Citrus Sinensis ID: 016555

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------
Protein Sequence
MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTYRKN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHcccccEEEccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEEEcHHHHEEEEEEccc
Coil and Loop (DISEMBL)
mgnnedgksfksekpsspppsdqgnihmytDWAAMQayygprvaippyynspiasghapqpymwgpaqpmmppygapyaaiystggvyahpavplgshahnhgvptspaavtplnteaptkssgnadRGLAKKLKGLDGLAMSIGnasaesaeggaeqrpsqseadgstdgsdgntvragqsrkkrsregtpiaggdgktdiqstpvpvgvnatpdKVLATAvaptsvsgkpvgpvlspgmptklelrnapgmnvkasptsvpqpcavlppetwiQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLfsneanrsCVFVCECFccnlligltyrkn
Flexible Loop (DISEMBL)
mgnnedgksfksekpsspppsdQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTeaptkssgnadrGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSqseadgstdgsdgntvragqsrkkrsregtpiaggdgktdiqstpvPVGVNATPDKVLATAVAptsvsgkpvgpvlspgMPTKLELRNAPGMNVKASptsvpqpcavlppetwiqnerelkrerrkqsnresarrsrlrkqaeaeelsrkvdslidENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNlligltyrkn
Low Complexity Region (SEG)
MGNNEDGksfksekpsspppsDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWgpaqpmmppygapyaaIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSGNadrglakklkgldglaMsignasaesaeggaeQRPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTYRKN
Disordered region (IsUnstruct)
*************************IHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPL*****************************************************************************************************************************************************************************************************************************************************AALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTY***
Disordered Region (DISOPRED)
******************************DWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVP********************************************************************************************************************************************************************************************************************ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI******************CVFVCECFCCNLLIGLTYR**
Disordered Region (DISEMBL)
**********************QGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE*********DRGLAKKLKGLDGLAMSIGNA*********************************************IAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNER*******************************KVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTYRKN
Disordered Region (DISPRO)
************************NIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPA**************************************************************************************************************************PVGPVLSPG*PTK*****************************************************RLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTYRKN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooHHHHHHHHHHHHHHHHHHiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxNAALLVCHINVIIFWTVSLFSNEANRSCVFVCECFCCNLLIGLTYRKN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	387	2.2.26 [Sep-21-2011]
Q99089	411	Common plant regulatory f	N/A	no	0.863	0.812	0.526	2e-93
P42776	382	G-box-binding factor 3 OS	yes	no	0.798	0.808	0.556	3e-87
P42775	360	G-box-binding factor 2 OS	no	no	0.798	0.858	0.477	1e-70
Q99142	265	Transcriptional activator	N/A	no	0.645	0.943	0.545	3e-64
P42774	315	G-box-binding factor 1 OS	no	no	0.718	0.882	0.354	7e-35
Q99091	296	Light-inducible protein C	N/A	no	0.664	0.868	0.278	3e-19
P25032	354	DNA-binding protein EMBP-	N/A	no	0.175	0.192	0.602	7e-16
P23922	349	Transcription factor HBP-	N/A	no	0.180	0.200	0.527	7e-14
Q54Y73	834	Probable basic-leucine zi	yes	no	0.162	0.075	0.421	2e-06
P24068	151	Ocs element-binding facto	N/A	no	0.160	0.410	0.435	1e-05

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

 Score =  343 bits (879), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 186/353 (52%), Positives = 239/353 (67%), Gaps = 19/353 (5%)

Query: 1   MGNNEDGKSFKSEK---PSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           MGN +D K+ K EK   P  P   DQ N H+Y DWAAMQAYYGPRVA+PPY+N  +ASG 
Sbjct: 1   MGNTDDVKAVKPEKLSSPPPPAAPDQSNSHVYPDWAAMQAYYGPRVALPPYFNPAVASGQ 60

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
           +P PYMWGP QP+MPPYG PYAA+Y+ GGVYAHP VPL              A +P++ +
Sbjct: 61  SPHPYMWGPPQPVMPPYGVPYAALYAHGGVYAHPGVPL--------------AASPMSMD 106

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
              KSSG  + GL KKLKG D LAMSIGN  A+S+EG  E+  SQS E +GS+DGS+ N+
Sbjct: 107 THAKSSGTNEHGLIKKLKGHDDLAMSIGNGKADSSEGEMERTLSQSKETEGSSDGSNENS 166

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
            RA  + +KR R+  P   G+ K + QS+ +P    A  +K+L   VA   V+GK VG V
Sbjct: 167 KRAAVNGRKRGRDEAPNMIGEVKIETQSSVIP-SPRAKSEKLLGITVATPMVAGKVVGTV 225

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
           +SP M + LEL+++P  +   SP    QP  ++P ++W+ N+R+LKRERRKQSNRESARR
Sbjct: 226 VSPSMTSSLELKDSPKEHAVNSPAGGQQPSTMMPNDSWLHNDRDLKRERRKQSNRESARR 285

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN 349
           SRLRKQAEAEEL+ KVDSL  EN +LK+EIN+L+  +EKL  +N+ LL    N
Sbjct: 286 SRLRKQAEAEELAIKVDSLTAENMALKAEINRLTLTAEKLTNDNSRLLEVMKN 338

Binds to the G-box-like motif (5'-ACGTGGC-3') of the chalcone synthase (CHS) gene promoter. G-box and G-box-like motifs are defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control.
Petroselinum crispum (taxid: 4043)

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

 Score =  322 bits (825), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 187/336 (55%), Positives = 226/336 (67%), Gaps = 27/336 (8%)

Query: 11  KSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIA-SGHAPQPYMWGPAQP 69
           KS+KPSSPP  DQ N+H+Y DWAAMQAYYGPRVA+PPYYNS +A SGH P PYMW P Q 
Sbjct: 13  KSDKPSSPP-VDQTNVHVYPDWAAMQAYYGPRVAMPPYYNSAMAASGHPPPPYMWNP-QH 70

Query: 70  MMPPYGAPYAAIY-STGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSGNADR 128
           MM PYGAPYAA+Y   GGVYAHP +P+GS       P      T L+ + PTKS+GN D 
Sbjct: 71  MMSPYGAPYAAVYPHGGGVYAHPGIPMGSLPQGQKDPPLTTPGTLLSIDTPTKSTGNTDN 130

Query: 129 GLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEADGSTDGSDGNTVRAGQSRKKRSR 188
           GL KKLK  DGLAMS+GN + E+     ++  + SE DGSTDGSDGNT  A + + KRSR
Sbjct: 131 GLMKKLKEFDGLAMSLGNGNPENGADEHKRSRNSSETDGSTDGSDGNTTGADEPKLKRSR 190

Query: 189 EGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELR 248
           EGTP    DGK  +Q++       ++ D    T V     SG     +LSPG    +   
Sbjct: 191 EGTPTK--DGKQLVQASSFHSVSPSSGD----TGVKLIQGSGA----ILSPG----VSAN 236

