Citrus Sinensis ID: 038341

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-
Protein Sequence
MEGMKDSNENNNNKKKPFSLMDSSSLPLVTGSIQVWKKPYSMNYGDNWASSSGTKPSHPPPPSDHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNNMDEPAAGFP
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccHHHHHccccccccccccccccHHccccccccccccccccccHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHcccHHccccccccccccccEEEcccccccccccccHHHHHHHHHccccEEEEEEEcccccccccEEEcccccccccccccccHEEcccccccccccccccccHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
megmkdsnennnnkkkpfslmdssslplvtgsiqvwkkpysmnygdnwasssgtkpshppppsdhlpmvndfdnnktsgnrnpsppsehkmvipssgddtaavntrwtrnaehsmdpkrlRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLeqnglpvwdcgldelmnstwcptpgpgqmvyanpnqgdpyngeSIEEILRLHQHKmkqvpvlcvddnhnaetdmlmmpgwgtaaghmpnpswilqsgppenadmmtdpnlggIEQILSLnnnmdepaagfp
Flexible Loop (DISEMBL)
megmkdsnennnnkkkpfslmdssslpLVTGSIQVWKKPYSMNYGDNWASSSGTKPSHPPPPSDHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTrwtrnaehsmdpkrlrriesnrvsaqksrmkklqYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNNMDEPAAGFP
Low Complexity Region (SEG)
MEGMKDSnennnnkkkPFSLMDSSSLPLVTGSIQVWKKPYSMNYGDNWAsssgtkpshppppsDHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGrlrqlhlyqqqlKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNNMDEPAAGFP
Disordered region (IsUnstruct)
***************************LVTGSIQVWKKPYSMNYG*********************************************************************************************************LENQIAMLTPQVSLYQNMQEF***********MTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYA***********SIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGH*****W***************************************
Disordered Region (DISOPRED)
*****************************************************************************************************************************************LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL*******************************************************************************************************************************************WILQSGPPENADMMTDPNLGGIEQILSL************
Disordered Region (DISEMBL)
**********NNNKKKPFSLMDSSSLPLVTGSIQVWKKPYSMNYGDNW*************PSDHLPMVNDFDNNK****************IPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIES************LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNNMDEPAAGFP
Disordered Region (DISPRO)
*****************************************************************************************************************SMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNN**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEGMKDSNENNNNKKKPFSLMDSSSLPLVTGSIQVWKKPYSMNYGDNWASSSGTKPSHPPPPSDHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVWDCGLDELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETDMLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNNMDEPAAGFP
Positional Conservation
no confident homologs detected

---

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	351	2.2.26 [Sep-21-2011]
Q69IL4	380	Transcription factor RF2a	no	no	0.267	0.247	0.340	3e-08
Q6S4P4	329	Transcription factor RF2b	no	no	0.270	0.288	0.326	2e-07
Q9MA75	341	Transcription factor VIP1	no	no	0.196	0.202	0.376	4e-07
Q04088	398	Probable transcription fa	no	no	0.282	0.248	0.307	2e-06
Q9SM50	158	Transcription factor HY5	N/A	no	0.159	0.354	0.446	8e-05
O24646	168	Transcription factor HY5	no	no	0.159	0.333	0.428	0.0002
Q8R0S1	413	Cyclic AMP-dependent tran	yes	no	0.245	0.208	0.329	0.0005
Q8W191	149	Transcription factor HY5-	no	no	0.236	0.557	0.336	0.0005
Q5R9C9	483	Cyclic AMP-dependent tran	yes	no	0.245	0.178	0.329	0.0007
P17544	494	Cyclic AMP-dependent tran	yes	no	0.245	0.174	0.329	0.0008

>sp|Q69IL4|RF2A_ORYSJ Transcription factor RF2a OS=Oryza sativa subsp. japonica GN=RF2a PE=1 SV=1

 Score = 59.7 bits (143), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 54/94 (57%)

Query: 115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
           +DPKR +RI +NR SA +S+ +K++Y+ +LE+K + L+ +   L+ Q++L Q     L  
Sbjct: 180 VDPKRAKRIWANRQSAARSKERKMRYIAELERKVQTLQTEATTLSAQLALLQRDTSGLTT 239

Query: 175 EQRSLSERMTTYNNNIVFINAEIADNKAEVGRLR 208
           E   L  R+ T    +   +A     K+EV RL+
Sbjct: 240 ENSELKLRLQTMEQQVHLQDALNDTLKSEVQRLK 273

Transcription factor probably involved in vascular development and shoot tissue organization. Binds to the DNA sequence 5'-CCGAGTGTGCCCCTGG-3' present in the promoter region Box II of the phloem-specific rice tungro bacilliform virus (RTBV) promoter. May regulate tissue-specific expression of the RTBV promoter and virus replication.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6S4P4|RF2B_ORYSJ Transcription factor RF2b OS=Oryza sativa subsp. japonica GN=RF2b PE=1 SV=1

 Score = 57.0 bits (136), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/95 (32%), Positives = 53/95 (55%)

Query: 114 SMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ 173
           ++DPKR +RI +NR SA +S+ +K +Y+T+LE+K + L+ +   L+ Q++L+Q     L 
Sbjct: 130 AIDPKRAKRILANRQSAARSKERKARYITELERKVQTLQTEATTLSAQLTLFQRDTTGLS 189

Query: 174 KEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLR 208
            E   L  R+          +A     K E+ RL+
Sbjct: 190 AENAELKIRLQAMEQQAQLRDALNDALKQELERLK 224

Transcription factor probably involved in vascular development and shoot tissue organization. Binds to the DNA sequence 5'-CCGAGTGTGCCCCTGG-3' present in the promoter region Box II of the phloem-specific rice tungro bacilliform virus (RTBV) promoter. May regulate tissue-specific expression of the RTBV promoter and virus replication.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9MA75|VIP1_ARATH Transcription factor VIP1 OS=Arabidopsis thaliana GN=VIP1 PE=1 SV=1

 Score = 55.8 bits (133), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 44/69 (63%)

Query: 115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
           +DPKR +RI +NR SA +S+ +K++Y  +LE+K + L+N+   L+ QV++ Q     L  
Sbjct: 193 LDPKRAKRILANRQSAARSKERKIRYTGELERKVQTLQNEATTLSAQVTMLQRGTSELNT 252

Query: 175 EQRSLSERM 183
           E + L  R+
Sbjct: 253 ENKHLKMRL 261

Transcription activator that binds specifically to the VIP1 response elements (VREs) DNA sequence 5'-ACNGCT-3' found in some stress genes (e.g. TRX8 and MYB44), when phosphorylated/activated by MPK3. Required for Agrobacterium VirE2 nuclear import and tumorigenicity. Promotes transient expression of T-DNA in early stages by interacting with VirE2 in complex with the T-DNA and facilitating its translocation to the nucleus, and mediates stable genetic transformation by Agrobacterium by binding H2A histone. Prevents cell differentiation and shoot formation. Limits sulfate utilization efficiency (SUE) and sulfate uptake, especially in low-sulfur conditions.

Arabidopsis thaliana (taxid: 3702)

>sp|Q04088|POF21_ARATH Probable transcription factor PosF21 OS=Arabidopsis thaliana GN=POSF21 PE=2 SV=1

 Score = 53.9 bits (128), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/104 (30%), Positives = 59/104 (56%), Gaps = 5/104 (4%)

Query: 92  VIPSSGDDTAAVNTR----WTRNAEHSM-DPKRLRRIESNRVSAQKSRMKKLQYVTDLEK 146
           ++ S  +D +A++ +     T+ AE ++ DPKR +RI +NR SA +S+ +K +Y+ +LE+
Sbjct: 172 MLMSGNEDDSAIDAKKSMSATKLAELALIDPKRAKRIWANRQSAARSKERKTRYIFELER 231

Query: 147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI 190
           K + L+ +   L+ Q++L Q     L  E   L  R+ T    +
Sbjct: 232 KVQTLQTEATTLSAQLTLLQRDTNGLTVENNELKLRLQTMEQQV 275

Putative transcription factor with an activatory role.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SM50|HY5_SOLLC Transcription factor HY5 OS=Solanum lycopersicum GN=HY5 PE=2 SV=1

 Score = 48.5 bits (114), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 25/56 (44%), Positives = 37/56 (66%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ 173
           KRL+R+  NRVSAQ++R +K  Y+ DLE + K LE + A L  ++S  QN  + L+
Sbjct: 88  KRLKRLLRNRVSAQQARERKKAYLIDLEARVKELETKNAELEERLSTLQNENQMLR 143

Transcription factor that promotes photomorphogenesis in the light and positively regulates fruit pigmentation and fruit nutritional quality. Probably acts downstream of the light receptor network and directly affects transcription of light-induced genes.

Solanum lycopersicum (taxid: 4081)

>sp|O24646|HY5_ARATH Transcription factor HY5 OS=Arabidopsis thaliana GN=HY5 PE=1 SV=1

 Score = 47.4 bits (111), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 39/56 (69%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ 173
           KRL+R+  NRVSAQ++R +K  Y+++LE + K LEN+ + L  ++S  QN  + L+
Sbjct: 90  KRLKRLLRNRVSAQQARERKKAYLSELENRVKDLENKNSELEERLSTLQNENQMLR 145

Transcription factor that promotes photomorphogenesis in the light. Acts downstream of the light receptor network and directly affects transcription of light-induced genes. Specifically involved in blue-light specific pathway, suggesting that it participates in transmission of cryptochromes (CRY1 and CRY2) signals to downstream responses. In darkness, its degradation prevent the activation of light-induced genes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8R0S1|ATF7_MOUSE Cyclic AMP-dependent transcription factor ATF-7 OS=Mus musculus GN=Atf7 PE=1 SV=1

 Score = 45.8 bits (107), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 2/88 (2%)

Query: 95  SSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQ 154
           S    T +   R  R  +   D +R R +E NR +A + R K+  +V+ LEKKA+ L +Q
Sbjct: 311 SPAQPTPSTGGRRRRTVDEDPDERRQRFLERNRAAASRCRQKRKLWVSSLEKKAEELTSQ 370

Query: 155 IAMLTPQVSLYQNMQEFLQKEQRSLSER 182
              L+ +V+L +N  E  Q +Q  L+ +
Sbjct: 371 NIQLSNEVTLLRN--EVAQLKQLLLAHK 396

Plays important functions in early cell signaling. Binds the cAMP response element (CRE) (consensus: 5'-GTGACGT[AG][AG]-3'), a sequence present in many viral and cellular promoters. Activator of the NF-ELAM1/delta-A site of the E-selectin promoter. Has no intrinsic transcriptional activity, but activates transcription on formation of JUN or FOS heterodimers. Also can bind TRE promoter sequences when heterodimerized with members of the JUN family.

Mus musculus (taxid: 10090)

>sp|Q8W191|HYH_ARATH Transcription factor HY5-like OS=Arabidopsis thaliana GN=HYH PE=1 SV=1

 Score = 45.8 bits (107), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/95 (33%), Positives = 48/95 (50%), Gaps = 12/95 (12%)

Query: 92  VIPSSGDDTA----------AVNTRWTRNAEHSMDP--KRLRRIESNRVSAQKSRMKKLQ 139
           V+ SS DD             V+T   R   + +D   + L+R+  NRVSAQ++R +K  
Sbjct: 42  VLSSSADDGVNNPELDQTQNGVSTAKRRRGRNPVDKEYRSLKRLLRNRVSAQQARERKKV 101

Query: 140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
           YV+DLE +A  L+N    L  ++S   N    L+K
Sbjct: 102 YVSDLESRANELQNNNDQLEEKISTLTNENTMLRK 136

Transcription factor that promotes photomorphogenesis in the light. Acts downstream of the light receptor network and directly affects transcription of light-induced genes. Specifically involved in blue-light specific pathway, suggesting that it participates in transmission of cryptochromes (CRY1 and CRY2) signals to downstream responses. In darkness, its degradation prevent the activation of light-induced genes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5R9C9|ATF7_PONAB Cyclic AMP-dependent transcription factor ATF-7 OS=Pongo abelii GN=ATF7 PE=2 SV=1

 Score = 45.4 bits (106), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 2/88 (2%)

Query: 95  SSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQ 154
           S    T +   R  R  +   D +R R +E NR +A + R K+  +V+ LEKKA+ L +Q
Sbjct: 311 SPAQPTPSTGGRRRRTVDEDPDERRQRFLERNRAAASRCRQKRKLWVSSLEKKAEELTSQ 370

Query: 155 IAMLTPQVSLYQNMQEFLQKEQRSLSER 182
              L+ +V+L +N  E  Q +Q  L+ +
Sbjct: 371 NIQLSNEVTLLRN--EVAQLKQLLLAHK 396

Plays important functions in early cell signaling. Binds the cAMP response element (CRE) (consensus: 5'-GTGACGT[AG][AG]-3'), a sequence present in many viral and cellular promoters. Activator of the NF-ELAM1/delta-A site of the E-selectin promoter. Has no intrinsic transcriptional activity, but activates transcription on formation of JUN or FOS heterodimers. Also can bind TRE promoter sequences when heterodimerized with members of the JUN family.

Pongo abelii (taxid: 9601)

>sp|P17544|ATF7_HUMAN Cyclic AMP-dependent transcription factor ATF-7 OS=Homo sapiens GN=ATF7 PE=1 SV=2

 Score = 45.1 bits (105), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 2/88 (2%)

Query: 95  SSGDDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQ 154
           S    T +   R  R  +   D +R R +E NR +A + R K+  +V+ LEKKA+ L +Q
Sbjct: 322 SPAQPTPSTGGRRRRTVDEDPDERRQRFLERNRAAASRCRQKRKLWVSSLEKKAEELTSQ 381

Query: 155 IAMLTPQVSLYQNMQEFLQKEQRSLSER 182
              L+ +V+L +N  E  Q +Q  L+ +
Sbjct: 382 NIQLSNEVTLLRN--EVAQLKQLLLAHK 407

Isoform 5/ATF-4 acts as a negative regulator, inhibiting both ATF2 and ATF7 transcriptional activities. It may exert these effects by sequestrating in the cytoplasm the Thr-53 phosphorylating kinase, preventing activation.

Homo sapiens (taxid: 9606)

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	351
224105915	252	predicted protein [Populus trichocarpa]	0.464	0.646	0.386	9e-21
255550579	230	hypothetical protein RCOM_1401660 [Ricin	0.549	0.839	0.318	4e-19
255568343	325	Transcription factor RF2a, putative [Ric	0.478	0.516	0.288	7e-15
168022272	464	predicted protein [Physcomitrella patens	0.387	0.293	0.340	8e-15
297827913	321	bZIP transcription factor family protein	0.378	0.414	0.348	1e-14
359806839	320	transcription factor bZIP58 [Glycine max	0.333	0.365	0.355	2e-14
449453539	326	PREDICTED: uncharacterized protein LOC10	0.461	0.496	0.323	2e-14
15230964	329	basic leucine zipper transcription facto	0.304	0.325	0.361	6e-14
297820612	329	bZIP transcription factor family protein	0.304	0.325	0.361	9e-14
225446525	295	PREDICTED: uncharacterized protein LOC10	0.347	0.413	0.338	9e-14

>gi|224105915|ref|XP_002313977.1| predicted protein [Populus trichocarpa] gi|222850385|gb|EEE87932.1| predicted protein [Populus trichocarpa]

 Score =  107 bits (267), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 73/189 (38%), Positives = 108/189 (57%), Gaps = 26/189 (13%)

Query: 18  FSLMDSSSLPLVTGSIQVWKKPYSMNYGDNWASSSGTKPSHPPPPSDHLPMVNDFDNNKT 77
           FS M  S  PL   S Q  KKPYSM+       SS TK   P  PSD + + +   ++  
Sbjct: 58  FSAMPQSIHPLARSSFQGLKKPYSMD-------SSVTK--SPFNPSDAMTISSSSADSNN 108

Query: 78  SGNRNPSPPSEHKM----------VIPSSGDD-------TAAVNTRWTRNAEHSMDPKRL 120
             ++N S P ++K            IPSSGD         + V  R  R  + +MDPK+L
Sbjct: 109 KESQNLSFPFDNKNSTTKDLATDPAIPSSGDKPVKTRAMISGVQIRAARAIDPNMDPKKL 168

Query: 121 RRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLS 180
           +R+ SNRVSAQKSR+K+LQY+ D+E+K KALE +IA+L+P+V+ Y++  + L+ EQ+ L+
Sbjct: 169 KRVLSNRVSAQKSRLKRLQYLADIERKVKALEEEIAVLSPRVAQYRSHHQALKMEQKMLN 228

Query: 181 ERMTTYNNN 189
             ++   +N
Sbjct: 229 MEISAQTSN 237

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255550579|ref|XP_002516339.1| hypothetical protein RCOM_1401660 [Ricinus communis] gi|223544505|gb|EEF46023.1| hypothetical protein RCOM_1401660 [Ricinus communis]

 Score =  102 bits (253), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 73/229 (31%), Positives = 121/229 (52%), Gaps = 36/229 (15%)

Query: 115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
           M  K+LRR+ ++R  +QK RMK+L Y+  LE + KAL+ ++++++P++         L+ 
Sbjct: 31  MAQKKLRRLMASREYSQKYRMKQLHYILQLETEVKALQAEVSIISPRIKYVDRQNSLLRV 90

Query: 175 EQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLPVW-DCGLD 233
           E  S+  R++T++++++   AEI +NKAEV RLRQLHL QQQ  M  Q  LP W + G +
Sbjct: 91  ENGSIKHRLSTFSSDLMIKEAEIEENKAEVNRLRQLHLAQQQQNMQGQQMLPTWNEHGFE 150

Query: 234 ELMNSTWCPTPGPGQMVYANPNQGDPYNGESIEEILRLHQHKMKQVPVLCVDDNHNAETD 293
           +++N ++  +      ++  P Q D    E+IEEI                 D  + + +
Sbjct: 151 QIINESFVQSTE----MHCYPEQID----ENIEEI-----------------DEWSKKQE 185

Query: 294 MLMMPGWGTAAGHMPNPSWILQSGPPENADMMTDPNLGGIEQILSLNNN 342
           +        +   + NP          N ++    NLGGIEQ+LSLN N
Sbjct: 186 LAQTWISTLSTSLLVNP----------NGNLNMSSNLGGIEQMLSLNQN 224

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568343|ref|XP_002525146.1| Transcription factor RF2a, putative [Ricinus communis] gi|223535605|gb|EEF37273.1| Transcription factor RF2a, putative [Ricinus communis]

 Score = 87.8 bits (216), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 54/187 (28%), Positives = 105/187 (56%), Gaps = 19/187 (10%)

Query: 44  YGDNWASSSGTKPSHPPPPSDHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAA- 102
           + D+ +++     S+P  PSDH    N F++ K      P+   + +  I +  D+  + 
Sbjct: 124 FNDDISNAVAPSCSNPSTPSDH----NSFNDEK-----EPTLSDQKQQKIRNESDEVQSQ 174

Query: 103 --------VNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQ 154
                    N   T +++  +DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ +
Sbjct: 175 CQTDTQNPSNATNTTSSDRIIDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQAE 234

Query: 155 IAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQ 214
           +++L+P+V+   + +  L  +  +L +R+     + +F +A     K E+ RLRQ++ +Q
Sbjct: 235 VSVLSPRVAFLDHQRLLLNVDNSALKQRIAALAQDKIFKDAHQEALKREIERLRQVY-HQ 293

Query: 215 QQLKMLE 221
           Q LK +E
Sbjct: 294 QNLKNME 300

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168022272|ref|XP_001763664.1| predicted protein [Physcomitrella patens subsp. patens] gi|162685157|gb|EDQ71554.1| predicted protein [Physcomitrella patens subsp. patens]

 Score = 87.4 bits (215), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/147 (34%), Positives = 84/147 (57%), Gaps = 11/147 (7%)

Query: 93  IPSSGDDTAAVNT-------RWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLE 145
           I SSGD   A  T       +     + S+DPKR +RI +NR SAQ+SR++KLQY+++LE
Sbjct: 235 IQSSGDHEGATQTFSKGELQQALAGLDSSLDPKRAKRILANRQSAQRSRVRKLQYISELE 294

Query: 146 KKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVG 205
           +   AL+++++ + PQV+ +++ +  L  +  ++ ++M T      F +A     + EV 
Sbjct: 295 RSVTALQSEVSTMAPQVAFFEHRRAVLNVDNNTMKQKMATLAQGQHFKDAHNEALQKEVQ 354

Query: 206 RLRQLHLYQQQLKMLEQNGLP--VWDC 230
            LRQL+   QQ ++  Q G P  V+D 
Sbjct: 355 TLRQLYHQMQQQRL--QTGAPTSVYDL 379

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297827913|ref|XP_002881839.1| bZIP transcription factor family protein [Arabidopsis lyrata subsp. lyrata] gi|297327678|gb|EFH58098.1| bZIP transcription factor family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 86.7 bits (213), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/135 (34%), Positives = 83/135 (61%), Gaps = 2/135 (1%)

Query: 98  DDTAAVNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAM 157
           D TA+ N     +    +DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++
Sbjct: 168 DGTASNNNSGDSSGNRILDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQAEVSV 227

Query: 158 LTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQL 217
           L+P+V+   + +  L  +  +L +R+   + + +F +A     K E+ RLRQ++  QQ L
Sbjct: 228 LSPRVAFLDHQRLLLNVDNSALKQRIAALSQDKIFKDAHQEALKREIERLRQVY-NQQSL 286

Query: 218 KMLE-QNGLPVWDCG 231
           K +E  N LP    G
Sbjct: 287 KTMENANHLPATGAG 301

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806839|ref|NP_001241568.1| transcription factor bZIP58 [Glycine max] gi|255641640|gb|ACU21092.1| unknown [Glycine max]

 Score = 86.7 bits (213), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/118 (35%), Positives = 77/118 (65%), Gaps = 1/118 (0%)

Query: 104 NTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVS 163
           +T    ++E   DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+
Sbjct: 177 DTNTCSSSERITDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQAEVSVLSPRVA 236

Query: 164 LYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLE 221
              + +  L  +  +L +R+     + +F +A     K E+ RLRQ++ YQQ LK +E
Sbjct: 237 FLDHQRLLLNVDNSALKQRIAALAQDKIFKDAHQEALKREIERLRQVY-YQQSLKKME 293

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453539|ref|XP_004144514.1| PREDICTED: uncharacterized protein LOC101205276 [Cucumis sativus] gi|449517287|ref|XP_004165677.1| PREDICTED: uncharacterized protein LOC101231108 [Cucumis sativus]

 Score = 86.3 bits (212), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 100/167 (59%), Gaps = 5/167 (2%)

Query: 57  SHPPPPSDHLPMVNDFDNNKTSG--NRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHS 114
           S+P  PSDH   +ND  + +  G  N+N + P E +     S + T + +T    + +  
Sbjct: 126 SNPSTPSDH-NSINDEKDAQNDGKVNQNKNEPDEVQSQ-QQSENQTQSNSTATAGSTDRI 183

Query: 115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
            DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  
Sbjct: 184 TDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQAEVSVLSPRVAFLDHQRLLLNV 243

Query: 175 EQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLE 221
           +  +L +R+     + +F +A     K E+ RLRQ++ +QQ +K +E
Sbjct: 244 DNSALKQRIAALAQDKIFKDAHQEALKREIERLRQVY-HQQNIKKME 289

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230964|ref|NP_191371.1| basic leucine zipper transcription factor-like protein [Arabidopsis thaliana] gi|15100055|gb|AAK84223.1|AF401300_1 transcription factor bZIP61 [Arabidopsis thaliana] gi|6735324|emb|CAB68150.1| putative protein [Arabidopsis thaliana] gi|20260308|gb|AAM13052.1| pelota-like protein [Arabidopsis thaliana] gi|21592956|gb|AAM64906.1| unknown [Arabidopsis thaliana] gi|30984556|gb|AAP42741.1| At3g58120 [Arabidopsis thaliana] gi|332646223|gb|AEE79744.1| basic leucine zipper transcription factor-like protein [Arabidopsis thaliana]

 Score = 84.7 bits (208), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 73/108 (67%), Gaps = 1/108 (0%)

Query: 116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKE 175
           DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  +
Sbjct: 202 DPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQTEVSVLSPRVAFLDHQRLLLNVD 261

Query: 176 QRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQN 223
             ++ +R+     + +F +A     K E+ RLRQ++ +QQ LK +E N
Sbjct: 262 NSAIKQRIAALAQDKIFKDAHQEALKREIERLRQVY-HQQSLKKMENN 308

