarity=0.004  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           81 EELNRSAVENQVLKNELNIVLNQCYLLWKEN  111 (140)
Q Consensus        81 ~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN  111 (140)
                      .+-..|.-+...|+..+..+.+.+..+..|+
T Consensus        23 NEKsal~YqVdlLKD~LEe~eE~~aql~Re~   53 (103)
T 4h22_A           23 NEKTNFMYQVDTLKDMLLELEEQLAESRRQY   53 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444433333333333

>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=82.80  E-value=7.9  Score=28.08  Aligned_cols=37  Identities=19%  Similarity=0.175  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           82 ELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEY  118 (140)
Q Consensus        82 ~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~  118 (140)
                      +|..|+.|+..|..++.........|..+|..|...+
T Consensus        72 ~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~  108 (121)
T 3mq7_A           72 KVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRI  108 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHh
Confidence            4666666666666666666666667777777666555

>3efg_A Protein SLYX homolog; xanthomonas campestris PV. campestris, coiled-coil, structur genomics, PSI-2, protein structure initiative; 2.00A {Xanthomonas campestris PV}

Probab=82.61  E-value=4.8  Score=26.78  Aligned_cols=32  Identities=13%  Similarity=-0.005  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918          105 YLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus       105 ~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ..|...-..-..++..|+.+|..|.+=+..++
T Consensus        31 eeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~   62 (78)
T 3efg_A           31 TELSEALADARLTGARNAELIRHLLEDLGKVR   62 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33333334455566666666666655544443

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

Probab=82.53  E-value=1.5  Score=35.60  Aligned_cols=36  Identities=17%  Similarity=0.096  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 039918          101 LNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSMQ  136 (140)
Q Consensus       101 ~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~~  136 (140)
                      ..+...+...|..|.+.+..++.++..+.+-|..++
T Consensus        60 ~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~   95 (251)
T 3m9b_A           60 EARIDSLAARNSKLMETLKEARQQLLALREEVDRLG   95 (251)
T ss_dssp             HHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333334444444444444444444444444333333

>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=82.52  E-value=2  Score=28.31  Aligned_cols=12  Identities=8%  Similarity=0.144  Sum_probs=4.2

Q ss_pred             HHHHHHHHHHHH
Q 039918          113 QLTSEYVALRTR  124 (140)
Q Consensus       113 ~Lr~e~~~L~~~  124 (140)
                      .|..++..|+.+
T Consensus        58 ~l~~e~~~L~~~   69 (83)
T 1nkp_B           58 THQQDIDDLKRQ   69 (83)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

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

Probab=82.16  E-value=15  Score=28.03  Aligned_cols=65  Identities=18%  Similarity=0.165  Sum_probs=38.3

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           57 RMISNRESARRSRWRKKKQLEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus        57 R~~sNReSArrSR~RKk~~leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      .+..-=+.=|+.|.+-.+.+.+|+.++..|..+...++.       ....+..+|..|...+..|...-+.+
T Consensus        73 ~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~-------~~~k~~~e~r~L~Ekl~~lEKe~a~~  137 (168)
T 3o0z_A           73 QLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKH-------NLEKVEGERKEAQDMLNHSEKEKNNL  137 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            444444555667777777777777777666665555544       34445556666665555555544444

>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=82.12  E-value=3  Score=23.87  Aligned_cols=28  Identities=4%  Similarity=0.016  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           98 NIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        98 ~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      ..|..++..|..+|..|..++..|+.-|
T Consensus         3 nQLEdKvEeLl~~~~~Le~EV~RLk~lL   30 (33)
T 3c3g_A            3 KXIEXKLXEIXSKXYHXENXLARIKXLL   30 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4566677788888999998888887765

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

Probab=82.05  E-value=11  Score=26.72  Aligned_cols=60  Identities=18%  Similarity=0.132  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 039918           76 LEDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRILGSM  135 (140)
Q Consensus        76 leeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il~~~  135 (140)
                      +.+.+..+..|......|-..+..+..++......|..|.+....|...+.++..=|.-.
T Consensus        64 l~e~EE~~~~L~~~k~eLe~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led~  123 (129)
T 2fxo_A           64 LADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDL  123 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555666666666666667777777777777777666666666666665554443

>3ra3_B P2F; coiled coil domain, fiber, KIH interactions, synthetic biolo helical reconstruction, de novo protein; HET: PHI; 2.31A {Synthetic}

Probab=81.63  E-value=1.4  Score=23.93  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 039918          107 LWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus       107 l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      |...|.+|++++..|.-.++.+
T Consensus         5 lkqknarlkqeiaaleyeiaal   26 (28)
T 3ra3_B            5 LKQKNARLKQEIAALEYEIAAL   26 (28)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHHHh
Confidence            4455666666666665555444

>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=81.54  E-value=3.2  Score=23.88  Aligned_cols=29  Identities=7%  Similarity=0.045  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           97 LNIVLNQCYLLWKENEQLTSEYVALRTRL  125 (140)
Q Consensus        97 ~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l  125 (140)
                      .+.|..++..|..+|..|..++..|+.-|
T Consensus         3 MnQLEdKVEeLl~~~~~Le~EV~RLk~ll   31 (34)
T 3c3f_A            3 MXQIEXKLEXILSXLYHXENEXARIXKLL   31 (34)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            34566677788888889988888887765

>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=81.34  E-value=3.6  Score=23.08  Aligned_cols=27  Identities=22%  Similarity=0.359  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      ..|+.+|++.+.+|-.|..++..|...
T Consensus         4 aqlekevaqaeaenyqleqevaqlehe   30 (33)
T 1fmh_A            4 AQLEKEVAQAEAENYQLEQEVAQLEHE   30 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence            456666666666666666555555443