Query: 249 NAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEEL 308
           + P M+         Q  A++PPETW+QNERELKRERRKQSNRESARRSRLRKQAE EEL
Sbjct: 237 SNPFMS---------QSLAMVPPETWLQNERELKRERRKQSNRESARRSRLRKQAETEEL 287

Query: 309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           +RKV++L  EN +L+SE+NQL+E S+KLR  NA LL
Sbjct: 288 ARKVEALTAENMALRSELNQLNEKSDKLRGANATLL 323

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

Arabidopsis thaliana (taxid: 3702)

>sp|P42775|GBF2_ARATH G-box-binding factor 2 OS=Arabidopsis thaliana GN=GBF2 PE=1 SV=1

 Score =  266 bits (681), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 166/348 (47%), Positives = 209/348 (60%), Gaps = 39/348 (11%)

Query: 1   MGNNEDGK-SFKSEKPSSPPPSDQGNIHMYT-DWAAMQAYYGPRVAIPPYYNSPIASGHA 58
           MG+NE+G  +  S+KPS     +Q N+H+Y  DWAAMQAYYGPRV IP YYNS +A GHA
Sbjct: 1   MGSNEEGNPTNNSDKPSQAAAPEQSNVHVYHHDWAAMQAYYGPRVGIPQYYNSNLAPGHA 60

Query: 59  PQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEA 118
           P PYMW    PMM PYGAPY      GGVYAHP V +GS        ++    TPL  +A
Sbjct: 61  PPPYMWASPSPMMAPYGAPYPPFCPPGGVYAHPGVQMGSQPQGPVSQSASGVTTPLTIDA 120

Query: 119 PTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEA--DGSTDGSDGNT 176
           P  S+GN+D G  KKLK  DGLAMSI N    SAE  + +  S   +  DGS++GSDGNT
Sbjct: 121 PANSAGNSDHGFMKKLKEFDGLAMSISNNKVGSAEHSSSEHRSSQSSENDGSSNGSDGNT 180

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
              G+  +++ R+    + G+  +   S P+  G N  PD  + T V             
Sbjct: 181 T-GGEQSRRKRRQQRSPSTGERPSSQNSLPL-RGENEKPDVTMGTPV------------- 225

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
               MPT +  +N+ GMN       VPQP        W  NE+E+KRE+RKQSNRESARR
Sbjct: 226 ----MPTAMSFQNSAGMN------GVPQP--------W--NEKEVKREKRKQSNRESARR 265

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           SRLRKQAE E+LS KVD+L+ EN SL+S++ QL+  SEKLR EN A+L
Sbjct: 266 SRLRKQAETEQLSVKVDALVAENMSLRSKLGQLNNESEKLRLENEAIL 313

Binds to the G-box motif (5'-CCACGTGG-3') of the rbcS-1A gene promoter. G-box and G-box-like motifs are cis-acting elements defined in promoters of certain plant genes which are regulated by such diverse stimuli as light-induction or hormone control. GBF2 is found to bind asymmetrically to the G-box.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  246 bits (627), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 145/266 (54%), Positives = 176/266 (66%), Gaps = 16/266 (6%)

Query: 85  GGVYAHPAVPLGSHAHNHGVPTSPAAV-----TPLNTEAPTKSSGNADRGLAKKLKGLDG 139
           GGVYAHP VP+GSH   HG+ TSPA         L+ +A  KSS N+DRGL         
Sbjct: 3   GGVYAHPGVPIGSHPPGHGMATSPAVSQAMDGASLSLDASAKSSENSDRGL--------- 53

Query: 140 LAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDG 198
           LAMS+GN SA++ EGGA+   SQS + + STDGSD N     +  KKRSRE TP   GD 
Sbjct: 54  LAMSLGNGSADNIEGGADHGNSQSGDTEDSTDGSDTNGAGVSERSKKRSRETTPDNSGDS 113

Query: 199 KTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKAS 258
           K+ ++       +N   +K +  AV P  V  K +G VLSP M T LE+RN    ++KAS
Sbjct: 114 KSHLRRCQPTGEINDDSEKAI-VAVRPGKVGEKVMGTVLSPSMTTTLEMRNPASTHLKAS 172

Query: 259 PTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDE 318
           PT+V Q    LP E W+QNERELKRE+RKQSNRESARRSRLRKQAEAEEL+ +V SL  E
Sbjct: 173 PTNVSQLSPALPNEAWLQNERELKREKRKQSNRESARRSRLRKQAEAEELAIRVQSLTAE 232

Query: 319 NASLKSEINQLSENSEKLRQENAALL 344
           N +LKSEIN+L ENSEKL+ ENAAL+
Sbjct: 233 NMTLKSEINKLMENSEKLKLENAALM 258

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

Nicotiana tabacum (taxid: 4097)

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

 Score =  148 bits (373), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 124/350 (35%), Positives = 171/350 (48%), Gaps = 72/350 (20%)

Query: 1   MGNNEDGKSFKSEKPSSP----PPSDQGNIHMYTDWA-AMQAYYGPRVAIPPYYNSPIAS 55
           MG +ED   FK+ KP+S     PP+       Y DW  +MQAYYG      P++ SP+ S
Sbjct: 1   MGTSEDKMPFKTTKPTSSAQEVPPTP------YPDWQNSMQAYYGGGGTPNPFFPSPVGS 54

Query: 56  GHAPQPYMWGPAQPMMPPYGAP--YAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTP 113
             +P PYMWG    MMPPYG P  Y A+Y  G VYAHP++P+            P    P
Sbjct: 55  -PSPHPYMWGAQHHMMPPYGTPVPYPAMYPPGAVYAHPSMPM------------PPNSGP 101

Query: 114 LNTEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEADGSTDGSD 173
            N E P K   +  +      K  +G   ++  +  + A    E     S   GS+D +D
Sbjct: 102 TNKE-PAKDQASGKKSKGNSKKKAEGGDKALSGSGNDGASHSDE-----SVTAGSSDEND 155

Query: 174 GNTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPV 233
            N  +  Q   ++   G  +A        QST               T     SV  KPV
Sbjct: 156 ENANQQEQGSIRKPSFGQMLA----DASSQST---------------TGEIQGSVPMKPV 196

Query: 234 GPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRES 293
            P       T L +    GM++ +S   VP           +++ERELKR++RKQSNRES
Sbjct: 197 APG------TNLNI----GMDLWSSQAGVP-----------VKDERELKRQKRKQSNRES 235

Query: 294 ARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           ARRSRLRKQAE E+L ++V+SL +EN SL+ E+ +LS   +KL+ EN ++
Sbjct: 236 ARRSRLRKQAECEQLQQRVESLSNENQSLRDELQRLSSECDKLKSENNSI 285