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820612|ref|XP_002878189.1| bZIP transcription factor family protein [Arabidopsis lyrata subsp. lyrata] gi|297324027|gb|EFH54448.1| bZIP transcription factor family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 84.3 bits (207), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 73/108 (67%), Gaps = 1/108 (0%)

Query: 116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKE 175
           DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  +
Sbjct: 202 DPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQTEVSVLSPRVAFLDHQRLLLNVD 261

Query: 176 QRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQN 223
             ++ +R+     + +F +A     K E+ RLRQ++ +QQ LK +E N
Sbjct: 262 NSAIKQRIAALAQDKIFKDAHQEALKREIERLRQVY-HQQSLKKMENN 308

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446525|ref|XP_002275912.1| PREDICTED: uncharacterized protein LOC100243740 [Vitis vinifera] gi|302143381|emb|CBI21942.3| unnamed protein product [Vitis vinifera]

 Score = 84.3 bits (207), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 43/127 (33%), Positives = 80/127 (62%), Gaps = 5/127 (3%)

Query: 115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
           +DPKR++RI +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  
Sbjct: 169 VDPKRVKRILANRQSAQRSRVRKLQYISELERSVTSLQTEVSVLSPRVAFLDHQRLLLNV 228

Query: 175 EQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQLKMLEQNGLP----VWDC 230
           +  +L +R+     + +F +A     K E+ RLRQ++ +QQ LK  E    P    V D 
Sbjct: 229 DNSALKQRIAALAQDKIFKDAHQDALKREIERLRQVY-HQQNLKTTENAAPPTASDVKDF 287

Query: 231 GLDELMN 237
             ++++N
Sbjct: 288 KEEDVLN 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	351
TAIR|locus:2053761	321	BZIP34 "AT2G42380" [Arabidopsi	0.387	0.423	0.316	3.3e-13
TAIR|locus:2182840	150	AT5G07160 "AT5G07160" [Arabido	0.282	0.66	0.353	4e-12
TAIR|locus:2085425	329	BZIP61 [Arabidopsis thaliana (	0.398	0.425	0.267	3.1e-10
TAIR|locus:2033123	337	bZIP52 "AT1G06850" [Arabidopsi	0.367	0.382	0.300	7.8e-07
TAIR|locus:2031123	341	VIP1 "VIRE2-interacting protei	0.313	0.322	0.309	1e-06
TAIR|locus:2056442	262	AT2G13150 [Arabidopsis thalian	0.324	0.435	0.305	3.4e-06
TAIR|locus:2061340	398	AT2G31370 [Arabidopsis thalian	0.282	0.248	0.307	4e-06
TAIR|locus:1005716533	149	HYH "AT3G17609" [Arabidopsis t	0.219	0.516	0.362	6.3e-06
TAIR|locus:2198856	423	AT1G06070 "AT1G06070" [Arabido	0.282	0.234	0.298	1.3e-05
TAIR|locus:2061908	367	AT2G40620 "AT2G40620" [Arabido	0.196	0.188	0.376	1.3e-05

TAIR|locus:2053761 BZIP34 "AT2G42380" [Arabidopsis thaliana (taxid:3702)]

 Score = 192 (72.6 bits), Expect = 3.3e-13, P = 3.3e-13
 Identities = 44/139 (31%), Positives = 80/139 (57%)

Query:    66 LPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIES 125
             LP  +   NN  + N N    S+ KM  P  G  TA+ N     +    +DPKR++RI +
Sbjct:   139 LPPSDHNMNNNINNNYNDEVQSQCKME-PEDG--TASNNNSGDSSGNRILDPKRVKRILA 195

Query:   126 NRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTT 185
             NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  +  +L +R+  
Sbjct:   196 NRQSAQRSRVRKLQYISELERSVTSLQAEVSVLSPRVAFLDHQRLLLNVDNSALKQRIAA 255

Query:   186 YNNNIVFINAEIADNKAEV 204
              + + +F +A     K E+
Sbjct:   256 LSQDKLFKDAHQEALKREI 274

GO:0003677 "DNA binding" evidence=ISS;IDA

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009555 "pollen development" evidence=IMP

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

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

TAIR|locus:2182840 AT5G07160 "AT5G07160" [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 4.0e-12, P = 4.0e-12
 Identities = 35/99 (35%), Positives = 61/99 (61%)

Query:   106 RWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLY 165
             R  +N + + DPK L+RI SNRV+AQKSR KK+QY+  L K++  L+ +++ L  Q+++ 
Sbjct:    38 RMRQNIDPTTDPKILKRIISNRVAAQKSRWKKVQYLDALVKRSMELQREVSELRSQLAIT 97

Query:   166 QNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEV 204
                + +L+ EQR L E ++    + +  +  I + K E+
Sbjct:    98 SEQKRYLENEQRQLKECISARVQHCINSDGVIEEYKTEI 136

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:2085425 BZIP61 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 3.1e-10, P = 3.1e-10
 Identities = 38/142 (26%), Positives = 78/142 (54%)

Query:    64 DHLPMVNDFDNNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSM-DPKRLRR 122
             DH  M N+  N   +   N +   E +    +   D  + N     ++ + + DPKR++R
Sbjct:   150 DH-HMDNNVANQNNAAGNNYNESDEVQSQCKTEPQDGPSANQNSGGSSGNRIHDPKRVKR 208

Query:   123 IESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSER 182
             I +NR SAQ+SR++KLQY+++LE+   +L+ ++++L+P+V+   + +  L  +  ++ +R
Sbjct:   209 ILANRQSAQRSRVRKLQYISELERSVTSLQTEVSVLSPRVAFLDHQRLLLNVDNSAIKQR 268

Query:   183 MTTYNNNIVFINAEIADNKAEV 204
             +     + +F +A     K E+
Sbjct:   269 IAALAQDKIFKDAHQEALKREI 290

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IDA

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

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

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

TAIR|locus:2033123 bZIP52 "AT1G06850" [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 43/143 (30%), Positives = 67/143 (46%)

Query:    67 PMVN-DFDNNKTSGNRNPSPP--SEHKMVIPSSGDDTAAVNTRWTRNAEHSM-------- 115
             P  N    +N  SG  NP PP  S  +    +S D   A+      +A+ +M        
Sbjct:    85 PFQNPSLSSNSVSGAANPPPPPSSRPRHRHSNSVDAGCAMYAGDIMDAKKAMPPEKLSEL 144

Query:   116 ---DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL 172
                DPKR +RI +NR SA +S+ +K +Y+ +LE+K ++L+ +   L+ Q++LYQ     L
Sbjct:   145 WNIDPKRAKRILANRQSAARSKERKARYIQELERKVQSLQTEATTLSAQLTLYQRDTNGL 204

Query:   173 QKEQRSLSERMTTYNNNIVFINA 195
               E   L  R+          NA
Sbjct:   205 ANENTELKLRLQAMEQQAQLRNA 227

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:2031123 VIP1 "VIRE2-interacting protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 1.0e-06, P = 1.0e-06
 Identities = 35/113 (30%), Positives = 61/113 (53%)

Query:    74 NNKTSGNRNPSPPSEHKMVIPSSGDDTAAVNTRW--TRNAEHSM-DPKRLRRIESNRVSA 130
             +N   G  + +  +   ++   SG D+   N      R AE ++ DPKR +RI +NR SA
Sbjct:   149 SNSMDGEMSSASFNIESILASVSGKDSGKKNMGMGGDRLAELALLDPKRAKRILANRQSA 208

Query:   131 QKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM 183
              +S+ +K++Y  +LE+K + L+N+   L+ QV++ Q     L  E + L  R+
Sbjct:   209 ARSKERKIRYTGELERKVQTLQNEATTLSAQVTMLQRGTSELNTENKHLKMRL 261

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

GO:0005634 "nucleus" evidence=ISM;IDA;IMP

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0045596 "negative regulation of cell differentiation" evidence=IDA

GO:0009294 "DNA mediated transformation" evidence=IDA

GO:0051170 "nuclear import" evidence=IDA

GO:0051019 "mitogen-activated protein kinase binding" evidence=IPI

GO:0008272 "sulfate transport" evidence=IMP

GO:0009970 "cellular response to sulfate starvation" evidence=IMP

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

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

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2056442 AT2G13150 [Arabidopsis thaliana (taxid:3702)]

 Score = 131 (51.2 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 36/118 (30%), Positives = 61/118 (51%)

Query:    67 PMVNDFDNNKT-SGNRNPSPPSEHKMVIPSSGDDTAAVNTRWTRNAEHSMDPKRLRRIES 125
             P  N+  ++++  G +N S       V     DD      + T+  E + DPK +RRI  
Sbjct:   102 PSPNNVSSSRSVDGEQNASELEFDTSVYT---DDELNKIAKSTKLKEVASDPKEVRRILK 158

Query:   126 NRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM 183
             N+ SA +S+ KKLQY+ +LE K   LEN+ A +  ++ L +N +     E++ +  R+
Sbjct:   159 NQESAARSKQKKLQYMINLELKINFLENKNASIFEKIKLLENDKTMRMNEKKEIMIRI 216

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

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

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

TAIR|locus:2061340 AT2G31370 [Arabidopsis thaliana (taxid:3702)]

 Score = 134 (52.2 bits), Expect = 4.0e-06, P = 4.0e-06
 Identities = 32/104 (30%), Positives = 59/104 (56%)

Query:    92 VIPSSGDDTAAVNTRW----TRNAEHSM-DPKRLRRIESNRVSAQKSRMKKLQYVTDLEK 146
             ++ S  +D +A++ +     T+ AE ++ DPKR +RI +NR SA +S+ +K +Y+ +LE+
Sbjct:   172 MLMSGNEDDSAIDAKKSMSATKLAELALIDPKRAKRIWANRQSAARSKERKTRYIFELER 231

Query:   147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI 190
             K + L+ +   L+ Q++L Q     L  E   L  R+ T    +
Sbjct:   232 KVQTLQTEATTLSAQLTLLQRDTNGLTVENNELKLRLQTMEQQV 275

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;IDA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

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

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

TAIR|locus:1005716533 HYH "AT3G17609" [Arabidopsis thaliana (taxid:3702)]

 Score = 111 (44.1 bits), Expect = 6.3e-06, P = 6.3e-06
 Identities = 29/80 (36%), Positives = 44/80 (55%)

Query:    98 DDTA-AVNTRWTRNAEHSMDP--KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQ 154
             D T   V+T   R   + +D   + L+R+  NRVSAQ++R +K  YV+DLE +A  L+N 
Sbjct:    57 DQTQNGVSTAKRRRGRNPVDKEYRSLKRLLRNRVSAQQARERKKVYVSDLESRANELQNN 116

Query:   155 IAMLTPQVSLYQNMQEFLQK 174
                L  ++S   N    L+K
Sbjct:   117 NDQLEEKISTLTNENTMLRK 136

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:0005515 "protein binding" evidence=IPI

GO:0010224 "response to UV-B" evidence=IEP

GO:0080167 "response to karrikin" evidence=IEP

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

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

TAIR|locus:2198856 AT1G06070 "AT1G06070" [Arabidopsis thaliana (taxid:3702)]

 Score = 130 (50.8 bits), Expect = 1.3e-05, P = 1.3e-05
 Identities = 31/104 (29%), Positives = 59/104 (56%)

Query:    92 VIPSSGDDTAAVNTRWTRNA----EHSM-DPKRLRRIESNRVSAQKSRMKKLQYVTDLEK 146
             ++ S  +D + V+++   +A    E ++ DPKR +RI +NR SA +S+ +K++Y+ +LE+
Sbjct:   181 MLMSGNEDVSGVDSKKAISAAKLSELALIDPKRAKRIWANRQSAARSKERKMRYIAELER 240

Query:   147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI 190
             K + L+ +   L+ Q++L Q     L  E   L  R+ T    +
Sbjct:   241 KVQTLQTEATSLSAQLTLLQRDTNGLGVENNELKLRVQTMEQQV 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

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:2061908 AT2G40620 "AT2G40620" [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 1.3e-05, P = 1.3e-05
 Identities = 26/69 (37%), Positives = 43/69 (62%)

Query:   115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK 174
             +DPKR +RI +NR SA +S+ +K +Y+ +LE+K + L+ +   L+ Q+SL+Q     L  
Sbjct:   147 VDPKRAKRIIANRQSAARSKERKARYILELERKVQTLQTEATTLSAQLSLFQRDTTGLSS 206

Query:   175 EQRSLSERM 183
             E   L  R+
Sbjct:   207 ENTELKLRL 215

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	351
smart00338	65	smart00338, BRLZ, basic region leucin zipper	3e-12
pfam00170	64	pfam00170, bZIP_1, bZIP transcription factor	6e-10
pfam07716	54	pfam07716, bZIP_2, Basic region leucine zipper	9e-08
TIGR01843	423	TIGR01843, type_I_hlyD, type I secretion membrane	3e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-04

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

 Score = 60.7 bits (148), Expect = 3e-12
 Identities = 18/54 (33%), Positives = 30/54 (55%)

Query: 114 SMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN 167
             D KR RR E NR +A++SR +K   + +LE+K + LE +   L  ++   + 
Sbjct: 1   EEDEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRR 54

Length = 65

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

 Score = 54.3 bits (131), Expect = 6e-10
 Identities = 20/58 (34%), Positives = 34/58 (58%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKE 175
           KR RR + NR +A++SR++K  Y+ +LE+K K LE +   L  ++   +     L+ E
Sbjct: 5   KRERRRQKNREAARRSRLRKKAYIEELEEKVKELEAENKTLRSELERLKKECAKLKSE 62

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 = 48.0 bits (115), Expect = 9e-08
 Identities = 17/52 (32%), Positives = 27/52 (51%)

Query: 116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN 167
           D +   R   N  +A++SR KK Q   +LE++ K LE + A L  +V   + 
Sbjct: 2   DDEYRDRRRRNNEAARRSREKKKQREEELEERVKELEEENAQLRQKVEQLEK 53

Length = 54

>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein, HlyD family

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 6/109 (5%)

Query: 120 LRRIESNRVSAQKSRM--KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEF--LQKE 175
           L  +++  V A  + +  + L+   ++ +     ++Q A+  P   L         L K 
Sbjct: 71  LVELDATDVEADAAELESQVLRLEAEVARLRAEADSQAAIEFPDDLLSAEDPAVPELIKG 130

Query: 176 QRSL-SERMTTYNNNIVFINAEIADNKAEV-GRLRQLHLYQQQLKMLEQ 222
           Q+SL   R +T    +  I A+I   +AE+ G   QL   +QQL+++ +
Sbjct: 131 QQSLFESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISE 179

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins [Protein fate, Protein and peptide secretion and trafficking]. Length = 423

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 23/106 (21%), Positives = 43/106 (40%), Gaps = 15/106 (14%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQR 177
             LRRIE+ R+      +       D  +K   +E +I  L  +    +   E L+++  
Sbjct: 695 SELRRIEN-RLDELSQELS------DASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLS 747

Query: 178 SLSERMTTYNNNIVFINAEIADNKAEVGRLR-QLHLYQQQLKMLEQ 222
           SL + +           +E+ + +A +  L   LH  ++ L  LE 
Sbjct: 748 SLEQEIENV-------KSELKELEARIEELEEDLHKLEEALNDLEA 786

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	351
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	99.54
smart00338	65	BRLZ basic region leucin zipper.	99.43
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	99.32
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	99.07
KOG4343	655	consensus bZIP transcription factor ATF6 [Transcri	99.06
KOG0709	472	consensus CREB/ATF family transcription factor [Tr	98.99
KOG3584	348	consensus cAMP response element binding protein an	98.89
KOG0837	279	consensus Transcriptional activator of the JUN fam	98.12
PF03131	92	bZIP_Maf: bZIP Maf transcription factor; InterPro:	98.05
KOG4571	294	consensus Activating transcription factor 4 [Trans	97.55
KOG3119	269	consensus Basic region leucine zipper transcriptio	97.4
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	97.36
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	96.45
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	96.44
KOG3863	604	consensus bZIP transcription factor NRF1 [Transcri	96.41
PRK13169	110	DNA replication intiation control protein YabA; Re	96.37
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.29
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	95.46
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	95.2
COG4467	114	Regulator of replication initiation timing [Replic	95.12
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	94.8
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	94.8
PRK10884	206	SH3 domain-containing protein; Provisional	94.73
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	94.7
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	94.67
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	94.35
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	94.11
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	93.98
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	93.94
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	93.83
COG2433	652	Uncharacterized conserved protein [Function unknow	93.73
PF14662	193	CCDC155: Coiled-coil region of CCDC155	93.69
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	93.63
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.59
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	93.55
PRK02793	72	phi X174 lysis protein; Provisional	93.27
PRK00295	68	hypothetical protein; Provisional	93.24
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	93.2
PRK11637	428	AmiB activator; Provisional	93.14
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	93.12
PRK00736	68	hypothetical protein; Provisional	93.12
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	93.08
PRK04325	74	hypothetical protein; Provisional	93.06
PRK02119	73	hypothetical protein; Provisional	92.98
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	92.93
PRK04406	75	hypothetical protein; Provisional	92.91
PRK15422	79	septal ring assembly protein ZapB; Provisional	92.89
KOG3119	269	consensus Basic region leucine zipper transcriptio	92.82
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	92.7
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	92.69
PRK11637	428	AmiB activator; Provisional	92.66
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	92.51
PF12711	86	Kinesin-relat_1: Kinesin motor; InterPro: IPR02465	92.49
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	92.43
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	92.39
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.31
PF14662	193	CCDC155: Coiled-coil region of CCDC155	92.2
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	92.2
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	92.19
PRK09039	343	hypothetical protein; Validated	92.05
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	91.99
PRK10884	206	SH3 domain-containing protein; Provisional	91.89
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	91.77
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	91.65
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	91.27
PRK00846	77	hypothetical protein; Provisional	91.07
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	90.62
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.56
PRK09039	343	hypothetical protein; Validated	90.45
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	90.27
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	90.27
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	90.12
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.1
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	90.08
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	89.97
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	89.94
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.65
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	89.52
PF10186	302	Atg14: UV radiation resistance protein and autopha	89.4
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	89.2
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	89.15
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	89.13
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	88.97
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.84
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	88.81
KOG2751	447	consensus Beclin-like protein [Signal transduction	88.78
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	88.7
KOG1962	216	consensus B-cell receptor-associated protein and r	88.67
PRK15422	79	septal ring assembly protein ZapB; Provisional	88.64
COG2433	652	Uncharacterized conserved protein [Function unknow	88.62
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	88.48
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	88.41
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	88.16
PHA02562	562	46 endonuclease subunit; Provisional	88.13
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	88.12
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	87.98
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	87.96
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	87.87
PF00038	312	Filament: Intermediate filament protein; InterPro:	87.82
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	87.81
COG4942	420	Membrane-bound metallopeptidase [Cell division and	87.78
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	87.72
KOG3650	120	consensus Predicted coiled-coil protein [General f	87.64
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	87.5
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	87.4
KOG4571	294	consensus Activating transcription factor 4 [Trans	87.37
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	87.33
PF06428	100	Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IP	87.27
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	87.23
PRK04863	1486	mukB cell division protein MukB; Provisional	87.16
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	87.0
PF15030	277	DUF4527: Protein of unknown function (DUF4527)	86.91
PF05837	106	CENP-H: Centromere protein H (CENP-H); InterPro: I	86.9
PF06216	389	RTBV_P46: Rice tungro bacilliform virus P46 protei	86.62
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	86.48
PF00038	312	Filament: Intermediate filament protein; InterPro:	86.34
KOG0971	1243	consensus Microtubule-associated protein dynactin	86.18
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	85.91
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	85.9
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	85.72
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	85.66
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	85.62
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	85.52
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	85.29
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	85.24
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	85.05
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	84.92
KOG0933	1174	consensus Structural maintenance of chromosome pro	84.8
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	84.62
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	84.34
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	84.31
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	84.13
PF14523	102	Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.	84.03
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	83.93
PF12709	87	Kinetocho_Slk19: Central kinetochore-associated; I	83.93
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	83.84
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	83.74
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	83.74
PRK03918	880	chromosome segregation protein; Provisional	83.49
COG4026	290	Uncharacterized protein containing TOPRIM domain,	83.32
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	83.2
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	82.8
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	82.49
PHA02562	562	46 endonuclease subunit; Provisional	82.41
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	82.22
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	82.21
TIGR00219	283	mreC rod shape-determining protein MreC. MreC (mur	82.08
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	82.06
PRK13922	276	rod shape-determining protein MreC; Provisional	81.96
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	81.81
PRK13922	276	rod shape-determining protein MreC; Provisional	81.74
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	81.67
PRK12704	520	phosphodiesterase; Provisional	81.63
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	81.63
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	81.52
COG4372	499	Uncharacterized protein conserved in bacteria with	81.45
PRK00888	105	ftsB cell division protein FtsB; Reviewed	81.36
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	81.25
COG2900	72	SlyX Uncharacterized protein conserved in bacteria	81.24
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	81.23
PF12711	86	Kinesin-relat_1: Kinesin motor; InterPro: IPR02465	81.17
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	81.07
KOG1265	1189	consensus Phospholipase C [Lipid transport and met	80.96
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	80.72
PF08232	134	Striatin: Striatin family; InterPro: IPR013258 Thi	80.58
KOG4370	514	consensus Ral-GTPase effector RLIP76 [Signal trans	80.3
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	80.3
KOG0971	1243	consensus Microtubule-associated protein dynactin	80.28
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	80.19
PRK13169	110	DNA replication intiation control protein YabA; Re	80.12
PF08232	134	Striatin: Striatin family; InterPro: IPR013258 Thi	80.03

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=99.54  E-value=1.3e-13  Score=130.59  Aligned_cols=97  Identities=25%  Similarity=0.303  Sum_probs=86.5

Q ss_pred             ccccccccccccCCC-CCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          100 TAAVNTRWTRNAEHS-MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRS  178 (351)
Q Consensus       100 ~ag~~~r~~~~~d~~-~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~e  178 (351)
                      .++.+.|++++.+.. -++|-.||+|+||++||-+|.|||+.++++|..|+.|+.||..|..+...|++.++.|..+|.+
T Consensus        50 aas~~~rKr~RL~HLS~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~e  129 (292)
T KOG4005|consen   50 AASQPKRKRRRLDHLSWEEKVQRRKLKNRVAAQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHE  129 (292)
T ss_pred             cccchHHHHHhhcccCHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            345556777777764 4789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          179 LSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       179 LKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      |..+|              |.|.+|+..|++.
T Consensus       130 l~~~l--------------e~~~~~l~~~~~~  147 (292)
T KOG4005|consen  130 LDSEL--------------ELLRQELAELKQQ  147 (292)
T ss_pred             HHHHH--------------HHHHHHHHhhHHH
Confidence            99998              6677778788877

>smart00338 BRLZ basic region leucin zipper

Probab=99.43  E-value=9.6e-13  Score=99.95  Aligned_cols=62  Identities=34%  Similarity=0.408  Sum_probs=56.7

Q ss_pred             CCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQ  176 (351)
Q Consensus       115 ~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN  176 (351)
                      .|+|+.||+++||+||++||.||+.|+.+||.+|..|+.+|..|..++..|..++..|..++
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            47899999999999999999999999999999999999999999999988887777776554

>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=99.32  E-value=1.2e-11  Score=93.82  Aligned_cols=61  Identities=34%  Similarity=0.488  Sum_probs=56.3

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQ  176 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN  176 (351)
                      +.|+.+|+++||+||++||.||+.|+++||.+|..|+.+|..|..++..|..++..|..+|
T Consensus         3 ~~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~   63 (64)
T PF00170_consen    3 EDKRERRRERNREAARRSRQRKKQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSEN   63 (64)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4689999999999999999999999999999999999999999999999999888888776

; 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 ....

>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=99.07  E-value=6.3e-10  Score=82.42  Aligned_cols=53  Identities=30%  Similarity=0.395  Sum_probs=48.4

Q ss_pred             CCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       115 ~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      .|+++.||. +||+||++||.||+.|+.+||.+|..|+.+|..|..++..|+.+
T Consensus         2 ~~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L~~E   54 (54)
T PF07716_consen    2 DEEKRERRE-RNREAARRSRQRKKQREEELEQEVQELEEENEQLRQEIAQLERE   54 (54)
T ss_dssp             CHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            367888898 99999999999999999999999999999999999998887653

; 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 ....