>1gk6_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, leucine zipper, fusion protein; 1.9A {Saccharomyces cerevisiae} SCOP: h.1.20.1

Probab=81.20  E-value=7.8  Score=24.25  Aligned_cols=50  Identities=20%  Similarity=0.175  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLS  126 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~  126 (140)
                      .++...+..|+.+...++..+......+..|..=.-.|..++...+.-|.
T Consensus         3 ~~~q~~i~~le~el~~~r~e~~~q~~eYq~LlniK~~Le~EIatYRkLLE   52 (59)
T 1gk6_A            3 KQLEDKVEELLSKNYHLENEVARLKKLVGDLLNVKMALDIEIATYRKLLE   52 (59)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHc
Confidence            45667777777777778888777777888888888888888888876653

>1p9i_A Cortexillin I/GCN4 hybrid peptide; coiled-coil, unknown function; 1.17A {Synthetic} SCOP: h.1.10.1

Probab=81.16  E-value=2.7  Score=23.29  Aligned_cols=27  Identities=26%  Similarity=0.363  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      +.|..-++.|+.||.+|+.++..+...
T Consensus         2 dqlnallasleaenkqlkakveellak   28 (31)
T 1p9i_A            2 DQLNALLASLEAENKQLKAKVEELLAK   28 (31)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456777888999999999988776543

>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=81.05  E-value=17  Score=34.54  Aligned_cols=27  Identities=11%  Similarity=0.111  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918          102 NQCYLLWKENEQLTSEYVALRTRLSNL  128 (140)
Q Consensus       102 ~~~~~l~~EN~~Lr~e~~~L~~~l~~l  128 (140)
                      ..+..+..+...|..++..+..++..+
T Consensus       913 ~~l~~l~~~~~~Le~~l~ele~elee~  939 (1184)
T 1i84_S          913 EMRVRLAAKKQELEEILHEMEARIEEE  939 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444443

>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1

Probab=81.01  E-value=4  Score=27.15  Aligned_cols=30  Identities=13%  Similarity=0.174  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           74 KQLEDLTEELNRSAVENQVLKNELNIVLNQ  103 (140)
Q Consensus        74 ~~leeLe~~v~~L~~eN~~L~~~~~~l~~~  103 (140)
                      .|+..|+.+...+..++..|..++..|..+
T Consensus        47 ~yI~~L~~~~~~l~~e~~~L~~e~~~L~~~   76 (80)
T 1nlw_A           47 LHIKKLEDSDRKAVHQIDQLQREQRHLKRQ   76 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666555555555444433

>2r2v_A GCN4 leucine zipper; coiled coils, anti-parallel tetramer, protein design, de novo protein; HET: CIT; 1.90A {Saccharomyces cerevisiae} SCOP: h.1.3.1

Probab=80.93  E-value=3.2  Score=23.91  Aligned_cols=28  Identities=25%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           75 QLEDLTEELNRSAVENQVLKNELNIVLN  102 (140)
Q Consensus        75 ~leeLe~~v~~L~~eN~~L~~~~~~l~~  102 (140)
                      +|..|+.+|+.|-.+|..|.+++..|..
T Consensus         2 RMnQledKvEel~~~~~~l~nEv~Rl~~   29 (34)
T 2r2v_A            2 KLKQVADKLEEVASKLYHNANELARVAK   29 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            4667777777777777777766665543

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

Probab=80.21  E-value=17  Score=30.79  Aligned_cols=56  Identities=20%  Similarity=0.157  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039918           77 EDLTEELNRSAVENQVLKNELNIVLNQCYLLWKENEQLTSEYVALRTRLSNLYRIL  132 (140)
Q Consensus        77 eeLe~~v~~L~~eN~~L~~~~~~l~~~~~~l~~EN~~Lr~e~~~L~~~l~~l~~il  132 (140)
                      +.++..+..+....+.+..++....+.......+-..|+.++..+..++....+.+
T Consensus       505 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~  560 (597)
T 3oja_B          505 DNLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQ  560 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHH
Confidence            33444444444444444444444444444444444445555555555554444433

---

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	140
d1sknp_	74	Skn-1 {Caenorhabditis elegans [TaxId: 6239]}	94.52

>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=94.52  E-value=0.0081  Score=38.96  Aligned_cols=60  Identities=18%  Similarity=0.233  Sum_probs=37.2

Q ss_pred             hhcCCCccC-CCCChhhhhhhhhhhccCCCCCCCCCCCcCCChHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 039918            9 AQFQLPVLE-TGFTADDIQEWLSDLFQSNSGSSEGSTRAVYSDDERKKRRMISNRESARRSRWRKKKQLED   78 (140)
Q Consensus         9 ~~~~~p~~~-~~f~~~~~~~~~s~~~~sps~~~~g~~~~~~~~eeRr~RR~~sNReSArrSR~RKk~~lee   78 (140)
                      +..|||+.+ ..++..++.++++ ..        +-+.. -..=.+-.||+=+|+.+|+.+|+||-...++
T Consensus        13 ~~iPfs~~~Iv~lpv~eFne~l~-~~--------~Lte~-Ql~lirDIRRRGKNKvAAqnCRKRKld~~d~   73 (74)
T d1sknp_          13 NELPVSAFQISEMSLSELQQVLK-NE--------SLSEY-QRQLIRKIRRRGKNKVAARTCRQRRTDRHDK   73 (74)
T ss_dssp             TTCSSCHHHHHHSCHHHHHHHHH-HS--------CCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cCCCccHHHHHHCCHHHHHHHHH-hC--------CCCHH-HHHHHHHHHHhcccHHHHHHHHHhhhhhhcc
Confidence            445666555 4445566777666 10        00000 0112366889999999999999999876554