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 96.3 bits (238), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 96/345 (27%), Positives = 145/345 (42%), Gaps = 88/345 (25%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQ 60
           M + E+G   K  KP+S           + D  +    Y    A   +Y S + S  +P 
Sbjct: 1   MSDGEEGTPMKHPKPASSVEEAPITTTPFPDLLSSMQAYYGGAAPAAFYASTVGSP-SPH 59

Query: 61  PYMWGPAQPMMPPYGAP--YAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEA 118
           PYMW      + PYG P  Y A++  GG++ HP            VPT P  + P + E 
Sbjct: 60  PYMWRNQHRFILPYGIPMQYPALFLPGGIFTHPI-----------VPTDP-NLAPTSGEV 107

Query: 119 PTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQSEADGSTDGSDGNTVR 178
             K S    R  AKK  G+ G       +++ + + GAE + + S +D            
Sbjct: 108 GRKISDEKGRTSAKKSIGVSG-------STSFAVDKGAENQKAASSSDNDCPSLSSEN-- 158

Query: 179 AGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLS 238
                           G DG  +++S P+ V              AP ++       V+ 
Sbjct: 159 ----------------GVDGSLEVRSNPLDVA-------------APGAI-------VVH 182

Query: 239 PGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSR 298
            GM                           LP +  + +ERELKR+RRKQSNRESARRSR
Sbjct: 183 DGM---------------------------LP-DQRVNDERELKRQRRKQSNRESARRSR 214

Query: 299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           LRKQA+++EL  ++D+L  EN  L+  + ++SE   ++  EN ++
Sbjct: 215 LRKQAKSDELQERLDNLSKENRILRKNLQRISEACAEVTSENHSI 259

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

Petroselinum crispum (taxid: 4043)

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

 Score = 85.5 bits (210), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 41/68 (60%), Positives = 53/68 (77%)

Query: 277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKL 336
           +ERELKRERRKQSNRESARRSRLRKQ E EEL++KV  L   N +L+SE++QL ++ + +
Sbjct: 247 DERELKRERRKQSNRESARRSRLRKQQECEELAQKVSELTAANGTLRSELDQLKKDCKTM 306

Query: 337 RQENAALL 344
             EN  L+
Sbjct: 307 ETENKKLM 314

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

Triticum aestivum (taxid: 4565)

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

 Score = 78.6 bits (192), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 38/72 (52%), Positives = 56/72 (77%), Gaps = 2/72 (2%)

Query: 272 ETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE 331
           E W  +ERELK+++RK SNRESARRSRLRKQAE EEL ++ ++L  EN+SL+ E++++ +
Sbjct: 246 EQW--DERELKKQKRKLSNRESARRSRLRKQAECEELGQRAEALKSENSSLRIELDRIKK 303

Query: 332 NSEKLRQENAAL 343
             E+L  +N +L
Sbjct: 304 EYEELLSKNTSL 315

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

Triticum aestivum (taxid: 4565)

>sp|Q54Y73|BZPD_DICDI Probable basic-leucine zipper transcription factor D OS=Dictyostelium discoideum GN=bzpD PE=3 SV=1

 Score = 54.3 bits (129), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 42/64 (65%), Gaps = 1/64 (1%)

Query: 264 QPCAVLPPETWIQ-NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASL 322
           +P  V+ P T  Q +ER +K++RR   NRESA+ SR+RK+   E+L + +  L  +N+SL
Sbjct: 374 EPVQVVDPPTHNQEDERNVKKQRRLIKNRESAQLSRMRKKIYIEDLEKTISDLTQDNSSL 433

Query: 323 KSEI 326
           K E+
Sbjct: 434 KEEV 437

Probable transcriptional regulator.

Dictyostelium discoideum (taxid: 44689)

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

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/62 (43%), Positives = 40/62 (64%)

Query: 282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA 341
           +RE+R+ SNRESARRSRLRKQ   +EL ++V  L  +NA + +    ++    ++ QEN 
Sbjct: 26  RREKRRLSNRESARRSRLRKQQHLDELVQEVARLQADNARVAARARDIASQYTRVEQENT 85

Query: 342 AL 343
            L
Sbjct: 86  VL 87

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

Zea mays (taxid: 4577)

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	387
357512481	425	G-box binding factor [Medicago truncatul	0.878	0.8	0.680	1e-128
388501482	425	unknown [Medicago truncatula]	0.878	0.8	0.677	1e-127
255541782	401	Common plant regulatory factor CPRF-1, p	0.909	0.877	0.628	1e-123
364521140	421	bZIP protein [Medicago sativa]	0.878	0.807	0.659	1e-122
449432082	419	PREDICTED: common plant regulatory facto	0.878	0.811	0.645	1e-122
307136354	419	bzip transcription factor [Cucumis melo	0.878	0.811	0.645	1e-121
359489695	430	PREDICTED: common plant regulatory facto	0.888	0.8	0.698	1e-118
51870705	424	bZip transcription factor [Psophocarpus	0.875	0.799	0.648	1e-118
356560615	424	PREDICTED: common plant regulatory facto	0.966	0.882	0.594	1e-118
169959	423	G-box binding factor, partial [Glycine m	0.963	0.881	0.593	1e-117

>gi|357512481|ref|XP_003626529.1| G-box binding factor [Medicago truncatula] gi|355501544|gb|AES82747.1| G-box binding factor [Medicago truncatula]

 Score =  463 bits (1192), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 236/347 (68%), Positives = 276/347 (79%), Gaps = 7/347 (2%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGN---IHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           MGN+++ KS K+EKPSSP   DQ N   +H+Y DWAAMQAYYGPRVA+PPYYNSP+ASGH
Sbjct: 1   MGNSDEEKSTKTEKPSSPVTVDQTNQTNVHVYPDWAAMQAYYGPRVAMPPYYNSPVASGH 60

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
            P PYMWGP QPMMPPYG PYAA+Y  GGVY HPAVP+G H H+ G+ +SPA  TPL+ E
Sbjct: 61  TPHPYMWGPPQPMMPPYGHPYAAMYPHGGVYTHPAVPIGPHPHSQGISSSPATGTPLSIE 120

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
            P KSSGN D+GL KKLKG DGLAMSIGN  AESAE GAE R SQS   +GS+DGSDGNT
Sbjct: 121 TPPKSSGNTDQGLMKKLKGFDGLAMSIGNGHAESAEPGAESRQSQSVNTEGSSDGSDGNT 180

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
             A Q+R+KRSREGTP   G+GKT+ Q + +   + A+ DK++  AVAP  V+G+ VGPV
Sbjct: 181 SGANQTRRKRSREGTPTTDGEGKTNTQGSQISKEIAAS-DKMM--AVAPAGVTGQLVGPV 237