>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]

Probab=99.06  E-value=2.3e-10  Score=117.91  Aligned_cols=64  Identities=31%  Similarity=0.346  Sum_probs=60.2

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSE  181 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKq  181 (351)
                      ||..|||+||+||..||+|||+|+.-||.+++.|..||..|+++.+.|+++...|..||+.||-
T Consensus       281 krqQRmIKNResA~~SRkKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~En~~~kv  344 (655)
T KOG4343|consen  281 KRQQRMIKNRESACQSRKKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVSENQRLKV  344 (655)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhcCccccc
Confidence            6777999999999999999999999999999999999999999999999999999999998864

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

Probab=98.99  E-value=5.1e-10  Score=113.74  Aligned_cols=66  Identities=30%  Similarity=0.329  Sum_probs=58.4

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSE  181 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKq  181 (351)
                      ..||+||+|||.+|||.||+|||.||+.||.+|....+||.+|..+|..|+.+|..|-.+.+.|..
T Consensus       249 iLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt  314 (472)
T KOG0709|consen  249 ILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKLQT  314 (472)
T ss_pred             HHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            579999999999999999999999999999999999999999999998888777777666554433

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

Probab=98.89  E-value=2.1e-09  Score=104.47  Aligned_cols=52  Identities=35%  Similarity=0.427  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      ..||.-|++||||+|+.+|+|||+||..||.+|..|+.+|..|-++|..|..
T Consensus       289 trKRevRLmKNREAARECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKe  340 (348)
T KOG3584|consen  289 TRKREVRLMKNREAARECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKE  340 (348)
T ss_pred             hhHHHHHHHhhHHHHHHHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHH
Confidence            3588889999999999999999999999999999999999999888877654

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

Probab=98.12  E-value=6.8e-06  Score=79.30  Aligned_cols=52  Identities=31%  Similarity=0.344  Sum_probs=45.2

Q ss_pred             HHHHHH-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          117 PKRLRR-IESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       117 pKR~KR-iLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      .+|+.| .++||++|.+||+||+++|.+||.+|+.|..+|..|...+..|.+.
T Consensus       204 ~~kleRkrlrnreaa~Kcr~rkLdrisrLEdkv~~lk~~n~~L~~~l~~l~~~  256 (279)
T KOG0837|consen  204 KIKLERKRLRNREAASKCRKRKLDRISRLEDKVKTLKIYNRDLASELSKLKEQ  256 (279)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHH
Confidence            455555 6899999999999999999999999999999999998887766554

>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=98.05  E-value=4.9e-08  Score=79.42  Aligned_cols=52  Identities=31%  Similarity=0.408  Sum_probs=43.3

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      +.|.+||.++||.+|++||.||+.++.+||.++..|..+...|..++..+..
T Consensus        28 ~lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~~l~~~~~~L~~e~~~l~~   79 (92)
T PF03131_consen   28 ELKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIEQLRQEIEQLQQELSELRQ   79 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4699999999999999999999999999999998877776666655544443

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.

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=97.55  E-value=0.00089  Score=65.69  Aligned_cols=55  Identities=27%  Similarity=0.265  Sum_probs=41.6

Q ss_pred             CCCCHHHHHHH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          113 HSMDPKRLRRI-ESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       113 ~~~DpKR~KRi-LkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      ...++|+.||+ ..|..+|.|.|+||++-.+.|+.+++.|+.+|.+|+.++..|.+
T Consensus       221 ~~~~~~~~~rkr~qnk~AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~ler  276 (294)
T KOG4571|consen  221 YKTPEKKLRRKRQQNKAAATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELER  276 (294)
T ss_pred             CCCchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567887775 45556699999999999999999988887777777766654433

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

Probab=97.40  E-value=0.008  Score=57.85  Aligned_cols=55  Identities=25%  Similarity=0.292  Sum_probs=41.3

Q ss_pred             CCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQ  169 (351)
Q Consensus       115 ~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~  169 (351)
                      .|++=.-|.-+|=++|+|||.+.|+-..+...+|..|+.||..|+.+|..|+.+.
T Consensus       191 ~~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el  245 (269)
T KOG3119|consen  191 KDPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKEL  245 (269)
T ss_pred             CCHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555666889999999999999888888888888777777776665544433

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=97.36  E-value=0.0016  Score=57.54  Aligned_cols=47  Identities=34%  Similarity=0.394  Sum_probs=36.8

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQV  162 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv  162 (351)
                      -.|..||-|+||=.|+-+|-|+.+.-.+||.+...|..+...|..++
T Consensus        51 rlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e~   97 (135)
T KOG4196|consen   51 RLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQVEKLKEEN   97 (135)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46888999999999999999999988888877766555554444433

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

Probab=96.45  E-value=0.014  Score=49.63  Aligned_cols=50  Identities=20%  Similarity=0.261  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      ..|.+||.++..|-.+...|+.++..|..+|..|..||..|+.+|..+++
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            35789999999999999999999999999999999999999999988876

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

>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=96.44  E-value=0.16  Score=44.11  Aligned_cols=96  Identities=21%  Similarity=0.269  Sum_probs=68.9

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHH
Q 038341          119 RLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIA  198 (351)
Q Consensus       119 R~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E  198 (351)
                      -..+++.-=.+=-.+|.|-..+-+.|+.++..+..++..|...+..|..+...+..+...++.+...+..+..-......
T Consensus        32 ~~~~vin~i~~Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k  111 (151)
T PF11559_consen   32 NDVRVINCIYDLLQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLK  111 (151)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445544455556667777777788888888888877777777777777777777777777777777766666666677


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 038341          199 DNKAEVGRLRQLHLYQQQ  216 (351)
Q Consensus       199 ~Lk~EVqRLR~a~i~qQq  216 (351)
                      .+++|+++|+..  .+|.
T Consensus       112 ~~kee~~klk~~--~~~~  127 (151)
T PF11559_consen  112 QEKEELQKLKNQ--LQQR  127 (151)
T ss_pred             HHHHHHHHHHHH--HHHH
Confidence            888889888876  4444

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.

>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]

Probab=96.41  E-value=0.0064  Score=64.69  Aligned_cols=63  Identities=22%  Similarity=0.376  Sum_probs=49.2

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          120 LRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       120 ~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      +||.=+||.|||++|+||+.-|..||..|..|+.|-.+|..       +...+..+..++|++|..|-++
T Consensus       492 IRRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~-------Er~~~d~~L~~~kqqls~L~~~  554 (604)
T KOG3863|consen  492 IRRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLR-------ERDELDSTLGVMKQQLSELYQE  554 (604)
T ss_pred             cccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence            45566899999999999999999999999988877766543       3455666677788888777543

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=96.37  E-value=0.015  Score=49.94  Aligned_cols=49  Identities=22%  Similarity=0.294  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      .+..||.++..+..+...|+.++..|..+|..|..||..|+.+|..+++
T Consensus         9 ~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~~   57 (110)
T PRK13169          9 ALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEELEA   57 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4789999999999999999999999999999999999999999998754

>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=96.29  E-value=0.063  Score=42.88  Aligned_cols=50  Identities=20%  Similarity=0.268  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      +-++.||.+|+.+-..+..|..++..|+.++..|..+|.+|+...+.|.+
T Consensus         4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~   53 (72)
T PF06005_consen    4 ELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQ   53 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            34688999988888888888888888888877777777777777766653

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=95.46  E-value=0.17  Score=40.14  Aligned_cols=60  Identities=25%  Similarity=0.263  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      .||..|..|+..+..+..++...+..+..|..|+...-.+|...-       ..+..|+.|++.|+.
T Consensus         2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~-------~e~~~Lk~E~e~L~~   61 (69)
T PF14197_consen    2 KLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAY-------EENNKLKEENEALRK   61 (69)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            467777777777777777777777777777777666655554433       334555555555554

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

Probab=95.20  E-value=0.76  Score=44.33  Aligned_cols=98  Identities=17%  Similarity=0.186  Sum_probs=76.2

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHhhh
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQ---------NMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq---------~q~~~L~~EN~eLKqrLqsL  186 (351)
                      -+|-++++..-.+.+.+.-.-+..-+++|+.+|..++.+...+++++..++         ++...|..|-..++.++.+|
T Consensus        29 ~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~l  108 (239)
T COG1579          29 IRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSL  108 (239)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHH
Confidence            356677777777888888888888899999999999999999999988875         55777888888888888888


Q ss_pred             hcchhhhhHHHHHHHHHHHHHHHHHHH
Q 038341          187 NNNIVFINAEIADNKAEVGRLRQLHLY  213 (351)
Q Consensus       187 eQq~~lkda~~E~Lk~EVqRLR~a~i~  213 (351)
                      +.+..=-.-..+.|++++.-|+-.++-
T Consensus       109 e~el~~l~~~~~~l~~~i~~l~~~~~~  135 (239)
T COG1579         109 EDELAELMEEIEKLEKEIEDLKERLER  135 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            876655555566777777776666333

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

Probab=95.12  E-value=0.075  Score=46.05  Aligned_cols=46  Identities=22%  Similarity=0.271  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTT  185 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqs  185 (351)
                      -+.+||.++-+|-++...|+..+..+-.++..|..||..|+.||..
T Consensus         9 ~v~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~   54 (114)
T COG4467           9 QVDNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE   54 (114)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence            4788999999999999999999999999999999999999999987

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=94.80  E-value=0.24  Score=45.41  Aligned_cols=65  Identities=25%  Similarity=0.330  Sum_probs=52.4

Q ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          139 QYVTDLEK---KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       139 qYIeELE~---kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .|+..|..   ..+.++.||..|..++..|+.++..|..|+..|++++..++.+       ++.|-.-+.|-|.+
T Consensus        87 ~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eD-------Y~~L~~Im~RARkl  154 (161)
T TIGR02894        87 SFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEED-------YQTLIDIMDRARKL  154 (161)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
Confidence            45555554   3777888999999999999999999999999999998877755       67888888888876

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=94.80  E-value=0.2  Score=39.71  Aligned_cols=49  Identities=14%  Similarity=0.065  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .++..|.+++...+.++..|..+-.....+....-.++.+||.++++|.
T Consensus        12 ~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~   60 (69)
T PF14197_consen   12 NRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALR   60 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567888888888888888888888888888888888888888874444

>PRK10884 SH3 domain-containing protein; Provisional

Probab=94.73  E-value=0.27  Score=46.05  Aligned_cols=52  Identities=10%  Similarity=0.203  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          152 ENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       152 q~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ..+.++|..+++........|..||++|+.+++.+.++.       +.|+.|+++++.-
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~-------~~l~~~~~~~~~~  168 (206)
T PRK10884        117 NQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKV-------DAANLQLDDKQRT  168 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHH
Confidence            344555555566666666667777777777777665543       4444455444443

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=94.70  E-value=0.49  Score=46.23  Aligned_cols=87  Identities=17%  Similarity=0.276  Sum_probs=65.3

Q ss_pred             CCCCCHHHHHHHHHhhHHH--HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          112 EHSMDPKRLRRIESNRVSA--QKSRMKKLQY-VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       112 d~~~DpKR~KRiLkNReSA--qRSR~RKKqY-IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      ...++-||+|-..+-.-+-  ++.|+-+.+| |.+|+.+-+.|+.||..|+++...|-.+++.|..+...|++.|..+.+
T Consensus        67 EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~~~  146 (292)
T KOG4005|consen   67 EEKVQRRKLKNRVAAQTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAELKQ  146 (292)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHH
Confidence            4456778888555433322  3455556666 678999999999999999999999999999999999999999988888


Q ss_pred             chhhhhHHHH
Q 038341          189 NIVFINAEIA  198 (351)
Q Consensus       189 q~~lkda~~E  198 (351)
                      ++++....+|
T Consensus       147 ~~~~~~~v~e  156 (292)
T KOG4005|consen  147 QQQHNTRVIE  156 (292)
T ss_pred             HHHHhhHHHh
Confidence            7776554443

>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=94.67  E-value=0.16  Score=41.56  Aligned_cols=48  Identities=17%  Similarity=0.248  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      ++|..++..|+.....|..++..++.++..|..||+-|..+|..|...
T Consensus        19 ~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~   66 (80)
T PF10224_consen   19 EELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMSS   66 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            678889999999999999999999999999999999999999888644

The exact function is unknown.

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

Probab=94.35  E-value=1.4  Score=40.98  Aligned_cols=94  Identities=21%  Similarity=0.204  Sum_probs=54.9

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINA  195 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda  195 (351)
                      |-+-++..|....+-+..+.+.+.+...||.++..-..+..++..++..|++....|..+...++...++...+..-..+
T Consensus        87 nV~~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks  166 (190)
T PF05266_consen   87 NVKFLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKS  166 (190)
T ss_pred             ccHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777888889999999999999999999887755555555555555554444444433333333222211111112


Q ss_pred             HHHHHHHHHHHHHH
Q 038341          196 EIADNKAEVGRLRQ  209 (351)
Q Consensus       196 ~~E~Lk~EVqRLR~  209 (351)
                      ..+.+++++...+.
T Consensus       167 ~~~~l~~~~~~~e~  180 (190)
T PF05266_consen  167 EAEALKEEIENAEL  180 (190)
T ss_pred             HHHHHHHHHHHHHH
Confidence            23455555555444

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

Probab=94.11  E-value=0.76  Score=45.29  Aligned_cols=45  Identities=22%  Similarity=0.316  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .+++.+++.|+.|..+|..++..|+.+...|..|...|+.+++.+
T Consensus        46 ~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l   90 (314)
T PF04111_consen   46 EELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEEL   90 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=93.98  E-value=0.65  Score=36.79  Aligned_cols=42  Identities=17%  Similarity=0.226  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      ..||.||..|=.....|+.+...|..+...+..|+..|+.+.
T Consensus         3 ~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekn   44 (65)
T TIGR02449         3 QALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKN   44 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555544444444444444444455555555554444

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.

>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=93.94  E-value=2.3  Score=38.00  Aligned_cols=71  Identities=15%  Similarity=0.185  Sum_probs=61.6

Q ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcch
Q 038341          120 LRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI  190 (351)
Q Consensus       120 ~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~  190 (351)
                      +.....|++.|-+--.-+++.+..|+.++..+..+...|...+..+..+...|..+-+..+.+|..|+...
T Consensus        33 Le~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~  103 (140)
T PF10473_consen   33 LEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLN  103 (140)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33455788888888899999999999999999999999999999999999999999999999998887443

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

>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=93.83  E-value=1  Score=39.27  Aligned_cols=46  Identities=26%  Similarity=0.405  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          170 EFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQL  217 (351)
Q Consensus       170 ~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a~i~qQqq  217 (351)
                      ..|..+-.+|..|.+++-+--==|.-..|.|+..|.-||..  |++|-
T Consensus        71 ~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~m--yr~Qi  116 (120)
T PF12325_consen   71 EELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEM--YREQI  116 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHH--HHHHH
Confidence            33444444444444443322222344578999999999998  88873

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 [].

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=93.73  E-value=0.47  Score=51.17  Aligned_cols=44  Identities=18%  Similarity=0.248  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      -+..|+.+|+.|+.||..|...+..++++...|..+...++.++
T Consensus       423 ~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~  466 (652)
T COG2433         423 RIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREV  466 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667777777777777777777777777666666655555444

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=93.69  E-value=0.9  Score=42.76  Aligned_cols=54  Identities=19%  Similarity=0.222  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFI  193 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lk  193 (351)
                      -|++|+..-+.|..||..|...+..+...+..|..|+..|+.++.++.|-...-
T Consensus         9 ~v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~a   62 (193)
T PF14662_consen    9 CVEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKA   62 (193)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478999999999999999999999999999999999999999999886544443

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

Probab=93.63  E-value=0.36  Score=37.79  Aligned_cols=49  Identities=29%  Similarity=0.318  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      ..|.+||.++..++.-+.+|...|..-+++...|..+.+.|..||.++.
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            5689999999999999999999999999999999999888888887776

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.

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

Probab=93.59  E-value=2.3  Score=39.41  Aligned_cols=54  Identities=13%  Similarity=0.172  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          131 QKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       131 qRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      .......+..+++++.++..|+.++..+..++...+++...+..++...+..+.
T Consensus        55 ~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~  108 (302)
T PF10186_consen   55 LLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS  108 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555666777777777777777777777777766666666666666555

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

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

Probab=93.55  E-value=2  Score=39.14  Aligned_cols=48  Identities=21%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          136 KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       136 RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      ....-|.+++.-++.|+.|...|..++..++.....|..||.+|-+|.
T Consensus       134 ~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw  181 (194)
T PF08614_consen  134 DLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW  181 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444444455544444443

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.

>PRK02793 phi X174 lysis protein; Provisional

Probab=93.27  E-value=0.55  Score=37.30  Aligned_cols=49  Identities=20%  Similarity=0.204  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      +.|.+||.++...+.-+.+|...|..-+++...|..+-+.|+.||..++
T Consensus         8 ~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   56 (72)
T PRK02793          8 ARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ   56 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4678888888888888888888888887777777777777776665554

>PRK00295 hypothetical protein; Provisional

Probab=93.24  E-value=0.58  Score=36.78  Aligned_cols=48  Identities=25%  Similarity=0.229  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .|.+||.++...+.-+.+|...|..-+++...|..+.+.|..||..++
T Consensus         6 Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00295          6 RVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            489999999999999999999998888888888877777777776554

>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=93.20  E-value=3.6  Score=41.24  Aligned_cols=55  Identities=25%  Similarity=0.258  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhh----------------cchhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          165 YQNMQEFLQKEQRSLSERMTTYN----------------NNIVFINAEIADNKAEVGRLRQLHLYQQQLKM  219 (351)
Q Consensus       165 Lq~q~~~L~~EN~eLKqrLqsLe----------------Qq~~lkda~~E~Lk~EVqRLR~a~i~qQqq~~  219 (351)
                      |..+...|..|++.|..+|+.--                ....-..+++..|+.||.|||..++..|++..
T Consensus       183 L~Kqm~~l~~eKr~Lq~~l~~~~s~~~s~~d~~~~~~~~Dt~e~~~shI~~Lr~EV~RLR~qL~~sq~e~~  253 (310)
T PF09755_consen  183 LWKQMDKLEAEKRRLQEKLEQPVSAPPSPRDTVNVSEENDTAERLSSHIRSLRQEVSRLRQQLAASQQEHS  253 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHccccCCCCCcchHHhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55678888899999998887411                11233445567999999999999777666543

>PRK11637 AmiB activator; Provisional

Probab=93.14  E-value=1.7  Score=43.85  Aligned_cols=44  Identities=20%  Similarity=0.178  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .+.+++.++..++.+...+..++..++++...+..+...|..+|
T Consensus        69 ~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI  112 (428)
T PRK11637         69 QRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASI  112 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444433333333333333333333333333333333

>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=93.12  E-value=3.5  Score=35.85  Aligned_cols=64  Identities=17%  Similarity=0.226  Sum_probs=36.6

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          121 RRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       121 KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      .|=...|+.......++..=++.|+..+..|+.++..+..++..++.....|..+.+.+...+.
T Consensus        48 ~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k  111 (151)
T PF11559_consen   48 DRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLK  111 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455666666666666666666666666666666666666655555555555444444433

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.

>PRK00736 hypothetical protein; Provisional

Probab=93.12  E-value=0.62  Score=36.64  Aligned_cols=48  Identities=25%  Similarity=0.321  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .+|.+||.++...+.-+.+|...|..-+++...|..+.+.|..||..+
T Consensus         5 ~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~   52 (68)
T PRK00736          5 ERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSL   52 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            348999999999999988888888888777777777766666666544

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=93.08  E-value=0.64  Score=36.84  Aligned_cols=47  Identities=13%  Similarity=0.193  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .|+.|=..++.|+.||..|+.++..+..+...|...|..-+.||++|
T Consensus         8 kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEam   54 (65)
T TIGR02449         8 QVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAM   54 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46778888888888888888888888888888888888888888665

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.

>PRK04325 hypothetical protein; Provisional

Probab=93.06  E-value=0.61  Score=37.23  Aligned_cols=48  Identities=29%  Similarity=0.305  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .|.+||.++...+.-+.+|...|..-+++...|..+.+.|..||..++
T Consensus        10 Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~   57 (74)
T PRK04325         10 RITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN   57 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            388999999999888888888888887777777777666666665543

>PRK02119 hypothetical protein; Provisional

Probab=92.98  E-value=0.64  Score=37.07  Aligned_cols=48  Identities=19%  Similarity=0.220  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ..|.+||.++...+.-+.+|...|..-+++...|..+.+.|+.||..+
T Consensus         9 ~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~   56 (73)
T PRK02119          9 NRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDM   56 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            467788888888887777777777777777766666666666665444

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

Probab=92.93  E-value=4.2  Score=40.55  Aligned_cols=93  Identities=13%  Similarity=0.180  Sum_probs=45.6

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEK--------------KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~--------------kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .++.-|..+-+--.+-|.-|+=.++-||.              ++..|+.||..|.+....|++....|.-+...=..++
T Consensus        18 qKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv   97 (307)
T PF10481_consen   18 QKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQV   97 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHH
Confidence            34444444444444555555555555554              3444444444444444444444444444433333344


Q ss_pred             hhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          184 TTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       184 qsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ..|+.+..-....+|.|..||.|+|.-
T Consensus        98 ~~lEgQl~s~Kkqie~Leqelkr~KsE  124 (307)
T PF10481_consen   98 NFLEGQLNSCKKQIEKLEQELKRCKSE  124 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444433333333566777777777765

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

>PRK04406 hypothetical protein; Provisional

Probab=92.91  E-value=0.65  Score=37.30  Aligned_cols=48  Identities=19%  Similarity=0.203  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ..|.+||.++...+.-+.+|...|..-+++...|..+.+.|+.||.++
T Consensus        11 ~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~   58 (75)
T PRK04406         11 ERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNM   58 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            356777777777777777777777777666666666666665555444

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=92.89  E-value=1.2  Score=36.62  Aligned_cols=48  Identities=15%  Similarity=0.220  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .-++.||.||+..-..+.-|.-+|..|..++..|..|+..++..-..|
T Consensus         4 EvleqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L   51 (79)
T PRK15422          4 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREEL   51 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            346788888887777776677666666666666666666555444333

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

Probab=92.82  E-value=1.8  Score=41.91  Aligned_cols=60  Identities=18%  Similarity=0.227  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          137 KLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       137 KKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      =.+|.+..++....++..-..-+.+......+...|..||..|+.++              +.|++|+..||.+
T Consensus       192 ~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v--------------~~l~~el~~~~~~  251 (269)
T KOG3119|consen  192 DPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQV--------------EQLKKELATLRRL  251 (269)
T ss_pred             CHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence            35566666666555554444444444555555666666777776665              7888889999988

>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=92.70  E-value=0.71  Score=36.92  Aligned_cols=33  Identities=18%  Similarity=0.159  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          148 AKALENQIAMLTPQVSLYQNMQEFLQKEQRSLS  180 (351)
Q Consensus       148 Vq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLK  180 (351)
                      +..|+.|+.+|+.+...|..++..|..||..|+
T Consensus        20 i~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~   52 (72)
T PF06005_consen   20 IALLQMENEELKEKNNELKEENEELKEENEQLK   52 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333

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.

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.69  E-value=1.7  Score=35.50  Aligned_cols=47  Identities=15%  Similarity=0.217  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      -++.||.||++.-.-+.-|.-++..|...+..|..|-+.+....++|
T Consensus         5 v~ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL   51 (79)
T COG3074           5 VFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREAL   51 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHH
Confidence            35666666665544444444444444444444444444444444333

>PRK11637 AmiB activator; Provisional

Probab=92.66  E-value=2.7  Score=42.36  Aligned_cols=58  Identities=10%  Similarity=0.110  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          130 AQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       130 AqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .++....-...+..|+.++..++.+...+..++..++.+...|..+...++.+|+...
T Consensus        66 ~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~  123 (428)
T PRK11637         66 QQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQE  123 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444456666777777777777777777777776666666666666666665544

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

Probab=92.51  E-value=0.0074  Score=60.77  Aligned_cols=56  Identities=30%  Similarity=0.331  Sum_probs=45.3

Q ss_pred             ccCCCCCHHHHHHHHHhhHHHHH---HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 038341          110 NAEHSMDPKRLRRIESNRVSAQK---SRMKKLQYVTDLEKKAKALE-NQIAMLTPQVSLY  165 (351)
Q Consensus       110 ~~d~~~DpKR~KRiLkNReSAqR---SR~RKKqYIeELE~kVq~Lq-~ENs~Ls~qv~~L  165 (351)
                      ....+.+.||..|..+|+.+|.+   +|.||+.+..+|..+|+.|+ .++..|..++..|
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            34566788999999999999999   99999999999999999888 6555544444333

>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=92.49  E-value=1.5  Score=36.56  Aligned_cols=58  Identities=19%  Similarity=0.220  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          151 LENQIAMLTPQVSLYQN------MQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       151 Lq~ENs~Ls~qv~~Lq~------q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +..++..|..++..|+.      +.....+||..|+.++..|..-.  -...-|.+..||..||..
T Consensus        22 ~~~e~~~L~eEI~~Lr~qve~nPevtr~A~EN~rL~ee~rrl~~f~--~~gerE~l~~eis~L~~~   85 (86)
T PF12711_consen   22 LEEENEALKEEIQLLREQVEHNPEVTRFAMENIRLREELRRLQSFY--VEGEREMLLQEISELRDQ   85 (86)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHH--HhhHHHHHHHHHHHHHhh
Confidence            33444444444444443      35667788888888777765433  344567888888888754

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.