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
            S  M T LELRN+  ++ K +PTS PQP AVLPPE WIQNERELKRERRKQSNRESARR
Sbjct: 238 ASSAMTTALELRNSSSVHSKTNPTSTPQPSAVLPPEAWIQNERELKRERRKQSNRESARR 297

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           SRLRKQAEAEEL+RKV+SL  E+ASL+SEIN+L+ENSE+LR ENAAL
Sbjct: 298 SRLRKQAEAEELARKVESLNAESASLRSEINRLAENSERLRMENAAL 344

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388501482|gb|AFK38807.1| unknown [Medicago truncatula]

 Score =  461 bits (1185), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 235/347 (67%), Positives = 275/347 (79%), Gaps = 7/347 (2%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGN---IHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           MGN+++ KS K+EKPSSP   DQ N   +H+Y DWAAMQAYYGPRVA+PPYYNSP+ASGH
Sbjct: 1   MGNSDEEKSTKTEKPSSPVTVDQTNQTNVHVYPDWAAMQAYYGPRVAMPPYYNSPVASGH 60

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
            P PYMWGP QPMMPPYG PYAA+Y  GGVY HPAVP+G H H+ G+ +SPA  TPL+ E
Sbjct: 61  TPHPYMWGPPQPMMPPYGHPYAAMYPHGGVYTHPAVPIGPHPHSQGISSSPATGTPLSIE 120

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
            P KSSGN D+GL KKLKG DGLA SIGN  AESAE GAE R SQS   +GS+DGSDGNT
Sbjct: 121 TPPKSSGNTDQGLMKKLKGFDGLATSIGNGHAESAEPGAESRQSQSVNTEGSSDGSDGNT 180

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
             A Q+R+KRSREGTP   G+GKT+ Q + +   + A+ DK++  AVAP  V+G+ VGPV
Sbjct: 181 SGANQTRRKRSREGTPTTDGEGKTNTQGSQISKEIAAS-DKMM--AVAPAGVTGQLVGPV 237

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
            S  M T LELRN+  ++ K +PTS PQP AVLPPE WIQNERELKRERRKQSNRESARR
Sbjct: 238 ASSAMTTALELRNSSSVHSKTNPTSTPQPSAVLPPEAWIQNERELKRERRKQSNRESARR 297

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           SRLRKQAEAEEL+RKV+SL  E+ASL+SEIN+L+ENSE+LR ENAAL
Sbjct: 298 SRLRKQAEAEELARKVESLNAESASLRSEINRLAENSERLRMENAAL 344

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541782|ref|XP_002511955.1| Common plant regulatory factor CPRF-1, putative [Ricinus communis] gi|223549135|gb|EEF50624.1| Common plant regulatory factor CPRF-1, putative [Ricinus communis]

 Score =  449 bits (1154), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 240/382 (62%), Positives = 272/382 (71%), Gaps = 30/382 (7%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQ 60
           MGNNE+GKS K +K SSP P DQ NIH+Y DWAAMQAYYGPR+A+PPYYNS +ASGHAP 
Sbjct: 3   MGNNEEGKSAKRDKSSSPAPPDQANIHVYPDWAAMQAYYGPRMALPPYYNSAMASGHAPH 62

Query: 61  PYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPT 120
           PYMWGP QPMMPPYG PYAA+YS GGVYAHPAVP+GS    HGVP SPAAVTPLN E PT
Sbjct: 63  PYMWGPPQPMMPPYGTPYAAVYSHGGVYAHPAVPIGSQPPGHGVPASPAAVTPLNVETPT 122

Query: 121 KSSGNADRGLAKKLKGLDGLAMSIGN--ASAESAEGGAEQRPSQSEADGSTDGSDGNTVR 178
           KS+GNADRGL KKLKG DGLAMSIGN  +  ESAEGG  +    SE +GST+GSDGNT  
Sbjct: 123 KSTGNADRGLIKKLKGFDGLAMSIGNGHSKVESAEGGERRLSQSSETEGSTNGSDGNTT- 181

Query: 179 AGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLS 238
           AG   KKRSREGTP  GG+ +T+ +   +P G                    K VG V+S
Sbjct: 182 AG---KKRSREGTPTIGGEIRTETRVNSLPTG------------------EAKSVGSVIS 220

Query: 239 PGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSR 298
           P M T LELRN+P   V A+ T+V QPC VLPPETWIQNERELKRERRKQSNRESARRSR
Sbjct: 221 PSMSTALELRNSP---VSAAKTNV-QPCPVLPPETWIQNERELKRERRKQSNRESARRSR 276

Query: 299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL 358
           LRKQAE EELS KV+SL  EN +LKSEI+Q+SE SEKLR ENAALL    N  +  +  +
Sbjct: 277 LRKQAETEELSHKVESLTSENLALKSEIHQMSEKSEKLRLENAALLEKLKNAELGHSQDI 336

Query: 359 FSNEAN--RSCVFVCECFCCNL 378
             N ++  R      E     +
Sbjct: 337 MLNNSDEPRGSAVSTENLLSRV 358

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|364521140|gb|AEW66884.1| bZIP protein [Medicago sativa]

 Score =  446 bits (1147), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 229/347 (65%), Positives = 269/347 (77%), Gaps = 7/347 (2%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGN---IHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           MGN+++ KS K+EKPSSP   DQ N   +H+Y DWAAMQAYYGPRVA+PPYYNSP+ASGH
Sbjct: 1   MGNSDEEKSTKTEKPSSPVTVDQTNQTNVHVYPDWAAMQAYYGPRVAMPPYYNSPVASGH 60

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
            P PYMWGP Q MMPPYG PYAA+Y  GGVY HPAVP+G H H+  + +SPA  TPL+ E
Sbjct: 61  TPHPYMWGPPQHMMPPYGHPYAAMYPHGGVYTHPAVPIGPHPHSQEISSSPATGTPLSIE 120

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
            P KSSGN D+GL KKLKG DGLAMSIGN  AESAE GAE R SQS   +GS+DGSDGNT
Sbjct: 121 TPPKSSGNTDQGLMKKLKGFDGLAMSIGNGHAESAEPGAESRQSQSVNTEGSSDGSDGNT 180

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
             A Q+R+KRSRE TP   G+GKT  Q + V   ++ + DK++  AVAP  V+G+ VGP 
Sbjct: 181 SGANQTRRKRSRERTPTTDGEGKTHTQGSQVSKEISVS-DKMM--AVAPAGVTGQLVGPA 237

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
           +S  M T LELRN+  ++ K +PTS PQP A LPPE WIQNERELKRERRKQSNRESARR
Sbjct: 238 VSSAMTTALELRNSSSVHSKINPTSAPQPSAALPPEAWIQNERELKRERRKQSNRESARR 297

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           SRLRKQAEAEEL+RKV+SL  E+ASL+SEIN+L+E SE+LR EN AL
Sbjct: 298 SRLRKQAEAEELARKVESLNAESASLRSEINRLAEKSERLRMENVAL 344

Source: Medicago sativa

Species: Medicago sativa

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449432082|ref|XP_004133829.1| PREDICTED: common plant regulatory factor 1-like [Cucumis sativus] gi|449480276|ref|XP_004155848.1| PREDICTED: common plant regulatory factor 1-like [Cucumis sativus]

 Score =  444 bits (1141), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 228/353 (64%), Positives = 277/353 (78%), Gaps = 13/353 (3%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQ------GNIHMYTDWAAMQAYYGPRVAIPPYYNSPIA 54
           MG +E+ KS K+EKPSSP P DQ       +IH++ DWAAMQAYYGPRVA+PPYYNS +A
Sbjct: 1   MGTSEEAKSVKTEKPSSPTPPDQNGVPNSASIHVFPDWAAMQAYYGPRVAVPPYYNSAVA 60

Query: 55  SGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPL 114
           SGHAP PYMWGP Q M+PPYG PYAAIYS GGVYAHPAV +G H+H  GVP+SPAA TPL
Sbjct: 61  SGHAPHPYMWGPPQ-MIPPYGTPYAAIYSHGGVYAHPAVSVGPHSHAPGVPSSPAAATPL 119

Query: 115 NTEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSD 173
           + E P+K SGN+ +GL KKLKG DGLAMSIGN S ESAEGGAE   S+S E +GS+DGSD
Sbjct: 120 SIETPSKVSGNSSQGLMKKLKGFDGLAMSIGNVSTESAEGGAEHGQSESMETEGSSDGSD 179

Query: 174 GNTVRAGQSRKKRSREGTPIAGG-DGKTDIQSTPVPVG-VNATPDKVLATAVAPTSVSGK 231
           G T  A  +++KRSREGTP  GG D K + Q++PV    +N + +K+L T  A T+ +GK
Sbjct: 180 GTTAGANHNKRKRSREGTPTTGGKDAKIEPQASPVTAAEMNESSNKLLGTTKA-TNATGK 238

Query: 232 PVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNR 291
            +G V+SPGM T LELRN+  MN   SPT+VP PC+VLP E W+QNE+ELKRERRKQSNR
Sbjct: 239 -LGSVISPGMSTALELRNSSSMNAMTSPTTVP-PCSVLPSEVWLQNEKELKRERRKQSNR 296

Query: 292 ESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           ESARRSRLRKQAE EEL+RKVDSL  EN +++SEI++LSENS+KL++EN+ L+
Sbjct: 297 ESARRSRLRKQAETEELARKVDSLTAENVAIRSEISRLSENSDKLKKENSTLM 349

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136354|gb|ADN34168.1| bzip transcription factor [Cucumis melo subsp. melo]

 Score =  442 bits (1138), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 228/353 (64%), Positives = 274/353 (77%), Gaps = 13/353 (3%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQ------GNIHMYTDWAAMQAYYGPRVAIPPYYNSPIA 54
           MG +E+ KS K+EKPSSP P DQ       +IH++ DWAAMQAYYGPRVA+PPYYNS +A
Sbjct: 1   MGTSEEAKSVKTEKPSSPTPPDQNGVPNSASIHVFPDWAAMQAYYGPRVAVPPYYNSAVA 60

Query: 55  SGHAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPL 114
           SGHAP PYMWGP Q M+PPYG PYAAIYS GGVYAHPAV +G H+H  GVP+SPAA TPL
Sbjct: 61  SGHAPHPYMWGPPQ-MIPPYGTPYAAIYSHGGVYAHPAVSMGPHSHAPGVPSSPAAATPL 119

Query: 115 NTEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSD 173
           + E P+K SGN+ +GL KKLKG DGLAMSIGN S ESAEGGAE   S+S E +GS+DGSD
Sbjct: 120 SIETPSKVSGNSSQGLMKKLKGFDGLAMSIGNVSTESAEGGAEHGQSESMETEGSSDGSD 179

Query: 174 GNTVRAGQSRKKRSREGTPIAGG-DGKTDIQSTPVPVG-VNATPDKVLATAVAPTSVSGK 231
           G T  A  +++KRSREGTP  GG D K + Q++PV    +N +  K+L T  A  + +GK
Sbjct: 180 GTTAGASHNKRKRSREGTPTTGGKDAKIEPQASPVTAAEMNESSSKLLGTTKA-VNATGK 238

Query: 232 PVGPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNR 291
            +G V+SPGM T LELRN   MN   SPT+VP PC+VLP E W+QNE+ELKRERRKQSNR
Sbjct: 239 -LGSVISPGMSTALELRNPSSMNAMTSPTTVP-PCSVLPSEVWLQNEKELKRERRKQSNR 296

Query: 292 ESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           ESARRSRLRKQAE EEL+RKVDSL  EN +++SEI++LSENSEKL++EN+ L+
Sbjct: 297 ESARRSRLRKQAETEELARKVDSLTAENVAIRSEISRLSENSEKLKKENSTLM 349

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489695|ref|XP_002279966.2| PREDICTED: common plant regulatory factor 1-like [Vitis vinifera] gi|297745388|emb|CBI40468.3| unnamed protein product [Vitis vinifera]

 Score =  432 bits (1110), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 245/351 (69%), Positives = 277/351 (78%), Gaps = 7/351 (1%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQ 60
           MGN E+GKS K EKP+SPPP DQ NIH+Y DWAAMQAYYGPRV +PPYYNS +ASGHAP 
Sbjct: 1   MGNEEEGKSPKPEKPTSPPPPDQANIHVYPDWAAMQAYYGPRVTLPPYYNSAMASGHAPH 60

Query: 61  PYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPA-----AVTPLN 115
           PY+WGP QPMMPPYG PYAAIYS GGVY HPAVPLGSH+H HGV +SP      A  PL+
Sbjct: 61  PYIWGPPQPMMPPYGPPYAAIYSPGGVYPHPAVPLGSHSHGHGVQSSPVVSEALAAPPLS 120

Query: 116 TEAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDG 174
            E P KSSGN DRGL KKLKG DGLAMSIGN + ES EGG++   SQS E +GS+DGSDG
Sbjct: 121 IETPAKSSGNTDRGLMKKLKGFDGLAMSIGNGNGESTEGGSDHGLSQSGETEGSSDGSDG 180

Query: 175 NTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVG-VNATPDKVLATAVAPTSVSGKPV 233
           NT  A Q+R+KRSREGTP  GGDGKT+ Q+T  P   VNA  DKVL  AV PTSV+GK  
Sbjct: 181 NTAGADQTRRKRSREGTPPIGGDGKTETQATSAPSAEVNAGSDKVLGVAVPPTSVTGKLA 240

Query: 234 GPVLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRES 293
           G VLSP M T LELRN P +N K SP+S+PQP A++P +TWI NERE+KRERRKQSNRES
Sbjct: 241 GAVLSPRMSTALELRNPPSVNAKTSPSSIPQPGAMVPSDTWILNEREIKRERRKQSNRES 300