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

Probab=92.43  E-value=1.2  Score=35.75  Aligned_cols=56  Identities=18%  Similarity=0.211  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQE--------FLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~--------~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +.+.|..+..|+.||=.|.-++-+|.+...        .+..||-+||..+              +.|++|+++++..
T Consensus         2 lrEqe~~i~~L~KENF~LKLrI~fLee~l~~~~~~~~~~~~keNieLKve~--------------~~L~~el~~~~~~   65 (75)
T PF07989_consen    2 LREQEEQIDKLKKENFNLKLRIYFLEERLQKLGPESIEELLKENIELKVEV--------------ESLKRELQEKKKL   65 (75)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence            457899999999999999999999987755        3456666666665              5566666666655

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=92.39  E-value=0.67  Score=48.66  Aligned_cols=44  Identities=18%  Similarity=0.284  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      .++||++++.|+.|...|+++...++++...|..||+.|+.+++
T Consensus        78 asELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~  121 (475)
T PRK13729         78 AAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVK  121 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            57889999999888888888888888888888888888888773

>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=92.31  E-value=1.9  Score=38.23  Aligned_cols=73  Identities=21%  Similarity=0.250  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhhhhcc-hhhhhHHHHHHHHHHHHHHHH
Q 038341          138 LQYVTDLEKKAKALENQIAMLTPQV--SLYQNMQEFLQKEQRSLSERMTTYNNN-IVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       138 KqYIeELE~kVq~Lq~ENs~Ls~qv--~~Lq~q~~~L~~EN~eLKqrLqsLeQq-~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ...+.+|+..++.|+.|...|....  ..|......|..|+..|..+|+.|... ..+.....+.+.++..+++..
T Consensus        85 ~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~k~  160 (169)
T PF07106_consen   85 REELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEYKKWRKE  160 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHH
Confidence            3445666666666666666666655  346777888999999999999988843 334455566666666666554

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 [].

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=92.20  E-value=2.2  Score=40.29  Aligned_cols=54  Identities=15%  Similarity=0.197  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINA  195 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda  195 (351)
                      .-|+.++..|+.||..|..+...++.+...|.+++..|+.+|-.++.-.--+|+
T Consensus        98 q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da  151 (193)
T PF14662_consen   98 QSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESLICQRDA  151 (193)
T ss_pred             HHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            567788888888888888888888888888888888888888555533333333

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=92.20  E-value=2.2  Score=35.19  Aligned_cols=70  Identities=17%  Similarity=0.231  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          117 PKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       117 pKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .+|+.+.+.+=+++-..|.-+..-..+||.+++.|...-+.|..++.....+...|..-|.+++.+|...
T Consensus        10 l~rL~~aid~LE~~v~~r~~~~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a   79 (89)
T PF13747_consen   10 LTRLEAAIDRLEKAVDRRLERDRKRDELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSA   79 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788888888888888888888888999999999999999999999999999999999999999999654

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

Probab=92.19  E-value=0.58  Score=42.59  Aligned_cols=20  Identities=30%  Similarity=0.448  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQV  162 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv  162 (351)
                      +|+..+..|+.++..|..++
T Consensus       120 ~l~~~~~~L~~~~~~l~~~l  139 (194)
T PF08614_consen  120 ELEAELAQLEEKIKDLEEEL  139 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

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.

>PRK09039 hypothetical protein; Validated

Probab=92.05  E-value=3.2  Score=41.42  Aligned_cols=46  Identities=15%  Similarity=0.174  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      |+.++..++.+.++...+|..|+++...|..+...|...|++.++.
T Consensus       121 l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~  166 (343)
T PRK09039        121 LAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKR  166 (343)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444455555555555555555555555555555433

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

Probab=91.99  E-value=1.5  Score=48.49  Aligned_cols=70  Identities=26%  Similarity=0.304  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHH---
Q 038341          141 VTDLEKKAKALENQIAMLTP---------------------QVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAE---  196 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~---------------------qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~---  196 (351)
                      |.++..++..+..||..|..                     ++..|......+..||..||-.+..+.++.-||.-+   
T Consensus        94 l~e~~~~l~~~~~e~~~l~~~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~keleir~~E~~~  173 (769)
T PF05911_consen   94 LAELSKRLAESAAENSALSKALQEKEKLIAELSEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLSKELEIRNEEREY  173 (769)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555556555444                     233445555566666666666666666555555443   


Q ss_pred             ------------------HHHHHHHHHHHHHH
Q 038341          197 ------------------IADNKAEVGRLRQL  210 (351)
Q Consensus       197 ------------------~E~Lk~EVqRLR~a  210 (351)
                                        +..|.+|.+|||.+
T Consensus       174 ~~~~ae~a~kqhle~vkkiakLEaEC~rLr~l  205 (769)
T PF05911_consen  174 SRRAAEAASKQHLESVKKIAKLEAECQRLRAL  205 (769)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                              23899999999998

The function of this family is unknown.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=91.89  E-value=2.3  Score=39.98  Aligned_cols=43  Identities=14%  Similarity=0.156  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      ..+|..+++....++.+|..+...|.++...+..|+..|+.++
T Consensus       120 ~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~  162 (206)
T PRK10884        120 TAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQL  162 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444433333333333333333333333333333333333

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

Probab=91.77  E-value=0.12  Score=52.16  Aligned_cols=50  Identities=36%  Similarity=0.474  Sum_probs=41.1

Q ss_pred             ccCCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          110 NAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLT  159 (351)
Q Consensus       110 ~~d~~~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls  159 (351)
                      ..+...|+++.|=+.+||.+|-++|.|||..+..|+.+...+..++..|.
T Consensus       277 ~~~~~p~~~~~~~lern~~aas~~r~~~k~~~~~~~~~~~~~~~~n~~l~  326 (395)
T KOG1414|consen  277 TVDEDPDERRRRFLERNRAAASRCRQKKKVWVLSLEKKAEELSSENGQLL  326 (395)
T ss_pred             ccCCCchhhhhhhhhhhhhhhccccCCcccccccccccccchhhhhcccc
Confidence            45555677885558899999999999999999999999988877776555

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

Probab=91.65  E-value=5.1  Score=38.33  Aligned_cols=81  Identities=12%  Similarity=0.094  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          130 AQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       130 AqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      +-.+=+..-.+|++++.+...|..|-....++|....++...|...-+.++...............++..|+.+|.++|.
T Consensus        23 e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~  102 (230)
T PF10146_consen   23 EVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRK  102 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455578899999999999999888888888888888888888888877777766666666788899999999988


Q ss_pred             H
Q 038341          210 L  210 (351)
Q Consensus       210 a  210 (351)
                      -
T Consensus       103 e  103 (230)
T PF10146_consen  103 E  103 (230)
T ss_pred             H
Confidence            6

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

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=91.27  E-value=1.2  Score=46.82  Aligned_cols=14  Identities=36%  Similarity=0.401  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHH
Q 038341          197 IADNKAEVGRLRQL  210 (351)
Q Consensus       197 ~E~Lk~EVqRLR~a  210 (351)
                      .+.|+.|+++|+..
T Consensus       118 ~~ql~~~~~~~~~~  131 (472)
T TIGR03752       118 IEQLKSERQQLQGL  131 (472)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45666666666555

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.

>PRK00846 hypothetical protein; Provisional

Probab=91.07  E-value=1.4  Score=35.92  Aligned_cols=49  Identities=14%  Similarity=0.088  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      ++|.+||.++...+.-+.+|...|...++....|..+.+.|+.||.+++
T Consensus        13 ~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846         13 ARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5677888888877777777777777776666666666666666555443

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

Probab=90.62  E-value=4.2  Score=43.81  Aligned_cols=48  Identities=25%  Similarity=0.423  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038341          138 LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTT  185 (351)
Q Consensus       138 KqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqs  185 (351)
                      +.|+..++.+.+.+......|..++.....++..|..+|.+||..|+.
T Consensus       279 ~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~  326 (581)
T KOG0995|consen  279 QAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIEL  326 (581)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            569999999999999999999999999999999999999999887753

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

Probab=90.56  E-value=4.1  Score=44.59  Aligned_cols=41  Identities=15%  Similarity=0.232  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSER  182 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqr  182 (351)
                      +-+..+.++|+.|...|+.++...+.+...|..|.++|+..
T Consensus       541 e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~  581 (697)
T PF09726_consen  541 ESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKY  581 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34666677777777777777777777777777777666654

; GO: 0016021 integral to membrane

>PRK09039 hypothetical protein; Validated

Probab=90.45  E-value=4.3  Score=40.55  Aligned_cols=40  Identities=20%  Similarity=0.296  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      +|..|+.++..|+.|+..++.....+..+..+.+.+|+.|
T Consensus       138 ~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L  177 (343)
T PRK09039        138 QVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADL  177 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=90.27  E-value=2.7  Score=44.23  Aligned_cols=8  Identities=50%  Similarity=0.920  Sum_probs=3.7

Q ss_pred             CCCCCCCC
Q 038341          319 PENADMMT  326 (351)
Q Consensus       319 ~~~~~~~~  326 (351)
                      |+|+++|-
T Consensus       239 P~NSTL~G  246 (472)
T TIGR03752       239 PENSTLMG  246 (472)
T ss_pred             CCCCchhh
Confidence            44555443

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.

>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=90.27  E-value=10  Score=33.96  Aligned_cols=15  Identities=20%  Similarity=0.308  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALEN  153 (351)
Q Consensus       139 qYIeELE~kVq~Lq~  153 (351)
                      .+|..||+.+...+.
T Consensus        24 ~~v~~LEreLe~~q~   38 (140)
T PF10473_consen   24 DHVESLERELEMSQE   38 (140)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            345555555444433

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

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

Probab=90.12  E-value=0.48  Score=43.44  Aligned_cols=52  Identities=17%  Similarity=0.320  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAE  196 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~  196 (351)
                      ++++|.|+..-=.+|.-|..+|    .+...|..+++.||..+..|.++..+++.+
T Consensus         2 LeD~EsklN~AIERnalLE~EL----dEKE~L~~~~QRLkDE~RDLKqEl~V~ek~   53 (166)
T PF04880_consen    2 LEDFESKLNQAIERNALLESEL----DEKENLREEVQRLKDELRDLKQELIVQEKL   53 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHCH--------------------
T ss_pred             HHHHHHHHHHHHHHhHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6899999998888888888888    557778888888888888888877666544

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.

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

Probab=90.10  E-value=5.7  Score=43.55  Aligned_cols=38  Identities=24%  Similarity=0.204  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          129 SAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQ  166 (351)
Q Consensus       129 SAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq  166 (351)
                      ..-++|++=|+-+..||+++...+..-..|.+|+...+
T Consensus       478 ~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eEr  515 (697)
T PF09726_consen  478 NLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEER  515 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456677777777888887777777777777666654

; GO: 0016021 integral to membrane

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.08  E-value=1.3  Score=36.21  Aligned_cols=43  Identities=26%  Similarity=0.328  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      |.-|.-+|..|..+|..|..++..+++.+..|..||..||+.-
T Consensus        20 I~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~   62 (79)
T COG3074          20 ITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQ   62 (79)
T ss_pred             HHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666777777777777777777777777777777777654

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=89.97  E-value=21  Score=36.70  Aligned_cols=56  Identities=16%  Similarity=0.158  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHH
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGR  206 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqR  206 (351)
                      .|.++..++++-+.|+..-+.|..-...|..+...|++++..|..+       ++.|++-++.
T Consensus       223 ~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~n-------iDIL~~k~~e  278 (365)
T KOG2391|consen  223 REEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKN-------IDILKSKVRE  278 (365)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhh-------hHHHHHHHHH
Confidence            3556666666666666666666666666666666666666665433       4666665544

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

Probab=89.94  E-value=6.2  Score=35.15  Aligned_cols=46  Identities=17%  Similarity=0.317  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .+|+.+..+++..+.++..++..++.....+..+.+..+.++.++.
T Consensus        91 ~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~  136 (191)
T PF04156_consen   91 QQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLD  136 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444433333333444444444433

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

>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=89.65  E-value=10  Score=35.64  Aligned_cols=42  Identities=17%  Similarity=0.141  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          145 EKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       145 E~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      +.++..|+.|...|...+..+++....+..+..+|+.+++.+
T Consensus        55 ~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~   96 (251)
T PF11932_consen   55 LAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQI   96 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333444444444444433

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.

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=89.52  E-value=3.6  Score=37.96  Aligned_cols=77  Identities=18%  Similarity=0.246  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHH--------HHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAE--------IADNKAEVGRLRQLH  211 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~--------~E~Lk~EVqRLR~a~  211 (351)
                      .+++=..+...|...|+-|+.++......|..|..++..|+..+..+..+...++..        +..+..|..+|-.+ 
T Consensus        68 rLeEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL~~ke~~~~~ee~~~~~y~~~eh~rll~L-  146 (182)
T PF15035_consen   68 RLEEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRDELEQKEAEWREEEENFNQYLSSEHSRLLSL-  146 (182)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccHHHHH-
Confidence            345556678888888999999999999999999999999998888877666555543        33455555555554 


Q ss_pred             HHHHHHH
Q 038341          212 LYQQQLK  218 (351)
Q Consensus       212 i~qQqq~  218 (351)
                       ++|...
T Consensus       147 -Wr~v~~  152 (182)
T PF15035_consen  147 -WREVVA  152 (182)
T ss_pred             -HHHHHH
Confidence             555543

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

Probab=89.40  E-value=18  Score=33.57  Aligned_cols=34  Identities=9%  Similarity=0.119  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          134 RMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       134 R~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      ..+++..+..|+.+++.+..++...+.++..++.
T Consensus        65 ~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~   98 (302)
T PF10186_consen   65 IEELRERLERLRERIERLRKRIEQKRERLEELRE   98 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444433

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

>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=89.20  E-value=9.3  Score=41.05  Aligned_cols=58  Identities=19%  Similarity=0.177  Sum_probs=29.7

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          122 RIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSL  179 (351)
Q Consensus       122 RiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eL  179 (351)
                      .+++-.....+....-+..+++|+..+...+.++..|..+...+......|..|+..|
T Consensus       154 eL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L  211 (546)
T PF07888_consen  154 ELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESL  211 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555555555555555555556655555555555555555544444444444444333

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 [].

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

Probab=89.15  E-value=10  Score=37.99  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHhhhhcchhhhh
Q 038341          171 FLQKEQRSLSERMTTYNNNIVFIN  194 (351)
Q Consensus       171 ~L~~EN~eLKqrLqsLeQq~~lkd  194 (351)
                      ....|.++||+=|+.+.....-+|
T Consensus       121 EARkEIkQLkQvieTmrssL~ekD  144 (305)
T PF15290_consen  121 EARKEIKQLKQVIETMRSSLAEKD  144 (305)
T ss_pred             HHHHHHHHHHHHHHHHHhhhchhh
Confidence            345677788888877764444333

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

Probab=89.13  E-value=8  Score=44.39  Aligned_cols=138  Identities=17%  Similarity=0.204  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          129 SAQKSRMKKLQYVTDLEKKA-KALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       129 SAqRSR~RKKqYIeELE~kV-q~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      ..+++.++..+.|.+++.+. +.++.+..++..++..|..+...|...+..|+..++.+.++..-.....+.++.++..|
T Consensus       369 ~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l  448 (1074)
T KOG0250|consen  369 KLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQL  448 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            33444444444455555554 44444445555555555555555555555555555554443333332333455555555


Q ss_pred             HHHHHHHHHH----Hhh--hcCCCCCCCCchhhh---hc--CCCCCCCCCCCccccCCCCCCCCCCccHHHHH
Q 038341          208 RQLHLYQQQL----KML--EQNGLPVWDCGLDEL---MN--STWCPTPGPGQMVYANPNQGDPYNGESIEEIL  269 (351)
Q Consensus       208 R~a~i~qQqq----~~~--~~~a~~~~~~~~~~~---~~--s~f~~~~~p~q~~~~~~~q~~~~~~~~~~~~~  269 (351)
                      +..  -++.+    ...  .......|...+.++   |+  ..+|++|.-|-+ =.+=+=.||--.-.||+++
T Consensus       449 ~k~--i~~~~~~l~~lk~~k~dkvs~FG~~m~~lL~~I~r~~~~f~~~P~GPl-G~~Vtl~~~KWa~aIE~~L  518 (1074)
T KOG0250|consen  449 RKK--IENISEELKDLKKTKTDKVSAFGPNMPQLLRAIERRKRRFQTPPKGPL-GKYVTLKEPKWALAIERCL  518 (1074)
T ss_pred             HHH--HHHHHHHHHHHHhcccchhhhcchhhHHHHHHHHHHHhcCCCCCCCCc-cceeEecCcHHHHHHHHHH
Confidence            554  11111    000  112234566666666   43  334456544544 2222233443334566554

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

Probab=88.97  E-value=5  Score=42.23  Aligned_cols=47  Identities=15%  Similarity=0.274  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      ++.|+.+++.|+.||.+|+..++.|...+..|..+.+.+-++|+++.
T Consensus       299 ~Enlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lr  345 (502)
T KOG0982|consen  299 KENLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALR  345 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            45566779999999999999999999888888888777766666654

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.84  E-value=4.4  Score=44.24  Aligned_cols=69  Identities=22%  Similarity=0.275  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhh---HHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFIN---AEIADNKAEVGRLRQ  209 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkd---a~~E~Lk~EVqRLR~  209 (351)
                      +..|..++..|+.+...|..++..+.+.+.....++..+..+|+.++....-+.   .+...|..+|+.||.
T Consensus       243 i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~e~~~r~kL~N~i~eLkG  314 (670)
T KOG0239|consen  243 IQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKKKEKEERRKLHNEILELKG  314 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            566666666666666666666666666666666666666666666654443333   333455555555544

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

Probab=88.81  E-value=4.9  Score=35.57  Aligned_cols=10  Identities=20%  Similarity=0.411  Sum_probs=4.3

Q ss_pred             HHHHHHhhhh
Q 038341          178 SLSERMTTYN  187 (351)
Q Consensus       178 eLKqrLqsLe  187 (351)
                      .|..||+.|+
T Consensus        77 ~l~rriq~LE   86 (143)
T PF12718_consen   77 QLNRRIQLLE   86 (143)
T ss_pred             HHHhhHHHHH
Confidence            3444444444

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 [].

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=88.78  E-value=15  Score=38.54  Aligned_cols=91  Identities=15%  Similarity=0.149  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcch--------hhhh
Q 038341          128 VSAQKSRMKKLQYVTDLEKK-----AKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI--------VFIN  194 (351)
Q Consensus       128 eSAqRSR~RKKqYIeELE~k-----Vq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~--------~lkd  194 (351)
                      +-|-+-++.=++|++.||..     ++++..|...|..+-..|.++...|..++..|-..|..++..+        ..-+
T Consensus       153 ~~~~~e~~~Y~~~l~~Le~~~~~~~~~~~~~e~~~l~~eE~~L~q~lk~le~~~~~l~~~l~e~~~~~~~~~e~~~~~~~  232 (447)
T KOG2751|consen  153 EDAEDEVDTYKACLQRLEQQNQDVSEEDLLKELKNLKEEEERLLQQLEELEKEEAELDHQLKELEFKAERLNEEEDQYWR  232 (447)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556677778888888864     3445555555555555555555555555555544444443221        1111


Q ss_pred             HHHH------HHHHHHHHHHHHHHHHHHHH
Q 038341          195 AEIA------DNKAEVGRLRQLHLYQQQLK  218 (351)
Q Consensus       195 a~~E------~Lk~EVqRLR~a~i~qQqq~  218 (351)
                      -.+.      ....|++.|...+-|.|.|.
T Consensus       233 ey~~~~~q~~~~~del~Sle~q~~~s~~ql  262 (447)
T KOG2751|consen  233 EYNNFQRQLIEHQDELDSLEAQIEYSQAQL  262 (447)
T ss_pred             HHHHHHHhhhcccchHHHHHHHHHHHHHHH
Confidence            1111      44566677777766776643

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

Probab=88.70  E-value=4.3  Score=39.86  Aligned_cols=16  Identities=31%  Similarity=0.312  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 038341          203 EVGRLRQLHLYQQQLKML  220 (351)
Q Consensus       203 EVqRLR~a~i~qQqq~~~  220 (351)
                      ||.+|+..  |+..+...
T Consensus       277 Ev~~Lk~~--~~~Le~~~  292 (325)
T PF08317_consen  277 EVKRLKAK--VDALEKLT  292 (325)
T ss_pred             HHHHHHHH--HHHHHHHH
Confidence            44455555  44444433

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

Probab=88.67  E-value=6.3  Score=37.77  Aligned_cols=60  Identities=20%  Similarity=0.221  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ||.+...+.++...|..++.....+...+..+..+|+.+.+.+       .-++.+|.+|-++|+..
T Consensus       149 ~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~-------~~EydrLlee~~~Lq~~  208 (216)
T KOG1962|consen  149 LEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGL-------QDEYDRLLEEYSKLQEQ  208 (216)
T ss_pred             hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------ccHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444       33467777777777654

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=88.64  E-value=5.1  Score=33.10  Aligned_cols=38  Identities=24%  Similarity=0.322  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          145 EKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSER  182 (351)
Q Consensus       145 E~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqr  182 (351)
                      --+|..|+.+|..|..++..+......|..||..||+.
T Consensus        24 qmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E   61 (79)
T PRK15422         24 QMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQ   61 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            33344444444444444444334444444444444443

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=88.62  E-value=4  Score=44.38  Aligned_cols=86  Identities=13%  Similarity=0.286  Sum_probs=48.8

Q ss_pred             HhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhhhcchhhhhHHHHHH
Q 038341          125 SNRVSAQKSRMKKL-QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ---KEQRSLSERMTTYNNNIVFINAEIADN  200 (351)
Q Consensus       125 kNReSAqRSR~RKK-qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~---~EN~eLKqrLqsLeQq~~lkda~~E~L  200 (351)
                      .+|..+.+.+..++ ..+.+|+.++..|+.++..|..++..+.++...-.   .|-+.+..+|..|+.+..-+.-..+.|
T Consensus       421 ~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L  500 (652)
T COG2433         421 EKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEEL  500 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444443332 34555666666666666666666666555443222   233334456666766666666667788


Q ss_pred             HHHHHHHHHH
Q 038341          201 KAEVGRLRQL  210 (351)
Q Consensus       201 k~EVqRLR~a  210 (351)
                      +.++.+||..
T Consensus       501 ~~~l~~l~k~  510 (652)
T COG2433         501 ERKLAELRKM  510 (652)
T ss_pred             HHHHHHHHHH
Confidence            8888888765

>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=88.48  E-value=7.9  Score=41.56  Aligned_cols=56  Identities=21%  Similarity=0.315  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          131 QKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       131 qRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ++.|..=++-...||.++..|+.++..|..++...++++..|..+++.+....+.+
T Consensus       149 qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l  204 (546)
T PF07888_consen  149 QKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEEL  204 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333334445555555555555555555554444444444444444444333

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 [].

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

Probab=88.41  E-value=8.1  Score=41.85  Aligned_cols=62  Identities=18%  Similarity=0.200  Sum_probs=40.5

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          125 SNRVSAQKSRMKKLQYVTDLEKKAKALENQ------------------------IAMLTPQVSLYQNMQEFLQKEQRSLS  180 (351)
Q Consensus       125 kNReSAqRSR~RKKqYIeELE~kVq~Lq~E------------------------Ns~Ls~qv~~Lq~q~~~L~~EN~eLK  180 (351)
                      +|.+.-.+--..++..|.+||+++..++.+                        |.+|+.++..|+..+..|..+|-+|+
T Consensus       108 ~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~ltne~~elt  187 (617)
T PF15070_consen  108 ENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNRELKEQLAELQDAFVKLTNENMELT  187 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhHhh
Confidence            333433333346778888888887776654                        45667777777777777777776666


Q ss_pred             HHHhhh
Q 038341          181 ERMTTY  186 (351)
Q Consensus       181 qrLqsL  186 (351)
                      ..|++-
T Consensus       188 ~~lq~E  193 (617)
T PF15070_consen  188 SALQSE  193 (617)
T ss_pred             HHHHHH
Confidence            665543

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=88.16  E-value=8.3  Score=38.40  Aligned_cols=55  Identities=16%  Similarity=0.198  Sum_probs=42.7

Q ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          123 IESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQR  177 (351)
Q Consensus       123 iLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~  177 (351)
                      .++|.+.--.+|..--+.++.||+.+.++.+....|.+.|..|++.+.-|..-.+
T Consensus        75 ~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakR  129 (333)
T KOG1853|consen   75 QERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKR  129 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhh
Confidence            4566666666666667778889999999988888899999888888887776543

>PHA02562 46 endonuclease subunit; Provisional

Probab=88.13  E-value=9.7  Score=38.93  Aligned_cols=9  Identities=22%  Similarity=0.401  Sum_probs=4.6

Q ss_pred             ccccccCCC
Q 038341          279 VPVLCVDDN  287 (351)
Q Consensus       279 ~~~~~~~~~  287 (351)
                      -++||+|..
T Consensus       497 ~~~lilDEp  505 (562)
T PHA02562        497 TNLLILDEV  505 (562)
T ss_pred             cCeEEEecc
Confidence            445555543

>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=88.12  E-value=3.1  Score=36.86  Aligned_cols=26  Identities=12%  Similarity=0.348  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQ  166 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq  166 (351)
                      |.+|..++..|+.++..|+.++..|.
T Consensus        81 i~~L~~el~~l~~~~k~l~~eL~~L~  106 (169)
T PF07106_consen   81 IKELREELAELKKEVKSLEAELASLS  106 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444444443

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 [].

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

Probab=87.98  E-value=12  Score=36.76  Aligned_cols=43  Identities=7%  Similarity=0.085  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          167 NMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       167 ~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      .+...+..+...+|..|+.++.+..-.+..++.++++...|+.
T Consensus       216 ~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~  258 (325)
T PF08317_consen  216 QELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLA  258 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444443333333334444444444433

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.96  E-value=5.2  Score=45.74  Aligned_cols=46  Identities=24%  Similarity=0.385  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTT  185 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqs  185 (351)
                      .|++||.+++.++.+...+.+........+..|..+...|+.+|+.
T Consensus       449 ~ieele~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~  494 (1041)
T KOG0243|consen  449 QIEELEEELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQN  494 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444555555555554443

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=87.87  E-value=6.5  Score=43.40  Aligned_cols=50  Identities=20%  Similarity=0.195  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcch
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI  190 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~  190 (351)
                      .+.||.+...|..|..+++.+-.-|-+++..|..||-.|..++..|.+..
T Consensus        71 ~~~~e~~~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs~Lk~sQ  120 (717)
T PF09730_consen   71 CEDLELERKRLREEIKEYKFREARLLQDYSELEEENISLQKQVSVLKQSQ  120 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhH
Confidence            46677777777777777777777778888999999999999988887544

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

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

Probab=87.82  E-value=22  Score=33.84  Aligned_cols=63  Identities=22%  Similarity=0.286  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcch----hhhhHHHHHHHHHHHHHHHH
Q 038341          148 AKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI----VFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       148 Vq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~----~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +..+..|+..++.++..|+.+...|...|..|..+|..++...    ....+.+..|..|+..||.-
T Consensus       211 ~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~  277 (312)
T PF00038_consen  211 LESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREEYQAEIAELEEELAELREE  277 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHH
Confidence            5556677777777777777777888888888888887776332    22344556777777777775

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=87.81  E-value=11  Score=41.10  Aligned_cols=7  Identities=43%  Similarity=0.468  Sum_probs=3.1

Q ss_pred             CCCCCCC
Q 038341          343 MDEPAAG  349 (351)
Q Consensus       343 ~~~~~~~  349 (351)
                      +|||.+|
T Consensus      1117 lDE~~~~ 1123 (1179)
T TIGR02168      1117 LDEVDAP 1123 (1179)
T ss_pred             ecCcccc
Confidence            3444444

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

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

Probab=87.78  E-value=8.6  Score=40.10  Aligned_cols=73  Identities=25%  Similarity=0.293  Sum_probs=54.0

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcch
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNI  190 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~  190 (351)
                      ||++-+-++=+.-.++....+.-...||..++.++.++..+..++.........+...+..+..+|..|+.+.
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            6666555554555555555666778888888888888888888888888888888887777777777776443

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

Probab=87.72  E-value=12  Score=30.57  Aligned_cols=13  Identities=15%  Similarity=0.192  Sum_probs=6.9

Q ss_pred             HhhHHHHHHHHHH
Q 038341          125 SNRVSAQKSRMKK  137 (351)
Q Consensus       125 kNReSAqRSR~RK  137 (351)
                      .|.+..+.+-.++
T Consensus         9 ~n~e~v~~~l~~R   21 (108)
T PF02403_consen    9 ENPEEVRENLKKR   21 (108)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             hCHHHHHHHHHHc
Confidence            4665555555444

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

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

Probab=87.64  E-value=1.8  Score=37.56  Aligned_cols=45  Identities=18%  Similarity=0.214  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      |-.+|-.|+.-...|+.+|..+.+++-.|..||+.|-++|+.|..
T Consensus        61 lItQVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQYIeNLMS  105 (120)
T KOG3650|consen   61 LITQVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQYIENLMS  105 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHh
Confidence            445677788888899999999999999999999999999987753

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

Probab=87.50  E-value=8.3  Score=36.09  Aligned_cols=72  Identities=19%  Similarity=0.205  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL----QKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L----~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .|...||..++.|+.+...++.++..+..+....    ..+...|..+-..+-....--+...+.|..||.+||.-
T Consensus       136 ~~n~~Le~~~~~le~~l~~~k~~ie~vN~~RK~~Q~~~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~  211 (221)
T PF05700_consen  136 IHNEQLEAMLKRLEKELAKLKKEIEEVNRERKRRQEEAGEELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRK  211 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788999999999999999999998886543322    22333455555444444444455566888999888886

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

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

Probab=87.40  E-value=9.6  Score=35.15  Aligned_cols=40  Identities=23%  Similarity=0.261  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          168 MQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       168 q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +...|..++.+|+..|+.+..   .-...++.+++++..++.+
T Consensus       111 ~l~~l~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~~~~  150 (188)
T PF03962_consen  111 ELEELKKELKELKKELEKYSE---NDPEKIEKLKEEIKIAKEA  150 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh---cCHHHHHHHHHHHHHHHHH
Confidence            344444444444444443221   1223467777777777776

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

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=87.37  E-value=1.6  Score=43.42  Aligned_cols=39  Identities=21%  Similarity=0.236  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHHH
Q 038341          159 TPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLH  211 (351)
Q Consensus       159 s~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a~  211 (351)
                      +++-+.|..++..|..+|.+||.++              ..|.+||++||++.
T Consensus       247 Rae~E~l~ge~~~Le~rN~~LK~qa--------------~~lerEI~ylKqli  285 (294)
T KOG4571|consen  247 RAEKEALLGELEGLEKRNEELKDQA--------------SELEREIRYLKQLI  285 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHH
Confidence            4445566777888999999999998              45567788888773

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=87.33  E-value=6  Score=35.32  Aligned_cols=69  Identities=16%  Similarity=0.148  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +.....++..+..+..+..++..|......-..+...|+..++.......-++..+++|+.|-+.||.=
T Consensus        29 ~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~~~~~Q~~Lr~~~~~~~~~l~~re~~i~rL~~ENe~lR~W   97 (135)
T TIGR03495        29 ERANRVLKAQQAELASKANQLIVLLALAKRNEEAQAQLRQQLAQARALLAQREQRIERLKRENEDLRRW   97 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHH
Confidence            333444566667777777777777777766677777888888888888888888899999999988876

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

>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []

Probab=87.27  E-value=1.1  Score=38.01  Aligned_cols=70  Identities=14%  Similarity=0.310  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQK---EQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~---EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ....++|..+..++.|..+|++.+  +...|.+...   +.-.+..+...|+++..-.+.+++.|..++..|+.+
T Consensus         8 ~~r~~ae~~~~~ie~ElEeLTasL--FeEAN~MVa~ar~e~~~~e~k~~~le~~l~e~~~~l~~lq~qL~~LK~v   80 (100)
T PF06428_consen    8 ERREEAEQEKEQIESELEELTASL--FEEANKMVADARRERAALEEKNEQLEKQLKEKEALLESLQAQLKELKTV   80 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTHHCHCCCHCTSSSSHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334667777777777777777654  2333333333   334555666666666666677788999999999987

It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=87.23  E-value=17  Score=34.27  Aligned_cols=44  Identities=20%  Similarity=0.185  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          136 KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSL  179 (351)
Q Consensus       136 RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eL  179 (351)
                      .-++-+..|+.+++.|+..|..|.+.+...+++...|..+..++
T Consensus        53 ~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~   96 (251)
T PF11932_consen   53 ELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQI   96 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444455555555444444444444444444444443

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.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=87.16  E-value=11  Score=44.80  Aligned_cols=49  Identities=12%  Similarity=0.156  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          162 VSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       162 v~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +..++.+...+..+...|+.+++.+.+...........+...+.+|..+
T Consensus       378 leeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~  426 (1486)
T PRK04863        378 QEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERA  426 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333344444444333333333333333444444444444

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

Probab=87.00  E-value=13  Score=35.54  Aligned_cols=68  Identities=18%  Similarity=0.236  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .||.+...++.++..|..+......+...|..+..++...+..|..+..-++...+.|+.++...|..
T Consensus        51 ~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~  118 (246)
T PF00769_consen   51 ELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARLEEESERKEEEAEELQEELEEARED  118 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555666666666666666666777777888888888888888888899999999998887775

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

>PF15030 DUF4527: Protein of unknown function (DUF4527)

Probab=86.91  E-value=12  Score=36.91  Aligned_cols=93  Identities=12%  Similarity=0.049  Sum_probs=69.9

Q ss_pred             CCCHHHHHHHHHhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhh
Q 038341          114 SMDPKRLRRIESNRVSAQKSRMKKLQYVT-DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVF  192 (351)
Q Consensus       114 ~~DpKR~KRiLkNReSAqRSR~RKKqYIe-ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~l  192 (351)
                      +.|.|=.-|.|..|.--.++..|-+...- +|......-.---.+|..++..|+++.+....--.=||.+|++|-+.+.-
T Consensus        11 eed~rL~v~~LhHQvlTLqcQLRDQ~~ahreLQas~dEa~~L~~~L~~kl~eLqkk~~Ea~lAVtPLKak~AslV~kc~e   90 (277)
T PF15030_consen   11 EEDLRLRVQQLHHQVLTLQCQLRDQGSAHRELQASRDEATRLQDELQGKLEELQKKQHEANLAVTPLKAKLASLVQKCRE   90 (277)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhhccchHHHHHHHHHHHHHH
Confidence            33555444666677777777777766555 55555555444556678888888888888877788899999999999999


Q ss_pred             hhHHHHHHHHHHHH
Q 038341          193 INAEIADNKAEVGR  206 (351)
Q Consensus       193 kda~~E~Lk~EVqR  206 (351)
                      |..+++.|-.|+.|
T Consensus        91 Rn~Li~~llqel~R  104 (277)
T PF15030_consen   91 RNRLITHLLQELHR  104 (277)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999876

>PF05837 CENP-H: Centromere protein H (CENP-H); InterPro: IPR008426 Chromosome segregation in eukaryotes requires the kinetochore, a multi-protein structure that assembles on centromeric DNA, and which acts to link chromosomes to spindle microtubules

Probab=86.90  E-value=3.6  Score=34.65  Aligned_cols=49  Identities=10%  Similarity=0.110  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhH
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINA  195 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda  195 (351)
                      .+..+..+...+..++..++.++..+...|++|-..|..+..+......
T Consensus         4 ~~~~~~~~~~~l~~~L~~v~~~~l~l~~~n~el~~el~~l~~~~~~~~~   52 (106)
T PF05837_consen    4 EILNLQQESRSLQEKLSDVEKKRLRLKRRNQELAQELLELAEKQKSQRE   52 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence            4566777777788888888888888888888888877777755444443

Kinetochore structure and composition is highly conserved among vertebrates. The inner kinetochore is essential for kinetochore assembly, and is involved in chromosome segregation via regulation of the spindle. Inner kinetochore components include the multi-subunit CENP-H/I complex, which may function, in part, in directing centromere protein A (CENP-A) deposition to centromeres, where CENP-A is a centromere-specific histone H3 variant required for the organisation of centromeric chromatin during interphase. The CENP-H/I complex contains three functional classes of proteins [, ]: CENP-H class (includes CENP-H, -I, -K, -L) CENP-M class (includes CENP-M) CENP-O class (includes CENP-O, -P, -Q, -R, -50) CENP-H is required for the localisation of CENP-C, but not CENP-A, to the centromere. However, it may be involved in the incorporation of newly synthesised CENP-A into centromeres via its interaction with the CENP-A/CENP-HI complex. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle, and may play a role in kinetochore organisation and function throughout the cell cycle []. Studies show that CENP-H may be associated with certain human cancers [, ]. This entry also includes Kinetochore protein Fta3 which is a subunit of the Sim4 complex. This complex is required for loading the DASH complex onto the kinetochore via interaction with dad1. Fta2, Fta3 and Fta4 associate with the central core and inner repeat region of the centromere [].; GO: 0043515 kinetochore binding, 0007059 chromosome segregation, 0051301 cell division, 0000777 condensed chromosome kinetochore, 0005634 nucleus

>PF06216 RTBV_P46: Rice tungro bacilliform virus P46 protein; InterPro: IPR009347 This family consists of several Rice tungro bacilliform virus P46 proteins

Probab=86.62  E-value=3.2  Score=41.32  Aligned_cols=49  Identities=20%  Similarity=0.252  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .|+=-||.+.+.+..|...|..||..|+.++..+.....+.|..|+.|+
T Consensus        64 ~~~y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglr  112 (389)
T PF06216_consen   64 DYIYNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLR  112 (389)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4666789999999999999999999999999999999999999998887

The function of this family is unknown.

>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=86.48  E-value=3.2  Score=30.55  Aligned_cols=38  Identities=26%  Similarity=0.313  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSE  181 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKq  181 (351)
                      ||+....|......|.+....|.+++..|..|...|+.
T Consensus         3 lE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~   40 (45)
T PF02183_consen    3 LERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE   40 (45)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555544444444444444444444333

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

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

Probab=86.34  E-value=9  Score=36.49  Aligned_cols=64  Identities=19%  Similarity=0.147  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .+..|..+...++.++......+..+..+...|+..++.......-.+..++.|++|+..|+..
T Consensus        76 e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~~  139 (312)
T PF00038_consen   76 EIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLKQN  139 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHhh
Confidence            3333333333444444444444444455555555554443333333344566888888888887

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=86.18  E-value=13  Score=42.59  Aligned_cols=47  Identities=19%  Similarity=0.384  Sum_probs=28.4

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          122 RIESNRVSAQKSRMKKLQYVTDL-----------------EKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       122 RiLkNReSAqRSR~RKKqYIeEL-----------------E~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      ++.+-|..|...-.-|-+|..+|                 |.+...|+.|...|.+++..|.-+
T Consensus       284 el~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve~lkEr~deletd  347 (1243)
T KOG0971|consen  284 ELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVEALKERVDELETD  347 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44466777777777777776665                 344555555555555555555433

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.91  E-value=9.2  Score=37.68  Aligned_cols=53  Identities=23%  Similarity=0.294  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          137 KLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       137 KKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      +..-+.+|+..++.++.++..|-.++..++.+...+..++.+++..|..|+++
T Consensus        36 ~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~e   88 (265)
T COG3883          36 QDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKE   88 (265)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33345666666666666666666666666666666666666666666555543

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=85.90  E-value=23  Score=31.59  Aligned_cols=95  Identities=16%  Similarity=0.254  Sum_probs=63.1

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchh
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYV----TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIV  191 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYI----eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~  191 (351)
                      +..++|+...+-.-+--.-+.|..++    ..+..++...+.+...++.++..+..+...+...|..|+.+...+..-..
T Consensus        64 eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~~~~~~~~~P~l  143 (177)
T PF13870_consen   64 ELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLRQQGGLLGVPAL  143 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHH
Confidence            45666666655444444444444433    34566677777777888888888888888888888888888888877777


Q ss_pred             hhhH-----HHHHHHHHHHHHHHH
Q 038341          192 FINA-----EIADNKAEVGRLRQL  210 (351)
Q Consensus       192 lkda-----~~E~Lk~EVqRLR~a  210 (351)
                      +.|-     ..+.|+++|..|+.-
T Consensus       144 l~Dy~~~~~~~~~l~~~i~~l~rk  167 (177)
T PF13870_consen  144 LRDYDKTKEEVEELRKEIKELERK  167 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6552     234566666665543

>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=85.72  E-value=6.7  Score=34.02  Aligned_cols=42  Identities=21%  Similarity=0.245  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .-|+..+..+.....+|-.+-..|...+..|..++....+|+
T Consensus        19 a~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~   60 (107)
T PF09304_consen   19 ASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRI   60 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333

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.

>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=85.66  E-value=2  Score=31.58  Aligned_cols=38  Identities=18%  Similarity=0.232  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          150 ALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       150 ~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      +|+.+...|++....|..++..|..||..|+..+..|.
T Consensus         2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~   39 (45)
T PF02183_consen    2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELK   39 (45)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56677777777777777777777777777766665554

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

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

Probab=85.62  E-value=11  Score=34.86  Aligned_cols=56  Identities=27%  Similarity=0.350  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .+|+.++..|+.++..|..++..+......+...+.+.+             .........||..|+..
T Consensus       123 ~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~-------------~~~~k~~~~ei~~lk~~  178 (189)
T PF10211_consen  123 QELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELR-------------QEEEKKHQEEIDFLKKQ  178 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHH
Confidence            445555555555555555555555444444443333322             22344556666666665

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

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

Probab=85.52  E-value=19  Score=33.55  Aligned_cols=45  Identities=20%  Similarity=0.288  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ..+..++..++.+...|.-+...|..++..+..|..+|..+....
T Consensus        89 ~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~  133 (201)
T PF13851_consen   89 QNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESA  133 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444455555555555554443

>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=85.29  E-value=25  Score=32.04  Aligned_cols=45  Identities=13%  Similarity=0.159  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-cchhhh
Q 038341          149 KALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN-NNIVFI  193 (351)
Q Consensus       149 q~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe-Qq~~lk  193 (351)
                      ..++.+...|..++..|+.++..|....+.+..++..|+ ++..++
T Consensus        85 d~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~  130 (158)
T PF09744_consen   85 DQWRQERKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELK  130 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHH
Confidence            566778888888888888888888877777777766665 333433

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

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

Probab=85.24  E-value=5.1  Score=33.74  Aligned_cols=43  Identities=26%  Similarity=0.304  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          145 EKKAKALENQIAML--TPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       145 E~kVq~Lq~ENs~L--s~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      +.++..++++...|  +..+..|+-....+..+-+.+..+|+.+.
T Consensus        48 ~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~   92 (106)
T PF10805_consen   48 DRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVS   92 (106)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            44444444444444  44444444444444444444444444443

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

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=85.05  E-value=12  Score=41.32  Aligned_cols=92  Identities=17%  Similarity=0.194  Sum_probs=57.5

Q ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhhhhcch-----hhhh
Q 038341          123 IESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQ---VSLYQNMQEFLQKEQRSLSERMTTYNNNI-----VFIN  194 (351)
Q Consensus       123 iLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~q---v~~Lq~q~~~L~~EN~eLKqrLqsLeQq~-----~lkd  194 (351)
                      +|.-++.||..+-|-++.+-++  +-..|.+.-.-|..+   .+.|+.+...|++|-.+||.++.+|+++.     .+|.
T Consensus       129 vLteqVeaQgEKIrDLE~cie~--kr~kLnatEEmLQqellsrtsLETqKlDLmaevSeLKLkltalEkeq~e~E~K~R~  206 (861)
T KOG1899|consen  129 VLTEQVEAQGEKIRDLETCIEE--KRNKLNATEEMLQQELLSRTSLETQKLDLMAEVSELKLKLTALEKEQNETEKKLRL  206 (861)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHH--HHhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHhHHHHHHHHHHhhhHHHHHHh
Confidence            4566777887777776644333  322332222222222   26788888999999999999999998443     4444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          195 AEIADNKAEVGRLRQLHLYQQQLK  218 (351)
Q Consensus       195 a~~E~Lk~EVqRLR~a~i~qQqq~  218 (351)
                        .|.|-.||.+++.-.|-+|+.+
T Consensus       207 --se~l~qevn~~kv~e~~~erlq  228 (861)
T KOG1899|consen  207 --SENLMQEVNQSKVGEVVQERLQ  228 (861)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHH
Confidence              4556667777766666666533

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

Probab=84.92  E-value=7.2  Score=35.16  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQ-NMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq-~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .+||.....+++..++|+.++..++ .+...|..++..|+..++.|+
T Consensus        47 ~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~   93 (177)
T PF07798_consen   47 SDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLR   93 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555556666666655443 334445555555555555444

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

Probab=84.80  E-value=11  Score=43.22  Aligned_cols=70  Identities=23%  Similarity=0.334  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +.+|+.+++.+...+.+-+..+..-+++...|..|-.+|+..+...+++..-..-.++.|+.|+..|+..
T Consensus       789 lkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~k  858 (1174)
T KOG0933|consen  789 LKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAK  858 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666666666666666666677777777777777777777665555555556666666555543

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

Probab=84.62  E-value=11  Score=33.54  Aligned_cols=46  Identities=11%  Similarity=0.239  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          165 YQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       165 Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +..+...+......+..++..+.+...-.....+.++.++.+++..
T Consensus       128 ~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~  173 (191)
T PF04156_consen  128 VEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERLQEN  173 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444444444333322222223344555666666555

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

>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=84.34  E-value=9.3  Score=38.35  Aligned_cols=72  Identities=15%  Similarity=0.240  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLS-----------ERMTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLK-----------qrLqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      -.++.|-+|++.|+.||..|+.+...|..+...+..+-+.|-           .+|..|..+...|.-.+....+||.+|
T Consensus       160 ~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~L  239 (306)
T PF04849_consen  160 IQLEALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSL  239 (306)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446778888888888888888888877755554444444332           233444433333333344555555555


Q ss_pred             HHH
Q 038341          208 RQL  210 (351)
Q Consensus       208 R~a  210 (351)
                      ..-
T Consensus       240 lsq  242 (306)
T PF04849_consen  240 LSQ  242 (306)
T ss_pred             HHH
Confidence            444

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 [].

>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=84.31  E-value=13  Score=29.69  Aligned_cols=62  Identities=11%  Similarity=0.191  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .+=+.++..|..|...|+.+.-.+......|...+.++...+..+..       -.+.+..++..|+..
T Consensus         8 ~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~-------~~~~~e~~~~~l~~~   69 (74)
T PF12329_consen    8 AEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKK-------KLEELEKELESLEER   69 (74)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            34445566666666666666555555555555555555555544432       235566666666654

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.

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

Probab=84.13  E-value=25  Score=34.86  Aligned_cols=83  Identities=16%  Similarity=0.236  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          128 VSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       128 eSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      ........+..+-+.+||.+...|..|...|..+...+.++-.....+.+.++.++..+.++..--.+.++....++.+|
T Consensus        53 ~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L  132 (314)
T PF04111_consen   53 EKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRL  132 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555566666777777777777777777777777666666666677777777666666666666777778888888


Q ss_pred             HHH
Q 038341          208 RQL  210 (351)
Q Consensus       208 R~a  210 (351)
                      |..
T Consensus       133 ~kt  135 (314)
T PF04111_consen  133 RKT  135 (314)
T ss_dssp             HT-
T ss_pred             Hhc
Confidence            877

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A

Probab=84.03  E-value=20  Score=28.67  Aligned_cols=77  Identities=17%  Similarity=0.146  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh---hcchhhhhHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALEN--QIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY---NNNIVFINAEIADNKAEVGRLRQLHLYQ  214 (351)
Q Consensus       140 YIeELE~kVq~Lq~--ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL---eQq~~lkda~~E~Lk~EVqRLR~a~i~q  214 (351)
                      .+..|++.+..|-+  .+.+|+.++..+...+..|..+-.++-.+|..+   ...........+.|..+...+-..  |+
T Consensus        11 ~v~~l~k~~~~lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df~~~l~~--fq   88 (102)
T PF14523_consen   11 NVSQLEKLVNQLGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDFKEALQE--FQ   88 (102)
T ss_dssp             HHHHHHHHHHHH-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHHHHHHHH--HH
T ss_pred             HHHHHHHHHHHhCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHH--HH
Confidence            46777888877763  667788888888888888888877777777666   222333345566777777665555  55


Q ss_pred             HHHH
Q 038341          215 QQLK  218 (351)
Q Consensus       215 Qqq~  218 (351)
                      ..|.
T Consensus        89 ~~q~   92 (102)
T PF14523_consen   89 KAQR   92 (102)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=83.93  E-value=8.3  Score=38.69  Aligned_cols=62  Identities=19%  Similarity=0.272  Sum_probs=45.4

Q ss_pred             HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKA---KALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kV---q~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ++|.++.   ...+.|+..|.+++..+++.+..+..||.+|.+.|.+....       ...|+.|+..|+--
T Consensus       220 eELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~-------Q~~L~aEL~elqdk  284 (306)
T PF04849_consen  220 EELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKES-------QRQLQAELQELQDK  284 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
Confidence            4555553   34567888999999999999999999999999999776421       23456666655554

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 [].