Query: 294 ARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           ARRSRLRKQAE EEL+ KV+SL  EN+ LKSEIN+L ENSEKL+ ENA L+
Sbjct: 301 ARRSRLRKQAETEELALKVESLNTENSVLKSEINRLRENSEKLKLENATLM 351

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51870705|dbj|BAD42432.1| bZip transcription factor [Psophocarpus tetragonolobus]

 Score =  432 bits (1110), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 225/347 (64%), Positives = 263/347 (75%), Gaps = 8/347 (2%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGN---IHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           MGN+E+GKS K+  PSSP  +DQ N   IH+Y DWAAMQ YYGPRV IPPY+NS +ASGH
Sbjct: 1   MGNSEEGKSIKTGSPSSPATTDQTNQPSIHVYPDWAAMQ-YYGPRVNIPPYFNSAVASGH 59

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
           AP PYMWG  Q MMPPYG PYAA YS GGVY HPAV +G H H  GVP+ PAA TP + E
Sbjct: 60  APHPYMWGSPQAMMPPYGPPYAAFYSHGGVYTHPAVAIGPHPHGQGVPSPPAAGTPSSVE 119

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
           +PTK SGN D+GL KKLKG DGLAMSIGN +AESAE GAE R SQS + +GS+DGSDGNT
Sbjct: 120 SPTKLSGNTDQGLMKKLKGFDGLAMSIGNCNAESAERGAENRLSQSADTEGSSDGSDGNT 179

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
             A + R+KRSREGTP   G+GKT+ Q   V     A+  K++     P SV+G  VGP+
Sbjct: 180 AGANKMRRKRSREGTPTTDGEGKTETQEGSVSKET-ASSRKIM--PATPASVAGNLVGPI 236

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
           +S GM T LELRN   ++ KA+ TS PQPCAV+P E W+QNERELKRERRKQSNRESARR
Sbjct: 237 VSSGMTTALELRNPSTVHSKANNTSAPQPCAVVPSEAWLQNERELKRERRKQSNRESARR 296

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
           SRLRKQAE EEL+RKV+ L  EN SLKSEI QL+E+SE++R EN+AL
Sbjct: 297 SRLRKQAETEELARKVEMLSTENVSLKSEITQLTESSEQMRMENSAL 343

Source: Psophocarpus tetragonolobus

Species: Psophocarpus tetragonolobus

Genus: Psophocarpus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560615|ref|XP_003548586.1| PREDICTED: common plant regulatory factor 1 [Glycine max]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 229/385 (59%), Positives = 278/385 (72%), Gaps = 11/385 (2%)

Query: 1   MGNNEDGKSFKSEKPSSPPPS----DQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASG 56
           MGN+E+ KS K+  PSS P +    +Q NIH+Y DWAAMQ YYGPRV IPPY+NS +ASG
Sbjct: 1   MGNSEEEKSVKTGSPSSSPATTEQTNQPNIHVYPDWAAMQ-YYGPRVNIPPYFNSAVASG 59

Query: 57  HAPQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNT 116
           HAP PYMWGP QPMM PYG PYAA YS GGVY HPAV +G H+H  GVP+SPAA TP + 
Sbjct: 60  HAPHPYMWGPPQPMMQPYGPPYAAFYSHGGVYTHPAVAIGPHSHGQGVPSSPAAGTPSSV 119

Query: 117 EAPTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGN 175
           E+PTK SGN ++GL KKLKG D LAMSIGN +AESAE GAE R SQS + +GS+DGSDGN
Sbjct: 120 ESPTKFSGNTNQGLVKKLKGFDELAMSIGNCNAESAERGAENRLSQSVDTEGSSDGSDGN 179

Query: 176 TVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGP 235
           T  A Q+++KRSREGTPI   +GKT++Q+ P      ++   V AT   P SV+G  VGP
Sbjct: 180 TAGANQTKRKRSREGTPITDAEGKTELQNGPASKETASSKKIVSAT---PASVAGTLVGP 236

Query: 236 VLSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESAR 295
           V+S GM T LELRN   ++ KA+ TS  QPCAV+  ETW+QNERELKRERRKQSNRESAR
Sbjct: 237 VVSSGMATALELRNPSTVHSKANSTSAAQPCAVVRNETWLQNERELKRERRKQSNRESAR 296

Query: 296 RSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII--F 353
           RSRLRKQAE EEL+RKV+ L  EN SLKSEI +L+E SE++R EN+AL    IN  +   
Sbjct: 297 RSRLRKQAETEELARKVEMLTAENVSLKSEITRLTEGSEQMRMENSALREKLINTQLGPR 356

Query: 354 WTVSLFSNEANRSCVFVCECFCCNL 378
             ++L S ++ R+     E     +
Sbjct: 357 EEITLSSIDSKRAAPVSTENLLSRV 381

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|169959|gb|AAB00097.1| G-box binding factor, partial [Glycine max]

 Score =  427 bits (1098), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 228/384 (59%), Positives = 277/384 (72%), Gaps = 11/384 (2%)

Query: 2   GNNEDGKSFKSEKPSSPPPS----DQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGH 57
           GN+E+ KS K+  PSS P +    +Q NIH+Y DWAAMQ YYGPRV IPPY+NS +ASGH
Sbjct: 1   GNSEEEKSVKTGSPSSSPATTEQTNQPNIHVYPDWAAMQ-YYGPRVNIPPYFNSAVASGH 59

Query: 58  APQPYMWGPAQPMMPPYGAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTE 117
           AP PYMWGP QPMM PYG PYAA YS GGVY HPAV +G H+H  GVP+SPAA TP + E
Sbjct: 60  APHPYMWGPPQPMMQPYGPPYAAFYSHGGVYTHPAVAIGPHSHGQGVPSSPAAGTPSSVE 119

Query: 118 APTKSSGNADRGLAKKLKGLDGLAMSIGNASAESAEGGAEQRPSQS-EADGSTDGSDGNT 176
           +PTK SGN ++GL KKLKG D LAMSIGN +AESAE GAE R SQS + +GS+DGSDGNT
Sbjct: 120 SPTKFSGNTNQGLVKKLKGFDELAMSIGNCNAESAERGAENRLSQSVDTEGSSDGSDGNT 179

Query: 177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV 236
             A Q+++KRSREGTPI   +GKT++Q+ P      ++   V AT   P SV+G  VGPV
Sbjct: 180 AGANQTKRKRSREGTPITDAEGKTELQNGPASKETASSKKIVSAT---PASVAGTLVGPV 236

Query: 237 LSPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARR 296
           +S GM T LELRN   ++ KA+ TS  QPCAV+  ETW+QNERELKRERRKQSNRESARR
Sbjct: 237 VSSGMATALELRNPSTVHSKANSTSAAQPCAVVRNETWLQNERELKRERRKQSNRESARR 296