>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore

Probab=83.93  E-value=5.1  Score=33.53  Aligned_cols=42  Identities=24%  Similarity=0.275  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          137 KLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRS  178 (351)
Q Consensus       137 KKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~e  178 (351)
                      |+.|-..-|.+|..|+.++..|..++..|+.+...-..|.++
T Consensus        40 KksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~   81 (87)
T PF12709_consen   40 KKSYEARWEKKVDELENENKALKRENEQLKKKLDTEREEKQE   81 (87)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555555544444444333

Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=83.84  E-value=12  Score=45.48  Aligned_cols=64  Identities=20%  Similarity=0.322  Sum_probs=56.0

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          124 ESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       124 LkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .+-.+.+++++.-=+..+...|++++.|++|+.+|+..+..+.+....+..|..++..+|..+.
T Consensus      1645 q~~~e~~~~~~~e~~~q~~~aerr~~~l~~E~eeL~~~l~~~~Rarr~aE~e~~E~~e~i~~~~ 1708 (1930)
T KOG0161|consen 1645 QRELEDAQRAREELLEQLAEAERRLAALQAELEELREKLEALERARRQAELELEELAERVNELN 1708 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHh
Confidence            3466889999999999999999999999999999999999999998888888888888888765

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

Probab=83.74  E-value=21  Score=32.98  Aligned_cols=48  Identities=21%  Similarity=0.306  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 038341          136 KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEF-LQKEQRSLSERM  183 (351)
Q Consensus       136 RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~-L~~EN~eLKqrL  183 (351)
                      .-...|.+|+.++..|+.+...|..+...+.+.... +..+++..+..+
T Consensus       124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei  172 (189)
T PF10211_consen  124 ELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEI  172 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455666666666666666666666665555443 233334444444

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

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

Probab=83.74  E-value=17  Score=35.33  Aligned_cols=69  Identities=22%  Similarity=0.274  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          138 LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       138 KqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      ..-+..|+..+..++.....|..++..|......|..+...|+.++..++...   ...-+.+..||..++.
T Consensus        88 ~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~---~e~~~~~e~e~~~i~e  156 (239)
T COG1579          88 ERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNL---AEAEARLEEEVAEIRE  156 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence            34467788888888888888888888888888888888888888887776543   2223355555555554

>PRK03918 chromosome segregation protein; Provisional

Probab=83.49  E-value=25  Score=38.18  Aligned_cols=10  Identities=30%  Similarity=0.813  Sum_probs=5.8

Q ss_pred             cccccccCCC
Q 038341          278 QVPVLCVDDN  287 (351)
Q Consensus       278 q~~~~~~~~~  287 (351)
                      ..|+|++|..
T Consensus       812 ~~~~lilDEp  821 (880)
T PRK03918        812 NIPLLILDEP  821 (880)
T ss_pred             CCCeEEEeCC
Confidence            4566666654

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

Probab=83.32  E-value=10  Score=37.23  Aligned_cols=33  Identities=18%  Similarity=0.205  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ  173 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~  173 (351)
                      .+++..|++.++.|+.+|..+++.++.+...+.
T Consensus       137 ~ee~kekl~E~~~EkeeL~~eleele~e~ee~~  169 (290)
T COG4026         137 YEELKEKLEELQKEKEELLKELEELEAEYEEVQ  169 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555554444433333

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

Probab=83.20  E-value=18  Score=38.98  Aligned_cols=48  Identities=19%  Similarity=0.269  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      -+.+++..+..+++|.+.+.+++..+..+...|..||..|...|+.+.
T Consensus       142 ~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r  189 (546)
T KOG0977|consen  142 KLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARAR  189 (546)
T ss_pred             HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            334444555555555666666666666666666666666655555544

>smart00787 Spc7 Spc7 kinetochore protein

Probab=82.80  E-value=30  Score=34.44  Aligned_cols=40  Identities=18%  Similarity=0.390  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSE  181 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKq  181 (351)
                      +.|++.+..|+.+...|..+++.+..-...|......|+.
T Consensus       147 ~~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~  186 (312)
T smart00787      147 EGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEE  186 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555544333333333333333

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

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

Probab=82.49  E-value=29  Score=35.77  Aligned_cols=48  Identities=19%  Similarity=0.178  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          136 KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       136 RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      |-|..+..||.-+..++.||..|..++..+.+++.....|.++|-..|
T Consensus       124 k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrEL  171 (401)
T PF06785_consen  124 KTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNREL  171 (401)
T ss_pred             HhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHH
Confidence            344445555555555555555555555555555555555544443333

>PHA02562 46 endonuclease subunit; Provisional

Probab=82.41  E-value=24  Score=36.07  Aligned_cols=31  Identities=16%  Similarity=0.348  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          135 MKKLQYVTDLEKKAKALENQIAMLTPQVSLY  165 (351)
Q Consensus       135 ~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~L  165 (351)
                      ..-+.|+.+++.+++.|+.+...+..++..+
T Consensus       170 ~~~k~~~~e~~~~i~~l~~~i~~l~~~i~~~  200 (562)
T PHA02562        170 KLNKDKIRELNQQIQTLDMKIDHIQQQIKTY  200 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555566666665555555555555533

>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=82.22  E-value=12  Score=32.73  Aligned_cols=66  Identities=21%  Similarity=0.289  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ++.|...+..++.|...|..++..|..+...|..|...|..+.+.+...    ....+.|+.++..|..-
T Consensus        18 ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~----~~~~~~L~~el~~l~~r   83 (120)
T PF12325_consen   18 VERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRAL----KKEVEELEQELEELQQR   83 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444443333211    12234455555555443

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 [].

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

Probab=82.21  E-value=3.8  Score=39.55  Aligned_cols=39  Identities=21%  Similarity=0.354  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          128 VSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       128 eSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      ..+||-|=|++  ..|||.++..+..++..|+.++..|+.+
T Consensus        84 VtsQRDRFR~R--n~ELE~elr~~~~~~~~L~~Ev~~L~~D  122 (248)
T PF08172_consen   84 VTSQRDRFRQR--NAELEEELRKQQQTISSLRREVESLRAD  122 (248)
T ss_pred             HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555544  4777777777766666666665554443

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

>TIGR00219 mreC rod shape-determining protein MreC

Probab=82.08  E-value=3.5  Score=40.12  Aligned_cols=13  Identities=46%  Similarity=0.493  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHH
Q 038341          198 ADNKAEVGRLRQL  210 (351)
Q Consensus       198 E~Lk~EVqRLR~a  210 (351)
                      +.|++|-+|||.+
T Consensus        94 ~~l~~EN~rLr~L  106 (283)
T TIGR00219        94 QNLKQENVRLREL  106 (283)
T ss_pred             HHHHHHHHHHHHH
Confidence            3466777777776

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.

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

Probab=82.06  E-value=13  Score=31.34  Aligned_cols=49  Identities=14%  Similarity=0.217  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLY--QNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~L--q~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .-++.|+.++.......+.+..++..|  ..+.+.|..+-.+++.++..++
T Consensus        35 ~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~   85 (106)
T PF10805_consen   35 EDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELS   85 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHH
Confidence            334444444444444444444444444  4444444444444444444443

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

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=81.96  E-value=10  Score=35.91  Aligned_cols=38  Identities=26%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          169 QEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       169 ~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ...|..||++||.+++.|+.+.    ...+.+++|.++||.+
T Consensus        71 ~~~l~~en~~L~~e~~~l~~~~----~~~~~l~~en~~L~~l  108 (276)
T PRK13922         71 LFDLREENEELKKELLELESRL----QELEQLEAENARLREL  108 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            3445555555555555544321    2235778888888877

>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=81.81  E-value=34  Score=35.23  Aligned_cols=55  Identities=20%  Similarity=0.274  Sum_probs=27.2

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          122 RIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRS  178 (351)
Q Consensus       122 RiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~e  178 (351)
                      +..-+|..|-.+-.|+-.  ++|-.=.+.|+.+..+|..++..|+...+.|..-.++
T Consensus       224 eeeme~~~aeq~slkRt~--EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~e  278 (365)
T KOG2391|consen  224 EEEMERLQAEQESLKRTE--EELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVRE  278 (365)
T ss_pred             HHHHHHHHHHHHHHHhhH--HHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344555555555444333  4444444555555555555555555555555444444

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=81.74  E-value=16  Score=34.55  Aligned_cols=35  Identities=17%  Similarity=0.190  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHh
Q 038341          150 ALENQIAMLTPQVSLYQNMQE---FLQKEQRSLSERMT  184 (351)
Q Consensus       150 ~Lq~ENs~Ls~qv~~Lq~q~~---~L~~EN~eLKqrLq  184 (351)
                      .+..||.+|++++..|+.+..   .|..||.+|+.-|.
T Consensus        73 ~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~  110 (276)
T PRK13922         73 DLREENEELKKELLELESRLQELEQLEAENARLRELLN  110 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344444444444444433333   55666666666543

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

Probab=81.67  E-value=11  Score=42.79  Aligned_cols=66  Identities=17%  Similarity=0.243  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      +.+-|..|+...-.+..|+..|+..+..|.+|.+.|..-++.++.+..-.+..+|.++.+++.|..
T Consensus        90 yRrdv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~  155 (1265)
T KOG0976|consen   90 YRRDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLED  155 (1265)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            334455556666666777777777777777777777777777665544444445544444444433

>PRK12704 phosphodiesterase; Provisional

Probab=81.63  E-value=53  Score=34.91  Aligned_cols=13  Identities=23%  Similarity=0.404  Sum_probs=7.8

Q ss_pred             CCccHHHHHHHhc
Q 038341          261 NGESIEEILRLHQ  273 (351)
Q Consensus       261 ~~~~~~~~~~~~~  273 (351)
                      .|-||.-+-.+.+
T Consensus       229 eGrnir~~e~~tg  241 (520)
T PRK12704        229 EGRNIRALETLTG  241 (520)
T ss_pred             CcchHHHHHHHhC
Confidence            3566666665555

>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []

Probab=81.63  E-value=0.82  Score=38.12  Aligned_cols=49  Identities=20%  Similarity=0.316  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .||..|...+..|..++..|..++..|+.+...+......|+..|...+
T Consensus        25 ~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l~~aq   73 (131)
T PF05103_consen   25 DFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRALIQAQ   73 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhhhhhh
Confidence            6899999999999999999999999998888888877777777664433

Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.

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

Probab=81.52  E-value=46  Score=31.01  Aligned_cols=56  Identities=20%  Similarity=0.194  Sum_probs=30.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ  173 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~  173 (351)
                      ..+++.+++-++-..+=..-+..+..++.++..|+-+...|..++..++++...|.
T Consensus        72 ~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~  127 (201)
T PF13851_consen   72 EELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELY  127 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555444444555555555566666665556555555555555554

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=81.45  E-value=35  Score=35.91  Aligned_cols=14  Identities=14%  Similarity=0.133  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHH
Q 038341          197 IADNKAEVGRLRQL  210 (351)
Q Consensus       197 ~E~Lk~EVqRLR~a  210 (351)
                      .+.+++|+.++..+
T Consensus       212 ~q~r~~ela~r~aa  225 (499)
T COG4372         212 AQARTEELARRAAA  225 (499)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45788888887776

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=81.36  E-value=6  Score=33.41  Aligned_cols=33  Identities=15%  Similarity=0.125  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          156 AMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       156 s~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      .++..++..+++++..|..+|..|+.+|+.|..
T Consensus        30 ~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~   62 (105)
T PRK00888         30 WRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG   62 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            344455555555555555556666666655543

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

Probab=81.25  E-value=8.4  Score=39.52  Aligned_cols=61  Identities=15%  Similarity=0.166  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          147 KAKALENQIAMLTPQVSL--------------YQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~--------------Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      +.+.|+..|..|..++..              |+.-...+..||+.|+.+|+++.+++--++-+...|.+|+...
T Consensus       100 e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~  174 (401)
T PF06785_consen  100 ESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEA  174 (401)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            344555555555555443              4555677888999999999999988876666666666665443

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

Probab=81.24  E-value=11  Score=30.71  Aligned_cols=48  Identities=23%  Similarity=0.257  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      +.|.+||.++..-+.-+.+|...|+..+.....+...-+.|-.|+..+
T Consensus         8 ~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~   55 (72)
T COG2900           8 ARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDL   55 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            357788888877777777777777766665555555555555554444

>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=81.23  E-value=31  Score=30.02  Aligned_cols=72  Identities=17%  Similarity=0.067  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhh-hHHHHHHHHHHH
Q 038341          131 QKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFI-NAEIADNKAEVG  205 (351)
Q Consensus       131 qRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lk-da~~E~Lk~EVq  205 (351)
                      .+|.+--|.-.++|-.+...|++-+..|..+...+.+....|..+..++...|+.   ..+-+ +.....++.|+.
T Consensus        22 e~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~---eK~ak~~l~~r~~k~~~d   94 (107)
T PF09304_consen   22 ERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLED---EKQAKLELESRLLKAQKD   94 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhh
Confidence            3444444455555555555555555555555555555555555555555555544   22223 333444444443

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.

>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=81.17  E-value=4.7  Score=33.61  Aligned_cols=64  Identities=23%  Similarity=0.254  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHHH
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLH  211 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a~  211 (351)
                      ++..|+............+..++..|..|.+.|+.+++--- +..-..++|-.|++|+.||+..+
T Consensus         4 kI~rLE~~~~g~l~~~~~~~~e~~~L~eEI~~Lr~qve~nP-evtr~A~EN~rL~ee~rrl~~f~   67 (86)
T PF12711_consen    4 KIKRLEKLLDGKLPSESYLEEENEALKEEIQLLREQVEHNP-EVTRFAMENIRLREELRRLQSFY   67 (86)
T ss_pred             HHHHHHHHhcCCCCccchhHHHHHHHHHHHHHHHHHHHhCH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334333333333445555666777777777777664321 22223456779999999999983

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.

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=81.07  E-value=21  Score=35.18  Aligned_cols=70  Identities=11%  Similarity=0.152  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      |..+..+++.++.....|......|.........|-...++||++|..-.---=.++|.|.+|++.|=..
T Consensus       171 i~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~  240 (267)
T PF10234_consen  171 IKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEI  240 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555555555666666666677777777632222223477888888766554

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>KOG1265 consensus Phospholipase C [Lipid transport and metabolism]

Probab=80.96  E-value=25  Score=40.31  Aligned_cols=72  Identities=26%  Similarity=0.353  Sum_probs=55.5

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHhhhh
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLY-----QNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~L-----q~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      |-...-|=|.||+--.-+++|.-+|-+++|.+-++|......|+.=+...     .+-...+..|-++||..++.-.
T Consensus      1026 d~~~r~~el~~rq~~el~~~~~~~~~~e~e~k~~hl~~~~~~l~kl~~eaq~~Q~k~LK~~~e~e~kElk~~l~kkr 1102 (1189)
T KOG1265|consen 1026 DNAGRVRELVNRQTQELLEMRREQYEEEFELKEEHLKEQISLLRKLLSEAQTNQTKALKESLEKETKELKKKLDKKR 1102 (1189)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444456789999999999999999999999999999988877655443     3445567778888888776544

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=80.72  E-value=29  Score=34.76  Aligned_cols=93  Identities=16%  Similarity=0.198  Sum_probs=54.2

Q ss_pred             HHHHHHHHhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchh---hh
Q 038341          118 KRLRRIESNRVSAQKSRMKKL-QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIV---FI  193 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKK-qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~---lk  193 (351)
                      +..|.-+.+..++.+++.+.+ +-+.++-.+++.|..+-..+-.+|..+......+...-++|...+..+....-   +.
T Consensus        26 ~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~~~~~~  105 (294)
T COG1340          26 KEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRNEFNLG  105 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence            334456666677766655443 34555566666666666666666666665555555555555555544432222   22


Q ss_pred             hHHHHHHHHHHHHHHHH
Q 038341          194 NAEIADNKAEVGRLRQL  210 (351)
Q Consensus       194 da~~E~Lk~EVqRLR~a  210 (351)
                      -.-.+.|.++|++|...
T Consensus       106 ~~~~~~ler~i~~Le~~  122 (294)
T COG1340         106 GRSIKSLEREIERLEKK  122 (294)
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            23356888899988887

>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin

Probab=80.58  E-value=12  Score=32.90  Aligned_cols=52  Identities=10%  Similarity=0.036  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          159 TPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       159 s~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ..+-..++++......|..+||.||+.|+-+..-.+.+++.|.+.|.-|..+
T Consensus        10 Q~Ew~r~ErdR~~WeiERaEmkarIa~LEGE~r~~e~l~~dL~rrIkMLE~a   61 (134)
T PF08232_consen   10 QTEWHRFERDRNQWEIERAEMKARIAFLEGERRGQENLKKDLKRRIKMLEYA   61 (134)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444445555555555555555555555555555555555555555555

Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].

>KOG4370 consensus Ral-GTPase effector RLIP76 [Signal transduction mechanisms]

Probab=80.30  E-value=5.5  Score=41.96  Aligned_cols=46  Identities=26%  Similarity=0.328  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          156 AMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQLHLYQQQL  217 (351)
Q Consensus       156 s~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a~i~qQqq  217 (351)
                      .+|...+..|+.++..|+..+++|+++|              .++..+|.+||++  |+|++
T Consensus       409 ~el~e~le~Lq~Q~eeL~e~~n~l~qrI--------------~eer~~v~~lkql--~~~~q  454 (514)
T KOG4370|consen  409 EELQEILELLQRQNEELEEKVNHLNQRI--------------AEERERVIELKQL--VNLLQ  454 (514)
T ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH--HHHHh
Confidence            4577778888899999999999999988              5667889999999  66653

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=80.30  E-value=36  Score=33.50  Aligned_cols=76  Identities=9%  Similarity=0.128  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhh-cchhhhhHHHHHHHHHHHHHH
Q 038341          134 RMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQ----NMQEFLQKEQRSLSERMTTYN-NNIVFINAEIADNKAEVGRLR  208 (351)
Q Consensus       134 R~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq----~q~~~L~~EN~eLKqrLqsLe-Qq~~lkda~~E~Lk~EVqRLR  208 (351)
                      ..+-...+..|+.+|..|.+++....++|.+|.    .++-...+....|+.+|+.+. .+..-.+.+.+..+.|...|-
T Consensus        76 eek~e~~l~~Lq~ql~~l~akI~k~~~el~~L~TYkD~EYPvK~vqIa~L~rqlq~lk~~qqdEldel~e~~~~el~~l~  155 (258)
T PF15397_consen   76 EEKEESKLSKLQQQLEQLDAKIQKTQEELNFLSTYKDHEYPVKAVQIANLVRQLQQLKDSQQDELDELNEMRQMELASLS  155 (258)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445556666666666666666666665552    333444445666666666665 222233445555555555444


Q ss_pred             H
Q 038341          209 Q  209 (351)
Q Consensus       209 ~  209 (351)
                      .
T Consensus       156 ~  156 (258)
T PF15397_consen  156 R  156 (258)
T ss_pred             H
Confidence            3

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=80.28  E-value=14  Score=42.33  Aligned_cols=82  Identities=15%  Similarity=0.146  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhhhh-------cc
Q 038341          127 RVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQ----------EFLQKEQRSLSERMTTYN-------NN  189 (351)
Q Consensus       127 ReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~----------~~L~~EN~eLKqrLqsLe-------Qq  189 (351)
                      ++.+++-=+||+.-+++|++..+.|..+...+..+|..|+++.          ..|...|-+|..|+..|+       .-
T Consensus       398 ~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAlGAE~MV~qLtdknlnlEekVklLeetv~dlEal  477 (1243)
T KOG0971|consen  398 HQKLQKELEKKNSELEELRRQKERLSRELDQAESTIADLKEQVDAALGAEEMVEQLTDKNLNLEEKVKLLEETVGDLEAL  477 (1243)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHH
Confidence            5677777788999999999998888888888888888887763          334444445555544444       22


Q ss_pred             hhhhhHHHH-------HHHHHHHHHH
Q 038341          190 IVFINAEIA-------DNKAEVGRLR  208 (351)
Q Consensus       190 ~~lkda~~E-------~Lk~EVqRLR  208 (351)
                      ..+.+-+.|       .|++||.-++
T Consensus       478 ee~~EQL~Esn~ele~DLreEld~~~  503 (1243)
T KOG0971|consen  478 EEMNEQLQESNRELELDLREELDMAK  503 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            223333333       6777776663

>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=80.19  E-value=7.9  Score=38.31  Aligned_cols=66  Identities=17%  Similarity=0.250  Sum_probs=27.2

Q ss_pred             CCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          113 HSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       113 ~~~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      ..+.|||.+--..     ...-......+.+.+.++..++.+...|..+......+...|..+....+.+|
T Consensus       214 ~~V~P~~~~l~~a-----~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl  279 (344)
T PF12777_consen  214 KEVEPKRQKLEEA-----EAELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKL  279 (344)
T ss_dssp             CCCCHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4567777663222     22222233333344444444444444444444433333344444433333333

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.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=80.12  E-value=14  Score=31.93  Aligned_cols=40  Identities=15%  Similarity=0.213  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSER  182 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqr  182 (351)
                      +|=.+|..|+.....|..++..|..+...|..||..|+..
T Consensus         5 elfd~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iE   44 (110)
T PRK13169          5 EIFDALDDLEQNLGVLLKELGALKKQLAELLEENTALRLE   44 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566666666666666666666666666666665443

>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin

Probab=80.03  E-value=13  Score=32.75  Aligned_cols=59  Identities=14%  Similarity=0.234  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ...|+.-..=+.|-++|.++|+.|+.+...+..=|..|+.||.-|+          -+|+.|-..+..+
T Consensus        14 ~r~ErdR~~WeiERaEmkarIa~LEGE~r~~e~l~~dL~rrIkMLE----------~aLkqER~k~~~~   72 (134)
T PF08232_consen   14 HRFERDRNQWEIERAEMKARIAFLEGERRGQENLKKDLKRRIKMLE----------YALKQERAKYKKL   72 (134)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHhhcc
Confidence            3567777777888999999999999999999999999999996665          4666666555544

Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].

---

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	351
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	1e-13
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	1e-11
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	2e-11
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	2e-10
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	2e-09
2wt7_B	90	Transcription factor MAFB; transcription, transcri	7e-08
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	7e-08
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	4e-07
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	3e-06
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	2e-05
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04

>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 = 64.3 bits (157), Expect = 1e-13
 Identities = 20/50 (40%), Positives = 31/50 (62%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN 167
           KR + +E NR +A +SR K+  +V  LEKKA+ L +    L  +V+L +N
Sbjct: 1   KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRN 50

>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 = 58.2 bits (141), Expect = 1e-11
 Identities = 19/53 (35%), Positives = 30/53 (56%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQE 170
           KR  R+  NR +A++SR KK +YV  LE +   LENQ   L  ++   +++  
Sbjct: 1   KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLYS 53

>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 = 57.8 bits (140), Expect = 2e-11
 Identities = 17/50 (34%), Positives = 29/50 (58%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQN 167
           K  R+   NR++A KSR +KL+ +  LE+K K L+ Q + L    ++ + 
Sbjct: 1   KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLRE 50

>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 = 55.2 bits (133), Expect = 2e-10
 Identities = 14/56 (25%), Positives = 30/56 (53%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ 173
           KR  R E N+++A K R ++ +    L+ +   LE++ + L  +++     +E L+
Sbjct: 2   KRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLE 57

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

 Score = 53.5 bits (128), Expect = 2e-09
 Identities = 17/76 (22%), Positives = 35/76 (46%)

Query: 110 NAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQ 169
           + E  +  K+ RR   NR  A   R+K++    +LEK+   L+ ++  L  + +  +   
Sbjct: 29  SKEEIIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLASENASMKLEL 88

Query: 170 EFLQKEQRSLSERMTT 185
           + L+ +  +L     T
Sbjct: 89  DALRSKYEALQNFART 104

>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 = 48.8 bits (116), Expect = 7e-08
 Identities = 18/71 (25%), Positives = 31/71 (43%)

Query: 110 NAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQ 169
             +  +  K+ RR   NR  AQ  R K++Q    LE +   L  Q+  L  +VS     +
Sbjct: 19  TKDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARER 78

Query: 170 EFLQKEQRSLS 180
           +  + +   L+
Sbjct: 79  DAYKVKSEKLA 89

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

 Score = 47.7 bits (114), Expect = 7e-08
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 7/67 (10%)

Query: 118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQR 177
           K+L+++E N+ +A + R KK      L  + K LE +   L  +          L KE +
Sbjct: 2   KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADS-------LAKEIQ 54

Query: 178 SLSERMT 184
            L + + 
Sbjct: 55  YLKDLIE 61

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

 Score = 45.6 bits (108), Expect = 4e-07
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 112 EHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM 168
             S DP  L+R   N  +A++SR +KLQ +  LE K + L ++   L  +V+  + +
Sbjct: 4   PESSDPAALKR-ARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKL 59

>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 = 44.2 bits (104), Expect = 3e-06
 Identities = 12/64 (18%), Positives = 21/64 (32%)

Query: 109 RNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM 168
           +        +   R E N ++ +KSR K      + + K   L  +   L  +V      
Sbjct: 6   KKTVDKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRE 65

Query: 169 QEFL 172
              L
Sbjct: 66  LSTL 69

>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA complex, transcription/DNA complex; HET: DNA; 2.00A {Schizosaccharomyces pombe} SCOP: h.1.3.1 Length = 70

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 13/64 (20%), Positives = 26/64 (40%)

Query: 116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKE 175
                +R   NR + +  R +K  ++  LE +   L+   +  T +    +     L++E
Sbjct: 6   QEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEE 65

Query: 176 QRSL 179
            R L
Sbjct: 66  LRIL 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 = 40.6 bits (95), Expect = 4e-05
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 103 VNTRWTRNAEHSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQV 162
           V ++  +  +   D  ++RR E N ++ +KSR K      + + K   L  +   L  +V
Sbjct: 1   VKSKAKKTVDKHSDEYKIRR-ERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKV 59

Query: 163 SLYQNMQEFL 172
                    L
Sbjct: 60  EQLSRELSTL 69

>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 = 40.6 bits (94), Expect = 7e-04
 Identities = 25/227 (11%), Positives = 65/227 (28%), Gaps = 72/227 (31%)

Query: 69  VNDFDNN-K---TSGNRN------PSPPSEHKMVIPSSG---DDTAAVNTRWTRNAEHSM 115
            N F+ + K   T+  +        +  +   +   S     D+  ++  ++        
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-----DC 313

Query: 116 DPKRLRRIESNRVSAQ------------KSRMKKLQYVTDLEKKAKALENQIAMLTP--- 160
            P+ L R E    + +             +     ++V + +K    +E+ + +L P   
Sbjct: 314 RPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDNWKHV-NCDKLTTIIESSLNVLEPAEY 371

Query: 161 ------------------QV-------SLYQNMQEFLQK-EQRSLSERMTTYNNNIVFIN 194
                              +        +  ++   + K  + SL E+      + + I 
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK--QPKESTISIP 429

Query: 195 AEIADNKAEVGRLRQLHLYQQQLKMLEQ----NGLPVWDCGLDELMN 237
           +   + K ++     LH       +++           D     L  
Sbjct: 430 SIYLELKVKLENEYALH-----RSIVDHYNIPKTFDSDDLIPPYLDQ 471

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	351
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	99.49
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	99.32
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	99.32
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	99.2
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	99.02
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	98.95
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	98.93
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	98.45
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	98.42
2wt7_B	90	Transcription factor MAFB; transcription, transcri	98.2
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	98.19
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	97.65
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.12
1skn_P	92	DNA-binding domain of SKN-1; complex (transcriptio	95.64
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	94.66
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	93.9
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	93.84
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	93.6
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	93.4
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	93.14
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	92.61
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	92.39
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	92.08
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	91.99
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	91.79
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	91.76
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	91.25
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	90.83
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	90.47
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	90.33
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	90.3
3swy_A	46	Cyclic nucleotide-gated cation channel alpha-3; co	90.12
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	90.01
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	89.73
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	89.7
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	89.64
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	89.42
1deb_A	54	APC protein, adenomatous polyposis coli protein; c	89.41
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	89.3
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	89.12
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	89.07
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	89.07
3m48_A	33	General control protein GCN4; leucine zipper, synt	89.02
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	88.69
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	88.29
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	88.03
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	87.92
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	87.86
1kd8_B	36	GABH BLL, GCN4 acid base heterodimer base-D12LA16L	87.51
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	86.95
3c3f_A	34	Alpha/beta peptide with the GCN4-PLI SIDE chain S	86.94
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	86.72
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	86.43
1kd8_A	36	GABH AIV, GCN4 acid base heterodimer acid-D12IA16V	86.03
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	86.01
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	86.0
3swf_A	74	CGMP-gated cation channel alpha-1; coiled-coil, as	85.88
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	85.69
3c3g_A	33	Alpha/beta peptide with the GCN4-PLI SIDE chain S	85.46
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	85.15
2hy6_A	34	General control protein GCN4; protein design, para	85.06
2wq1_A	33	General control protein GCN4; TAA, nucleus, coiled	84.95
2ve7_C	250	Kinetochore protein NUF2, kinetochore protein SPC;	84.64
2bni_A	34	General control protein GCN4; four helix bundle, a	84.5
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	84.11
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	84.07
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	83.88
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	83.87
1uo4_A	34	General control protein GCN4; four helix bundle, c	83.77
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	83.57
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	83.1
2wt7_B	90	Transcription factor MAFB; transcription, transcri	82.86
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	82.08
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	82.01
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	81.98
2kz5_A	91	Transcription factor NF-E2 45 kDa subunit; structu	81.7
1fmh_A	33	General control protein GCN4; coiled coil, leucine	81.65
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	81.49
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	81.38
2c9l_Y	63	EB1, zebra, BZLF1 trans-activator protein; viral p	80.66
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	80.48
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	80.35
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	80.34

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

Probab=99.49  E-value=3.6e-14  Score=105.60  Aligned_cols=51  Identities=37%  Similarity=0.507  Sum_probs=47.6

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      ||.+|+++||+||++||.||++|+++||.+|..|+.||..|..++..|+..
T Consensus         1 kr~rR~~~NResA~rSR~RKk~~~~~LE~~v~~L~~eN~~L~~~~~~L~~~   51 (55)
T 1dh3_A            1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDL   51 (55)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ChHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            689999999999999999999999999999999999999999998887654

>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=99.32  E-value=5.9e-12  Score=94.48  Aligned_cols=55  Identities=38%  Similarity=0.475  Sum_probs=49.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL  172 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L  172 (351)
                      ||.+|+.+||+||++||+||++|+.+||.+|..|+.+|..|..++..|+.++..|
T Consensus         1 kR~~r~erNr~AA~k~R~rKk~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~L   55 (61)
T 1t2k_D            1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQL   55 (61)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6899999999999999999999999999999999999999999987766654444

>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=99.32  E-value=7e-12  Score=94.96  Aligned_cols=57  Identities=25%  Similarity=0.349  Sum_probs=50.4

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          117 PKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ  173 (351)
Q Consensus       117 pKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~  173 (351)
                      +||.+|+.+||+||++||+||++|+.+||.+|..|+.+|..|..++..|+.+...|.
T Consensus         1 Ekr~rrrerNR~AA~rcR~rKk~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk   57 (63)
T 2wt7_A            1 EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLE   57 (63)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            489999999999999999999999999999999999999999999876665544443

>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=99.20  E-value=3.9e-11  Score=90.39  Aligned_cols=55  Identities=33%  Similarity=0.424  Sum_probs=48.2

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL  172 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L  172 (351)
                      |+.+|..+||+||++||+||++|+.+||.+|..|+.+|..|..++..|..++..|
T Consensus         1 K~errr~rNr~AA~k~R~rKk~~~~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~L   55 (62)
T 1jnm_A            1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQL   55 (62)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678889999999999999999999999999999999999999887766554433

>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=99.02  E-value=4.7e-10  Score=85.44  Aligned_cols=48  Identities=27%  Similarity=0.341  Sum_probs=42.3

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          121 RRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       121 KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      ++..+||+||++||+||++|+.+||.+|..|+.+|..|..++..|..+
T Consensus        12 ~KR~rNreAArrsR~RK~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~   59 (63)
T 2dgc_A           12 LKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKL   59 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333569999999999999999999999999999999999888877654

>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=98.95  E-value=1.8e-09  Score=84.25  Aligned_cols=65  Identities=20%  Similarity=0.197  Sum_probs=55.5

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLS  180 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLK  180 (351)
                      ++...||...||.|++..|.||.+||.+||.+|..|+.++..|..++..|..++..|..|+..||
T Consensus         6 ~~~~~kR~~qNR~AQRafReRK~~~i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~lr   70 (70)
T 1gd2_E            6 QEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK   70 (70)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHC-
T ss_pred             cchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            44557888999999999999999999999999999999998888877777777777777777654

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

Probab=98.93  E-value=2.9e-09  Score=80.85  Aligned_cols=55  Identities=25%  Similarity=0.369  Sum_probs=44.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          118 KRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFL  172 (351)
Q Consensus       118 KR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L  172 (351)
                      |+.++..+||.||+|+|.||++++++||.+++.|+.+|..|..++..|+.++..|
T Consensus         2 k~~rKr~rNr~AA~R~R~KKk~~~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~L   56 (63)
T 1ci6_A            2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYL   56 (63)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788899999999999999999999999999999999999999987776655544

>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=98.45  E-value=1.2e-06  Score=69.55  Aligned_cols=58  Identities=19%  Similarity=0.106  Sum_probs=47.6

Q ss_pred             CCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          114 SMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEF  171 (351)
Q Consensus       114 ~~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~  171 (351)
                      ..|++-..|..+|.+||++||+++++...+++.+|..|+.||..|..+|..|..+...
T Consensus        11 k~d~~Y~~rR~rNN~AakrSR~krk~r~~e~~~r~~~L~~eN~~L~~~v~~L~~E~~~   68 (78)
T 1gu4_A           11 KHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELST   68 (78)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666667899999999999999999999999999999999888888665444333

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

Probab=98.42  E-value=1.6e-06  Score=70.13  Aligned_cols=59  Identities=19%  Similarity=0.107  Sum_probs=48.6

Q ss_pred             CCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          113 HSMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEF  171 (351)
Q Consensus       113 ~~~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~  171 (351)
                      ...|++-..|..+|.+||++||+++++...+++.+|..|+.||..|..+|..|..+...
T Consensus        10 dk~d~~Y~~rR~rNN~AarrSR~krk~r~~e~~~r~~~Le~EN~~Lr~~v~~L~~E~~~   68 (87)
T 1hjb_A           10 DKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELST   68 (87)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34466677778899999999999999999999999999999999888888665444333

>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=98.20  E-value=7.5e-06  Score=66.72  Aligned_cols=65  Identities=26%  Similarity=0.283  Sum_probs=52.2

Q ss_pred             CCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          115 MDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       115 ~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ...|..||-++||-+|+.+|.||...+.+||..+..|..+...|.       +++..+..|...+|+++++|
T Consensus        24 ~~lKq~RRtlKNRgyAq~CR~Kr~~q~~~LE~e~~~L~~e~~~L~-------~e~~~~~~e~d~~k~k~~~L   88 (90)
T 2wt7_B           24 IRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLK-------QEVSRLARERDAYKVKSEKL   88 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHh
Confidence            356889999999999999999999999999988877766655555       45556667777888887766

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

Probab=98.19  E-value=3.6e-08  Score=82.52  Aligned_cols=44  Identities=30%  Similarity=0.395  Sum_probs=37.3

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLT  159 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls  159 (351)
                      ..|..||.++||.+|+.||.||++.+.+||.++..|+.+...|.
T Consensus        35 ~lK~~RR~lKNR~yAq~CR~rk~~~~~~LE~e~~~L~~e~e~L~   78 (107)
T 3a5t_A           35 QLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLA   78 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTTTTTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46999999999999999999999999999998876665554433

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

Probab=97.65  E-value=7.7e-05  Score=53.24  Aligned_cols=36  Identities=33%  Similarity=0.523  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          138 LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQ  173 (351)
Q Consensus       138 KqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~  173 (351)
                      |+|+.+||.+++.|+..|++|..+++.|++++.+|.
T Consensus         2 KaYl~eLE~r~k~le~~naeLEervstLq~EN~mLR   37 (42)
T 2oqq_A            2 SAYLSELENRVKDLENKNSELEERLSTLQNENQMLR   37 (42)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            689999999999999999999999988777666554

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

Probab=96.12  E-value=0.05  Score=43.58  Aligned_cols=59  Identities=15%  Similarity=0.193  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEV  204 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EV  204 (351)
                      .-++.||.||+.+-..+.-|.-++..|..++..|..++.+++...+.|.+       .++.|+.|.
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~-------en~qLk~E~   64 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELER-------ENNHLKEQQ   64 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH-------HHHHHHHHH
Confidence            35788999999988888888888888888888888888888777655543       345555554

>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=95.64  E-value=0.0043  Score=50.74  Aligned_cols=32  Identities=19%  Similarity=0.313  Sum_probs=26.9

Q ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 038341          116 DPKRLRRIESNRVSAQKSRMKKLQYVTDLEKK  147 (351)
Q Consensus       116 DpKR~KRiLkNReSAqRSR~RKKqYIeELE~k  147 (351)
                      ..|.+||..+||.+|+++|+||..-+..|+..
T Consensus        60 ~ir~~RRR~KNr~AA~~CRkrK~~~~d~l~~~   91 (92)
T 1skn_P           60 LIRKIRRRGKNKVAARTCRQRRTDRHDKMSHY   91 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTTC---
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHhhhcc
Confidence            46889999999999999999999999888753

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

Probab=94.66  E-value=0.24  Score=39.92  Aligned_cols=64  Identities=20%  Similarity=0.337  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHH
Q 038341          146 KKAKALENQIAMLTPQVSLYQNMQ-----EFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQ  209 (351)
Q Consensus       146 ~kVq~Lq~ENs~Ls~qv~~Lq~q~-----~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~  209 (351)
                      .||..|+.+|..|..++..++.+.     .....+...|+.+|..+..+..--+.....|..++.+||.
T Consensus        23 dKVR~LEqqN~~Le~~i~~l~~~~~~~~~~~ye~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~~k~   91 (93)
T 3s4r_A           23 DKVRFLEQQNKILLAELEQLKGQGKSRLGDLYEEEMRELRRQVDQLTNDKARVEVERDNLAEDIMRLRE   91 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            356666777777777666665432     2345666777777777766655555556667777777664

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

Probab=93.90  E-value=1.4  Score=43.31  Aligned_cols=69  Identities=19%  Similarity=0.153  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +.|++.++.++.+.+.+..++..++++...+..+.+.|++++..+++.........+++++|++.++.-
T Consensus       505 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~  573 (597)
T 3oja_B          505 DNLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQK  573 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence            555666666666666666666666666666666666666666666666656666677888888887776

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

Probab=93.84  E-value=0.45  Score=38.10  Aligned_cols=42  Identities=26%  Similarity=0.303  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .-|.-+|..|+.+|..|..++..++.....|..||..|++..
T Consensus        23 ~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~   64 (81)
T 2jee_A           23 TLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQ   64 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            334445555555555555555555555555566666665554

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

Probab=93.60  E-value=0.34  Score=41.61  Aligned_cols=54  Identities=19%  Similarity=0.198  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          135 MKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       135 ~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      .+.++..+.|+.+++.+..|+..|..++..++.+...+..++.+|+.++..|+.
T Consensus        71 ~k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~  124 (138)
T 3hnw_A           71 FKAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQK  124 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555778888888888888888888888888888888888888887766553

>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=93.40  E-value=0.32  Score=37.22  Aligned_cols=40  Identities=23%  Similarity=0.176  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLS  180 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLK  180 (351)
                      +..=|.||++|-.-|+.|+.++..+++..+.|..||..|+
T Consensus        22 LaaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~~Lr   61 (63)
T 2w6a_A           22 LATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENLQLR   61 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhhhhc
Confidence            3456889999999999999999999999999999999887

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

Probab=92.61  E-value=0.32  Score=38.23  Aligned_cols=50  Identities=14%  Similarity=0.092  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN  188 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ  188 (351)
                      ..|.+||.++..++.-+.+|...|..-+++...|..+.+.|..|+.+++.
T Consensus        14 ~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~~   63 (78)
T 3efg_A           14 ARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRS   63 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            46789999999999999999999999999999999988888888877663

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

Probab=92.39  E-value=3.7  Score=33.18  Aligned_cols=70  Identities=14%  Similarity=0.161  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          138 LQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSER-------MTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       138 KqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqr-------LqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      ....+.+|.+++.++.++..+..+|..|++.+..|..+-..+..+       |..-++...-.++....|.+.|+-|
T Consensus        22 ~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~Rriqll   98 (101)
T 3u1c_A           22 LDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLV   98 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555555555555555554444444444       4433333333344555666655544

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

Probab=92.08  E-value=2.7  Score=40.49  Aligned_cols=70  Identities=19%  Similarity=0.235  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHH
Q 038341          139 QYVTDLEKKAKALENQIAMLTPQVSLYQNMQEF----LQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLR  208 (351)
Q Consensus       139 qYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~----L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR  208 (351)
                      .+...|++++..++.--..+++|-....+....    |..+..+-..||+.|+.+..-.++.++.+..||+|||
T Consensus       397 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  470 (471)
T 3mq9_A          397 NVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLR  470 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            455556666666666666666655554444333    3333333334777777777667777778888888876

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

Probab=91.99  E-value=1.4  Score=40.03  Aligned_cols=47  Identities=15%  Similarity=0.176  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      +..|+..+..|...+..|..++..|...++.|....+....-|+.++
T Consensus        90 ~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e  136 (189)
T 2v71_A           90 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFE  136 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHH
Confidence            66677777777777777777777777777777766666555544444

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

Probab=91.79  E-value=1  Score=36.05  Aligned_cols=62  Identities=15%  Similarity=0.249  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEV  204 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EV  204 (351)
                      +.-.+.+.|-.|+..|+-+|+.+..+...-....+.=|..|+.|.++...+++.++.|..++
T Consensus        16 e~~~~~E~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l   77 (81)
T 3qh9_A           16 EKQRKAEELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQL   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            33344556777888888888888888888877777888889999999889999888888876

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

Probab=91.76  E-value=4.3  Score=36.99  Aligned_cols=31  Identities=6%  Similarity=0.041  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          133 SRMKKLQYVTDLEKKAKALENQIAMLTPQVS  163 (351)
Q Consensus       133 SR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~  163 (351)
                      .-.+.+.-+.+++.++..++.+...++.++.
T Consensus        47 ~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~   77 (256)
T 3na7_A           47 AILNLEEEKLALKLQVSKNEQTLQDTNAKIA   77 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444444443333333

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

Probab=91.25  E-value=0.96  Score=32.53  Aligned_cols=21  Identities=33%  Similarity=0.477  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQ  161 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~q  161 (351)
                      +.+||.+|..|+.||..|..+
T Consensus         5 vaqlenevaslenenetlkkk   25 (49)
T 3he5_A            5 VAQLENEVASLENENETLKKK   25 (49)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccHHHHHh
Confidence            456677776666666665544

>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=90.83  E-value=0.64  Score=38.67  Aligned_cols=47  Identities=21%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          157 MLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       157 ~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      .|..+++.++.++..|.......-.+|..|+       +..+.|+.|-++|++-
T Consensus        41 ~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe-------~everL~~ENq~L~~e   87 (104)
T 3s9g_A           41 ELEKSLSRMEDENNRLRLESKRLDARVRELE-------LELDRLRAENLQLLTE   87 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchhhHHHHH-------HHHHHHHHHHHHHHHH
Confidence            3333333333333333333344444444443       2346666666666554

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

Probab=90.47  E-value=2.5  Score=38.33  Aligned_cols=12  Identities=8%  Similarity=0.160  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHH
Q 038341          198 ADNKAEVGRLRQ  209 (351)
Q Consensus       198 E~Lk~EVqRLR~  209 (351)
                      ..|.+||..||.
T Consensus        91 ~~Lq~el~~l~~  102 (189)
T 2v71_A           91 SVLEDDLSQTRA  102 (189)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            344444444443

>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=90.33  E-value=2.9  Score=41.10  Aligned_cols=25  Identities=12%  Similarity=0.147  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          159 TPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       159 s~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .+.+..++++...+..+++.+++++
T Consensus       508 ~~~~~~~~~~~~~~~~~~~~~~~~~  532 (597)
T 3oja_B          508 NKVFTHLKERQAFKLRETQARRTEA  532 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHhh
Confidence            3333333333333444444444333

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

Probab=90.30  E-value=3.1  Score=45.75  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEF  171 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~  171 (351)
                      +|..|+.|+.+|..++..+..+...
T Consensus       985 ~v~~L~~e~~~l~~~~~~~~ke~~~ 1009 (1080)
T 2dfs_A          985 RVLSLQEEIAKLRKELHQTQTEKKT 1009 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

>3swy_A Cyclic nucleotide-gated cation channel alpha-3; coiled-coil, assembly domain, transport protein; 1.90A {Homo sapiens}

Probab=90.12  E-value=1  Score=32.61  Aligned_cols=44  Identities=16%  Similarity=0.271  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          143 DLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      +||.+|..|+.-...|..+++-|-.++.   .-...||+||..|+.+
T Consensus         2 dlEekv~~Le~~ld~LqTr~ArLlae~~---ssq~KlKqRit~lE~~   45 (46)
T 3swy_A            2 ALEEKVEQLGSSLDTLQTRFARLLAEYN---ATQMKMKQRLSQLESQ   45 (46)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhc
Confidence            5677777777777667766666655443   3357899999888753

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

Probab=90.01  E-value=3  Score=32.61  Aligned_cols=45  Identities=22%  Similarity=0.158  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      .++..+++.++.+|..|..+|..++++...-..+...++..|..+
T Consensus         3 ~~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~   47 (72)
T 3cve_A            3 HNSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTL   47 (72)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677888888888888888888877777666666666666544

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

Probab=89.73  E-value=1.5  Score=34.86  Aligned_cols=45  Identities=18%  Similarity=0.172  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      +++..+++.++.+|..|..+|..|+++...-..+...++..|..+
T Consensus         9 e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l   53 (79)
T 3cvf_A            9 EETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRA   53 (79)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666666666666666666665555555555555444

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

Probab=89.70  E-value=1.3  Score=31.69  Aligned_cols=37  Identities=24%  Similarity=0.226  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .+..|+....+|..+++.|++....|..||.-|++-|
T Consensus         4 Yl~eLE~r~k~le~~naeLEervstLq~EN~mLRqvl   40 (42)
T 2oqq_A            4 YLSELENRVKDLENKNSELEERLSTLQNENQMLRHIL   40 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHh
Confidence            4667777777788888888777778888877777655

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

Probab=89.64  E-value=1.1  Score=33.53  Aligned_cols=36  Identities=22%  Similarity=0.265  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          161 QVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       161 qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      +...|..+...|..+|.+|+.+|              +.|+.|+..||.+
T Consensus        24 ~~~~le~~~~~L~~~N~~L~~~i--------------~~L~~E~~~Lk~l   59 (63)
T 1ci6_A           24 EQEALTGECKELEKKNEALKERA--------------DSLAKEIQYLKDL   59 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence            44556666667777777777776              4455666666655

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

Probab=89.42  E-value=3.1  Score=33.40  Aligned_cols=34  Identities=24%  Similarity=0.215  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          163 SLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       163 ~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ..++.....|..||..|+.+|              +.|++|+..||.+
T Consensus        39 ~e~~~r~~~Le~EN~~Lr~~v--------------~~L~~E~~~Lr~l   72 (87)
T 1hjb_A           39 LETQHKVLELTAENERLQKKV--------------EQLSRELSTLRNL   72 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence            445566677788888888777              6788899999988

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

Probab=89.41  E-value=1.7  Score=32.29  Aligned_cols=42  Identities=21%  Similarity=0.225  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      +.|-++|+.|..||+.|+.++..-..+...|..|-..+|.=+
T Consensus         6 dQL~~QVe~Lk~ENshLrrEL~dNS~~lskLE~ets~mKevl   47 (54)
T 1deb_A            6 DQLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVL   47 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHhhHHHHHHHHhhhhhHHHHH
Confidence            678889999999999999999888888888888877666544