Query: 297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII--FW 354
           SRLRKQAE EEL+RKV+ L  EN SLKSEI +L+E SE++R EN+AL    IN  +    
Sbjct: 297 SRLRKQAETEELARKVEMLTAENVSLKSEITRLTEGSEQMRMENSALREKLINTQLGPRE 356

Query: 355 TVSLFSNEANRSCVFVCECFCCNL 378
            ++L S ++ R+     E     +
Sbjct: 357 EITLSSIDSKRAAPVSTENLLSRV 380

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	387
TAIR|locus:2124938	360	GBF2 "G-box binding factor 2"	0.586	0.630	0.377	2e-61
TAIR|locus:2063020	382	GBF3 "G-box binding factor 3"	0.782	0.793	0.350	4.9e-37
TAIR|locus:2115250	315	GBF1 "G-box binding factor 1"	0.434	0.533	0.359	6.1e-31
TAIR|locus:2031705	389	bZIP68 "basic region/leucine z	0.764	0.760	0.320	4.4e-29
TAIR|locus:2062455	409	bZIP16 "basic region/leucine z	0.777	0.735	0.301	1.7e-27
TAIR|locus:2143191	186	bZIP3 "AT5G15830" [Arabidopsis	0.178	0.370	0.472	4.5e-10
TAIR|locus:2012413	138	bZIP "AT1G68880" [Arabidopsis	0.167	0.471	0.530	2.1e-09
TAIR|locus:2092595	173	bZIP42 "AT3G30530" [Arabidopsi	0.170	0.381	0.521	2.6e-09
TAIR|locus:2166650	165	bZIP43 "AT5G38800" [Arabidopsi	0.175	0.412	0.450	2.6e-09
TAIR|locus:2827461	166	bZIP48 "AT2G04038" [Arabidopsi	0.160	0.373	0.451	1.5e-07

TAIR|locus:2124938 GBF2 "G-box binding factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 379 (138.5 bits), Expect = 2.0e-61, Sum P(2) = 2.0e-61
 Identities = 88/233 (37%), Positives = 113/233 (48%)

Query:     1 MGNNEDGXXXXXXXXXXXXXX-DQGNIHMYT-DWAAMQAYYGPRVAIPPYYNSPIASGHA 58
             MG+NE+G               +Q N+H+Y  DWAAMQAYYGPRV IP YYNS +A GHA
Sbjct:     1 MGSNEEGNPTNNSDKPSQAAAPEQSNVHVYHHDWAAMQAYYGPRVGIPQYYNSNLAPGHA 60

Query:    59 PQPYMWXXXXXXXXXXXXXXXXIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEA 118
             P PYMW                    GGVYAHP V +GS        ++    TPL  +A
Sbjct:    61 PPPYMWASPSPMMAPYGAPYPPFCPPGGVYAHPGVQMGSQPQGPVSQSASGVTTPLTIDA 120

Query:   119 PTKSSGNXXXXXXXXXXXXXXXXMXXXXXXXXXXXXXXXQ-RPSQS-EADGSTDGSDGNT 176
             P  S+GN                M               + R SQS E DGS++GSDGNT
Sbjct:   121 PANSAGNSDHGFMKKLKEFDGLAMSISNNKVGSAEHSSSEHRSSQSSENDGSSNGSDGNT 180

Query:   177 VRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPDKVLATAVAPTSVS 229
                 QSR+KR ++ +P + G+  +   S P+  G N  PD  + T V PT++S
Sbjct:   181 TGGEQSRRKRRQQRSP-STGERPSSQNSLPLR-GENEKPDVTMGTPVMPTAMS 231

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

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

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

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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:0009410 "response to xenobiotic stimulus" evidence=RCA

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

GO:0005737 "cytoplasm" evidence=IDA

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

TAIR|locus:2063020 GBF3 "G-box binding factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 398 (145.2 bits), Expect = 4.9e-37, P = 4.9e-37
 Identities = 114/325 (35%), Positives = 155/325 (47%)

Query:    22 DQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIA-SGHAPQPYMWXXXXXXXXXXXXXXXX 80
             DQ N+H+Y DWAAMQAYYGPRVA+PPYYNS +A SGH P PYMW                
Sbjct:    23 DQTNVHVYPDWAAMQAYYGPRVAMPPYYNSAMAASGHPPPPYMWNPQHMMSPYGAPYAAV 82

Query:    81 IYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSGNXXXXXXXXXXXXXXX 140
                 GGVYAHP +P+GS       P      T L+ + PTKS+GN               
Sbjct:    83 YPHGGGVYAHPGIPMGSLPQGQKDPPLTTPGTLLSIDTPTKSTGNTDNGLMKKLKEFDGL 142

Query:   141 XMXXXXXXXXXXXXXXXQRPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDGKT 200
              M               +  + SE DGSTDGSDGNT  A + + KRSREGTP    DGK 
Sbjct:   143 AMSLGNGNPENGADEHKRSRNSSETDGSTDGSDGNTTGADEPKLKRSREGTPTK--DGKQ 200

Query:   201 DIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPGMNVKASPT 260
              +Q++       ++ D    T V    + G   G +LSPG+        +  + +   P 
Sbjct:   201 LVQASSFHSVSPSSGD----TGVK--LIQGS--GAILSPGVSANSNPFMSQSLAM-VPPE 251

Query:   261 SVPQPCAVLPPETWIQNERE-LKRER-RKQSNRES-ARR------SRLRKQAEAEELSRK 311
             +  Q    L  E   Q+ RE  +R R RKQ+  E  AR+        +  ++E  +L+ K
Sbjct:   252 TWLQNERELKRERRKQSNRESARRSRLRKQAETEELARKVEALTAENMALRSELNQLNEK 311

Query:   312 VDSLIDENASLKSEINQLSENSEKL 336
              D L   NA+L  ++ + SE  +++
Sbjct:   312 SDKLRGANATLLDKL-KCSEPEKRV 335

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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:0000303 "response to superoxide" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

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

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

GO:0009611 "response to wounding" evidence=RCA

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

GO:0009723 "response to ethylene stimulus" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009743 "response to carbohydrate stimulus" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

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

GO:0042538 "hyperosmotic salinity response" evidence=RCA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2115250 GBF1 "G-box binding factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 6.1e-31, Sum P(2) = 6.1e-31
 Identities = 68/189 (35%), Positives = 102/189 (53%)

Query:   159 RPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGGDGKTDIQSTPVPVGVNATPD-- 216
             + S+  +    +G D     +G      S E    AG   + D  +     G    P   
Sbjct:   114 KKSKGNSKKKAEGGDKALSGSGNDGASHSDESVT-AGSSDENDENANQQEQGSIRKPSFG 172