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

Probab=89.30  E-value=7.5  Score=31.35  Aligned_cols=26  Identities=8%  Similarity=0.110  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          161 QVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       161 qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ++..+...+..+..|...|..+|+.+
T Consensus        31 ~~k~~e~~~~~~E~Ei~sL~kk~~~l   56 (101)
T 3u1c_A           31 DKKAAEERSKQLEDDIVQLEKQLRVT   56 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            33333333334444444444444433

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=89.12  E-value=7.1  Score=31.43  Aligned_cols=46  Identities=9%  Similarity=0.160  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      ..|+..+..|..+-..|..++..|.++...+..+...++.....|.
T Consensus         7 ~~l~~eL~~l~~eE~~L~~eL~~lEke~~~l~~el~~le~E~~~L~   52 (96)
T 3q8t_A            7 EQLQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAERLD   52 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            4555666666666666666666666666666666666655555554

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

Probab=89.07  E-value=7.6  Score=31.09  Aligned_cols=53  Identities=15%  Similarity=0.109  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          134 RMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       134 R~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ...-....+.+|.+++.++.++..+..++..|++.+..|..+-..+..++...
T Consensus        18 ~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a   70 (101)
T 3u59_A           18 KENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEA   70 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334445556666666666666666666666655555555555554444433

>2oxj_A Hybrid alpha/beta peptide based on the GCN4-P1 Se heptad positions B and F substituted...; helix bundle, foldamer, unknown function; HET: B3K B3D B3E B3S B3Y B3X B3A BAL; 2.00A {Synthetic} PDB: 2oxk_A*

Probab=89.07  E-value=0.5  Score=32.33  Aligned_cols=28  Identities=21%  Similarity=0.169  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.||..|-.+|.+|..+|..|+.
T Consensus         2 RMnQLE~kVEeLl~~n~~Le~eV~rLk~   29 (34)
T 2oxj_A            2 RMXQLEXKVXELLXKNXHLEXEVXRLKX   29 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            4678999999999999888888877653

>3m48_A General control protein GCN4; leucine zipper, synthetic peptide, alpha helix, activa amino-acid biosynthesis, DNA-binding, nucleus; 1.45A {Synthetic} PDB: 3i1g_A 2ahp_A* 2o7h_A

Probab=89.02  E-value=0.44  Score=32.48  Aligned_cols=27  Identities=22%  Similarity=0.238  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      +.+||.||..|-.+|+.|..+|.-|+.
T Consensus         2 M~QLE~kVEeLl~~n~~Le~EV~RLk~   28 (33)
T 3m48_A            2 MAQLEAKVEELLSKNWNLENEVARLKK   28 (33)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            568999999999999999988877653

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

Probab=88.69  E-value=3.4  Score=45.46  Aligned_cols=43  Identities=21%  Similarity=0.338  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          145 EKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       145 E~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      |.+++.++.+...|..+++.++.+...+..|+..|+++++.+.
T Consensus       976 ~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~ 1018 (1080)
T 2dfs_A          976 EEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK 1018 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555555555556666555555554443

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

Probab=88.29  E-value=0.51  Score=37.56  Aligned_cols=38  Identities=24%  Similarity=0.323  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHH
Q 038341          170 EFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRL  207 (351)
Q Consensus       170 ~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRL  207 (351)
                      ..+..+|..|+.+|..+++...-.....+.++.|+.+|
T Consensus        16 q~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l   53 (79)
T 3cvf_A           16 QDLETRNAELEHQLRAMERSLEEARAERERARAEVGRA   53 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555666655554444444455666666554

>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=88.03  E-value=3  Score=32.84  Aligned_cols=34  Identities=24%  Similarity=0.215  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          163 SLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       163 ~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      ..+......|..||..|+.+|              +.|++|+..||.+
T Consensus        39 ~e~~~r~~~L~~eN~~L~~~v--------------~~L~~E~~~Lr~l   72 (78)
T 1gu4_A           39 LETQHKVLELTAENERLQKKV--------------EQLSRELSTLRNL   72 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence            345556667777777777776              5677888888876

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=87.92  E-value=1.6  Score=34.60  Aligned_cols=17  Identities=18%  Similarity=0.389  Sum_probs=11.6

Q ss_pred             hHHHHHHHHHHHHHHHH
Q 038341          194 NAEIADNKAEVGRLRQL  210 (351)
Q Consensus       194 da~~E~Lk~EVqRLR~a  210 (351)
                      ++..+.|++||.-||..
T Consensus        69 E~kvesL~eEl~fLkk~   85 (86)
T 3swk_A           69 ERKVESLQEEIAFLKKL   85 (86)
T ss_dssp             HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhc
Confidence            34457888888777754

>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=87.86  E-value=2.2  Score=35.25  Aligned_cols=16  Identities=38%  Similarity=0.472  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHH
Q 038341          195 AEIADNKAEVGRLRQL  210 (351)
Q Consensus       195 a~~E~Lk~EVqRLR~a  210 (351)
                      -..+.|++|+++||..
T Consensus        75 ~~~e~Lq~E~erLr~~   90 (100)
T 1go4_E           75 EDHSQLQAECERLRGL   90 (100)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3567999999999986

>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=87.51  E-value=0.71  Score=31.95  Aligned_cols=28  Identities=21%  Similarity=0.316  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.+|+.|-.+++.|..+|..|+.
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            4678999999999999999988887755

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

Probab=86.95  E-value=10  Score=30.27  Aligned_cols=81  Identities=14%  Similarity=0.112  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHH
Q 038341          127 RVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGR  206 (351)
Q Consensus       127 ReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqR  206 (351)
                      .+.|..--..-..-+.++|.+...++.++..|..++..++.+...+...-......|..-++...-.++....|.+.|+-
T Consensus        18 ~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~~~~AE~evasLnRriql   97 (101)
T 3u59_A           18 KENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRRIQL   97 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555555666777788888888888888888888888888877777777777777666655556666677777654


Q ss_pred             H
Q 038341          207 L  207 (351)
Q Consensus       207 L  207 (351)
                      |
T Consensus        98 l   98 (101)
T 3u59_A           98 V   98 (101)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3c3f_A Alpha/beta peptide with the GCN4-PLI SIDE chain S AN (alpha-alpha-alpha-beta) backbone...; helix bundle, foldamer, unknown function, de novo protein; HET: B3K B3D B3E BIL B3L BAL; 2.00A {Synthetic} SCOP: h.1.3.1

Probab=86.94  E-value=0.82  Score=31.28  Aligned_cols=28  Identities=7%  Similarity=0.063  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.||+.|-.++..|..+|+.|+.
T Consensus         2 RMnQLEdKVEeLl~~~~~Le~EV~RLk~   29 (34)
T 3c3f_A            2 RMXQIEXKLEXILSXLYHXENEXARIXK   29 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            4678999999999999999988877654

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

Probab=86.72  E-value=4  Score=34.92  Aligned_cols=10  Identities=10%  Similarity=0.245  Sum_probs=4.2

Q ss_pred             HHHHHHHHHH
Q 038341          198 ADNKAEVGRL  207 (351)
Q Consensus       198 E~Lk~EVqRL  207 (351)
                      ..|.+++.+|
T Consensus       120 ~~l~~~~~~l  129 (138)
T 3hnw_A          120 NKYQKNIVKL  129 (138)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3444444444

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=86.43  E-value=3.9  Score=42.40  Aligned_cols=48  Identities=13%  Similarity=0.154  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          136 KKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       136 RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .+.+|.++||++++.|+.++..-..++..|+.....+..+.+.|...|
T Consensus       107 tynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          107 TYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555555554444433444444444444444444444433

>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=86.03  E-value=0.79  Score=31.74  Aligned_cols=29  Identities=21%  Similarity=0.302  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      .+.+||.+|+.|-.+++.|..+|..|+.-
T Consensus         2 RMnQLE~kVEeLl~~~~~Le~EV~RL~~l   30 (36)
T 1kd8_A            2 EVKQLEAEVEEIESEVWHLENEVARLEKE   30 (36)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            35789999999999999999888777653

>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=86.01  E-value=2.5  Score=34.88  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTPQVSL  164 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~qv~~  164 (351)
                      .|..++..|+.|+..|+.++..
T Consensus        16 ~lr~ei~~Le~E~~rLr~~~~~   37 (100)
T 1go4_E           16 TLRLKVEELEGERSRLEEEKRM   37 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444333

>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=86.00  E-value=3.5  Score=35.15  Aligned_cols=15  Identities=27%  Similarity=0.370  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHHHH
Q 038341          169 QEFLQKEQRSLSERM  183 (351)
Q Consensus       169 ~~~L~~EN~eLKqrL  183 (351)
                      ...|..|+..|+++|
T Consensus        73 vqeLqgEI~~Lnq~L   87 (121)
T 3mq7_A           73 VEELEGEITTLNHKL   87 (121)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444444443

>3swf_A CGMP-gated cation channel alpha-1; coiled-coil, assembly domain, transport protein; 2.14A {Bos taurus}

Probab=85.88  E-value=1.6  Score=34.38  Aligned_cols=45  Identities=22%  Similarity=0.312  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      ++||.+|..|+.-...|..+++-|..++.   .-...||+||..|+..
T Consensus         3 ~dlEEKv~~LE~sld~LQTrfARLLaEy~---ssQ~KLKqRit~LE~~   47 (74)
T 3swf_A            3 MGLEEKVTRMESSVDLLQTRFARILAEYE---SMQQKLKQRLTKVEKF   47 (74)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence            45777777777777777766666655443   3357899999888753

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

Probab=85.69  E-value=20  Score=32.52  Aligned_cols=41  Identities=15%  Similarity=0.139  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          144 LEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       144 LE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      |+.++..++.++..|..++..+..+...+..+-..++.+++
T Consensus        95 L~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~  135 (256)
T 3na7_A           95 LNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEML  135 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333

>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=85.46  E-value=1.5  Score=29.90  Aligned_cols=27  Identities=7%  Similarity=0.126  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      +.+||.||+.|-.++..|..+|+.|+.
T Consensus         2 MnQLEdKvEeLl~~~~~Le~EV~RLk~   28 (33)
T 3c3g_A            2 MKXIEXKLXEIXSKXYHXENXLARIKX   28 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            578999999999999999888877653

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=85.15  E-value=19  Score=31.66  Aligned_cols=64  Identities=9%  Similarity=0.215  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhhcchhhhhHHHHHHHHHHHHHHHH
Q 038341          145 EKKAKALENQIAMLTPQVSLYQNMQEFLQKE---QRSLSERMTTYNNNIVFINAEIADNKAEVGRLRQL  210 (351)
Q Consensus       145 E~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~E---N~eLKqrLqsLeQq~~lkda~~E~Lk~EVqRLR~a  210 (351)
                      |..+..++.|..+|++.+  +.+.|.+...+   ...++.|...|+.+..=++...+.|..++.+||.+
T Consensus        78 E~~~~~ie~ElEeLTasL--FeEAN~MVa~ar~~~~~~e~r~~~L~~ql~e~~~~l~~lq~ql~~LK~v  144 (154)
T 2ocy_A           78 EEEADKLNKEVEDLTASL--FDEANNMVADARKEKYAIEILNKRLTEQLREKDTLLDTLTLQLKNLKKV  144 (154)
T ss_dssp             HTHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555556665555432  33333333222   22345555556555566677888999999999987

>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=85.06  E-value=1.1  Score=30.73  Aligned_cols=28  Identities=18%  Similarity=0.151  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.+|+.|-.++..|..+|..|+.
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            4578999999999999999988877754

>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=84.95  E-value=1.6  Score=29.72  Aligned_cols=27  Identities=19%  Similarity=0.197  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      +.+||.||+.|-.++..|..+|..|+.
T Consensus         2 MnQLEdKVEell~~~~~le~EV~Rl~~   28 (33)
T 2wq1_A            2 MKQLEDKIEENTSKIYHNTNEIARNTK   28 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            578999999999999999988877653

>2ve7_C Kinetochore protein NUF2, kinetochore protein SPC; mitosis, centromere, cell cycle, microtubule, C division, calponin homology; 2.88A {Homo sapiens} PDB: 3iz0_D*

Probab=84.64  E-value=0.72  Score=42.81  Aligned_cols=62  Identities=11%  Similarity=0.038  Sum_probs=30.7

Q ss_pred             CCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038341          114 SMDPKRLRRIESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNN  189 (351)
Q Consensus       114 ~~DpKR~KRiLkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq  189 (351)
                      ..++||.||+|+-=.-=.+-|+-|..-++++=.       +..++..+       ...|..||++++.+|+.|+.+
T Consensus       116 kP~~~Rt~~iLSalINF~~FRE~~~~~~~e~~~-------~~e~~~~~-------i~ql~~En~~le~~Ie~Lk~e  177 (250)
T 2ve7_C          116 CPKAKRTSRFLSGIINFIHFREACRETYMEFLW-------QYKSSADK-------MQQLNAAHQEALMKLERLEKE  177 (250)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTHHHHH-------HHHHHHHHHHHHHSCC-----
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence            457999999987555445555444443322222       22233333       344455566666667666544

>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=84.50  E-value=1.2  Score=30.55  Aligned_cols=28  Identities=7%  Similarity=0.146  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.||+.|-.++..|..+|+.|+.
T Consensus         2 RMnQLEdKvEeLl~~~~~L~~EV~RLk~   29 (34)
T 2bni_A            2 RMKQIEDKLEEILSKGHHICNELARIKK   29 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            4678999999999999999888877653

>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=84.11  E-value=1.3  Score=34.23  Aligned_cols=21  Identities=10%  Similarity=0.188  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhh
Q 038341          167 NMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       167 ~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .+...|..+|..|+.+|.+|.
T Consensus        61 ~e~~~L~~~~~~L~~~l~~L~   81 (83)
T 1nkp_B           61 QDIDDLKRQNALLEQQVRALG   81 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHHHHHhc
Confidence            344455556666777776654

>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=84.07  E-value=6.2  Score=32.84  Aligned_cols=41  Identities=22%  Similarity=0.187  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Q 038341          143 DLEKKAKALENQIAMLTP-------QVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       143 ELE~kVq~Lq~ENs~Ls~-------qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      +||+++..++.|+..|+.       +|..|..+...|.+||+.|++.=
T Consensus        41 ~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe~everL~~ENq~L~~e~   88 (104)
T 3s9g_A           41 ELEKSLSRMEDENNRLRLESKRLDARVRELELELDRLRAENLQLLTEN   88 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            577777777777766665       66666666666666666665543

>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=83.88  E-value=4.2  Score=29.79  Aligned_cols=10  Identities=40%  Similarity=0.468  Sum_probs=4.1

Q ss_pred             HHHHHHHHHH
Q 038341          198 ADNKAEVGRL  207 (351)
Q Consensus       198 E~Lk~EVqRL  207 (351)
                      +.|++||++|
T Consensus        40 ~~Lkeele~L   49 (51)
T 3m91_A           40 LALREEVDRL   49 (51)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            3344444433

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

Probab=83.87  E-value=7.8  Score=47.48  Aligned_cols=59  Identities=17%  Similarity=0.232  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhHHHHHHHHHHHH
Q 038341          148 AKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNNNIVFINAEIADNKAEVGR  206 (351)
Q Consensus       148 Vq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQq~~lkda~~E~Lk~EVqR  206 (351)
                      ++..+.+..+|.++++.|+.+...+..|...|+.+++..+......+.++..|..|-.|
T Consensus      2030 L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek~R 2088 (3245)
T 3vkg_A         2030 QDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGR 2088 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Confidence            33344445555555556666666666666666666666554444444444444444433

>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=83.77  E-value=1.3  Score=30.30  Aligned_cols=28  Identities=7%  Similarity=0.241  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQN  167 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~  167 (351)
                      .+.+||.||+.|-.+|..|..+|.-|+.
T Consensus         2 RM~QLEdKVEeLl~~n~~Le~EV~RLk~   29 (34)
T 1uo4_A            2 RMKQIEDKGEEILSKLYHIENELARIKK   29 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3578999999999999999888877643

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

Probab=83.57  E-value=12  Score=32.89  Aligned_cols=38  Identities=24%  Similarity=0.214  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          146 KKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       146 ~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      .-++.|+.|...|..++..++.....|..||..|-+|.
T Consensus        96 K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RW  133 (152)
T 3a7p_A           96 KNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARW  133 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33556666666666666667777777777776665554

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

Probab=83.10  E-value=19  Score=32.13  Aligned_cols=81  Identities=19%  Similarity=0.206  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-----chhhhhH--HHHHH
Q 038341          128 VSAQKSRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYNN-----NIVFINA--EIADN  200 (351)
Q Consensus       128 eSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLeQ-----q~~lkda--~~E~L  200 (351)
                      ++=.-.|.||.+  .||-..++.++..+.+|..++..|+.....|..|...|...|..=..     ...++|.  -+..|
T Consensus        25 EsE~~~rlkK~~--tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L  102 (168)
T 3o0z_A           25 ESDTAVRLRKSH--TEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSL  102 (168)
T ss_dssp             HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445556655  77777888888888888888888888888887777777666654331     1122222  24578


Q ss_pred             HHHHHHHHHH
Q 038341          201 KAEVGRLRQL  210 (351)
Q Consensus       201 k~EVqRLR~a  210 (351)
                      ..|+.|+|..
T Consensus       103 ~~El~~~k~~  112 (168)
T 3o0z_A          103 QEEVKHLKHN  112 (168)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888888876

>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=82.86  E-value=12  Score=30.31  Aligned_cols=12  Identities=8%  Similarity=-0.022  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHH
Q 038341          198 ADNKAEVGRLRQ  209 (351)
Q Consensus       198 E~Lk~EVqRLR~  209 (351)
                      ..+..|+..+++
T Consensus        72 ~~~~~e~d~~k~   83 (90)
T 2wt7_B           72 SRLARERDAYKV   83 (90)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            344444444444

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

Probab=82.08  E-value=0.91  Score=42.86  Aligned_cols=13  Identities=38%  Similarity=0.345  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHH
Q 038341          198 ADNKAEVGRLRQL  210 (351)
Q Consensus       198 E~Lk~EVqRLR~a  210 (351)
                      +.|++||++|++-
T Consensus        85 ~~LkeElerL~sP   97 (251)
T 3m9b_A           85 LALREEVDRLGQP   97 (251)
T ss_dssp             HHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhcCC
Confidence            6777888887764

>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=82.01  E-value=2.8  Score=30.71  Aligned_cols=30  Identities=17%  Similarity=0.321  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          148 AKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       148 Vq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      |..|+.||.+|+.+       +..|..++.+|+.+|.
T Consensus        21 ~eaLk~E~~eLk~k-------~~~L~~~~~el~~~l~   50 (53)
T 2yy0_A           21 IELLRLELAEMKEK-------YEAIVEENKKLKAKLA   50 (53)
T ss_dssp             HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHh
Confidence            44444444444444       4455556666666654

>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=81.98  E-value=12  Score=27.36  Aligned_cols=22  Identities=18%  Similarity=0.143  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 038341          162 VSLYQNMQEFLQKEQRSLSERM  183 (351)
Q Consensus       162 v~~Lq~q~~~L~~EN~eLKqrL  183 (351)
                      +..|+.+...|..+|..|+.+|
T Consensus        24 ~~~Le~~~~~L~~~n~~L~~~i   45 (61)
T 1t2k_D           24 VQSLEKKAEDLSSLNGQLQSEV   45 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555566666665555

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

Probab=81.70  E-value=0.12  Score=42.18  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=21.4

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHH
Q 038341          117 PKRLRRIESNRVSAQKSRMKKLQY  140 (351)
Q Consensus       117 pKR~KRiLkNReSAqRSR~RKKqY  140 (351)
                      -+.+||.-+||.+|+++|+||..-
T Consensus        65 IrdiRRRgKNKvAAqnCRKRKld~   88 (91)
T 2kz5_A           65 VRDIRRRGKNKVAAQNYRKRKLET   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTSCCCCCCCC
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHH
Confidence            588999999999999999999753

>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=81.65  E-value=2.5  Score=28.29  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNM  168 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q  168 (351)
                      +..||++|.+.+.||-.|..+++.|+.+
T Consensus         3 vaqlekevaqaeaenyqleqevaqlehe   30 (33)
T 1fmh_A            3 VAQLEKEVAQAEAENYQLEQEVAQLEHE   30 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence            4678888888888888888877777654

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

Probab=81.49  E-value=3.5  Score=32.23  Aligned_cols=39  Identities=21%  Similarity=0.373  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          141 VTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSL  179 (351)
Q Consensus       141 IeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eL  179 (351)
                      +.++|.+-+.|+..+..|..++..-+.+...+..|-+.+
T Consensus         9 Lq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~   47 (72)
T 3cve_A            9 LQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTL   47 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444443333

>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=81.38  E-value=6.7  Score=28.71  Aligned_cols=40  Identities=18%  Similarity=0.173  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          147 KAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       147 kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      ++..|+.++..|.++...|.........|...|+..|+.|
T Consensus        10 r~~~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lkeele~L   49 (51)
T 3m91_A           10 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRL   49 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334444444444444444444444455555555555544

>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=80.66  E-value=8  Score=29.21  Aligned_cols=36  Identities=33%  Similarity=0.283  Sum_probs=24.6

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038341          124 ESNRVSAQKSRMKKLQYVTDLEKKAKALENQIAMLT  159 (351)
Q Consensus       124 LkNReSAqRSR~RKKqYIeELE~kVq~Lq~ENs~Ls  159 (351)
                      .+||.+++++|.|=++.++-...-...-..||..|+
T Consensus         7 yknr~asrk~rakfkn~lqh~r~vaaaks~en~rlr   42 (63)
T 2c9l_Y            7 YKNRVAARKSRAKFKQLLQHYREVAAAKSSENDRLR   42 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchHHH
Confidence            579999999999988766655444444444554444

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=80.48  E-value=17  Score=31.99  Aligned_cols=48  Identities=8%  Similarity=0.205  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038341          140 YVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTYN  187 (351)
Q Consensus       140 YIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsLe  187 (351)
                      .+..|+.++.....+...|..++..-+........++..+...|+.|.
T Consensus        45 ~~~~l~~~~~~~~~e~~~L~~~l~~E~~~R~~aE~~~~~ie~ElEeLT   92 (154)
T 2ocy_A           45 DYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT   92 (154)
T ss_dssp             HHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355566777777777777777777766666666666777777776665

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

Probab=80.35  E-value=16  Score=30.70  Aligned_cols=47  Identities=13%  Similarity=0.118  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038341          133 SRMKKLQYVTDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMTTY  186 (351)
Q Consensus       133 SR~RKKqYIeELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLqsL  186 (351)
                      -+..-..||.+|+.+|..|+.+...-+.....       ...||..|+..++.+
T Consensus        34 l~~E~q~~v~ql~~~i~~Le~eL~e~r~~~q~-------a~~e~e~Lr~e~~~l   80 (120)
T 3i00_A           34 MKTESQRVVLQLKGHVSELEADLAEQQHLRQQ-------AADDCEFLRAELDEL   80 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            35556677888888887777776665554444       444455555555444

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

Probab=80.34  E-value=12  Score=29.67  Aligned_cols=43  Identities=16%  Similarity=0.187  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038341          142 TDLEKKAKALENQIAMLTPQVSLYQNMQEFLQKEQRSLSERMT  184 (351)
Q Consensus       142 eELE~kVq~Lq~ENs~Ls~qv~~Lq~q~~~L~~EN~eLKqrLq  184 (351)
                      .+|-.++..|+.|+.+|+-+++.+..+...|....+++-..|+
T Consensus        23 ~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~Y~dLD   65 (83)
T 2xdj_A           23 TQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQILLQID   65 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555556666666666666666665555555555555444443

---

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	351
d1sknp_	74	Skn-1 {Caenorhabditis elegans [TaxId: 6239]}	88.52

>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=88.52  E-value=0.093  Score=39.57  Aligned_cols=27  Identities=22%  Similarity=0.401  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 038341          117 PKRLRRIESNRVSAQKSRMKKLQYVTD  143 (351)
Q Consensus       117 pKR~KRiLkNReSAqRSR~RKKqYIeE  143 (351)
                      -+-+||.=+||.+|+++|+||.....+
T Consensus        47 irDIRRRGKNKvAAqnCRKRKld~~d~   73 (74)
T d1sknp_          47 IRKIRRRGKNKVAARTCRQRRTDRHDK   73 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHhcccHHHHHHHHHhhhhhhcc
Confidence            367889999999999999999876543