Query:   217 KVLATAVAPTSVSGKPVGPV-LSPGMP-TKLELRNAPGMNVKASPTSVPQPCAVLPPETW 274
             ++LA A +  S +G+  G V + P  P T L +    GM++ +S   VP           
Sbjct:   173 QMLADA-SSQSTTGEIQGSVPMKPVAPGTNLNI----GMDLWSSQAGVP----------- 216

Query:   275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE 334
             +++ERELKR++RKQSNRESARRSRLRKQAE E+L ++V+SL +EN SL+ E+ +LS   +
Sbjct:   217 VKDERELKRQKRKQSNRESARRSRLRKQAECEQLQQRVESLSNENQSLRDELQRLSSECD 276

Query:   335 KLRQENAAL 343
             KL+ EN ++
Sbjct:   277 KLKSENNSI 285

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

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

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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:0010310 "regulation of hydrogen peroxide metabolic process" evidence=IMP

GO:0010629 "negative regulation of gene expression" evidence=IEP

GO:0090342 "regulation of cell aging" evidence=IMP

GO:0005737 "cytoplasm" evidence=IDA

TAIR|locus:2031705 bZIP68 "basic region/leucine zipper transcription factor 68" [Arabidopsis thaliana (taxid:3702)]

 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 105/328 (32%), Positives = 152/328 (46%)

Query:    31 DWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWXXXXXXXXXXX--XXXXXIYSTGGVY 88
             DW+  QAY  P   +PP+    +AS   P PYMW                  +Y  GG+Y
Sbjct:    48 DWSGFQAY-SP---MPPH--GYVASSPQPHPYMWGVQHMMPPYGTPPHPYVTMYPPGGMY 101

Query:    89 AHPAVPLGSHAHNHGVPTSPAAVTPL--NT----EAPTK-SSGNXXXXXXXXXXXXXXXX 141
             AHP++P GS+ ++     SP  +     NT    E   K S G                 
Sbjct:   102 AHPSLPPGSYPYSPYAMPSPNGMAEASGNTGSVIEGDGKPSDGKEKLPIKRSKGSLGSLN 161

Query:   142 MXX-----XXXXXXXXXXXXXQRPSQSEADGSTDGSDGNTVRAGQSRKKRSREGTPIAGG 196
             M                     + ++S +DGS+DGSD N+     SR    ++G   +  
Sbjct:   162 MIIGKNNEAGKNSGASANGACSKSAESGSDGSSDGSDANSQNDSGSRHN-GKDGETASES 220

Query:   197 DGKTDIQSTPVPVGVNATPDKVLATAVAPTSVSGKPVGPV-LSPGMPTKLELRNAPGMNV 255
              G       P   G N   ++ +A  + P S +G P  P  L+ GM    +  +  G NV
Sbjct:   221 GGSAH---GPPRNGSNLPVNQTVA--IMPVSATGVPGPPTNLNIGM----DYWSGHG-NV 270

Query:   256 KASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSL 315
               +   V    +   P   + +ERE+KR+RRKQSNRESARRSRLRKQAE +EL+++ + L
Sbjct:   271 SGAVPGVVVDGSQSQPWLQVSDEREIKRQRRKQSNRESARRSRLRKQAECDELAQRAEVL 330

Query:   316 IDENASLKSEINQLSENSEKLRQENAAL 343
               EN+SL++EIN+L    E+L  EN++L
Sbjct:   331 NGENSSLRAEINKLKSQYEELLAENSSL 358

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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:0006473 "protein acetylation" evidence=RCA

TAIR|locus:2062455 bZIP16 "basic region/leucine zipper transcription factor 16" [Arabidopsis thaliana (taxid:3702)]

 Score = 308 (113.5 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 102/338 (30%), Positives = 148/338 (43%)

Query:    31 DWAAMQAYYGPRVAIPPY-YNSPIASGHAPQPYMWXXXXXXXXXXXXXXXXIYSTGGVYA 89
             DW+  QAY  P    PP+ Y +     H P  +                  +Y  GG+YA
Sbjct:    43 DWSGFQAY-SPMP--PPHGYVASSPQPH-PYMWGVQHMMPPYGTPPHPYVAMYPPGGMYA 98

Query:    90 HPAVPLGSHAHNHGVPTSPAAVTPL--NTEAPTKSSGNXXXXXXXXXXXXXXXXMXXXXX 147
             HP++P GS+ ++     SP  +T +  NT   T                     +     
Sbjct:    99 HPSMPPGSYPYSPYAMPSPNGMTEVSGNTTGGTDGDAKQSEVKEKLPIKRSRGSLGSLNM 158

Query:   148 XXX----------XXXXXXXQRPSQSEADGSTDGSDGNTVR-AGQSRKKRSREGTPIAGG 196
                                  +  +S +DGS++GSDGN+   +G     +  E     GG
Sbjct:   159 ITGKNNEPGKNSGASANGAYSKSGESASDGSSEGSDGNSQNDSGSGLDGKDAEAASENGG 218

Query:   197 DG---KTDIQSTPV-PVGVNATPDKVLATAVAPTSVSGKPVGPVLSPGMPTKLELRNAPG 252
                  +     TP+ PV     P   +  A  P   +   +G     G PT   +   PG
Sbjct:   219 SANGPQNGSAGTPILPVS-QTVPIMPMTAAGVPGPPTNLNIGMDYW-GAPTSAGI---PG 273

Query:   253 MNVKASPTSVPQPCAVLP-------PETWIQNERELKRERRKQSNRESARRSRLRKQAEA 305
             M+ K S    P P  V P        + W+Q++RELKR+RRKQSNRESARRSRLRKQAE 
Sbjct:   274 MHGKVS---TPVPGVVAPGSRDGGHSQPWLQDDRELKRQRRKQSNRESARRSRLRKQAEC 330

Query:   306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL 343
             +EL+++ + L +EN +L++EIN+L    E+L  EN +L
Sbjct:   331 DELAQRAEVLNEENTNLRAEINKLKSQCEELTTENTSL 368

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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

GO:0006473 "protein acetylation" evidence=RCA

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

 Score = 149 (57.5 bits), Expect = 4.5e-10, P = 4.5e-10
 Identities = 34/72 (47%), Positives = 50/72 (69%)

Query:   272 ETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE 331
             E ++ NER   ++RR  SNRESARRSR+RKQ   +EL  +V  L  EN  L  ++NQ+S+
Sbjct:    67 EIFVINER---KQRRMVSNRESARRSRMRKQRHLDELLSQVAWLRSENHQLLDKLNQVSD 123

Query:   332 NSEKLRQENAAL 343
             N++ + QEN++L
Sbjct:   124 NNDLVIQENSSL 135

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

TAIR|locus:2012413 bZIP "AT1G68880" [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 2.1e-09, P = 2.1e-09
 Identities = 35/66 (53%), Positives = 44/66 (66%)

Query:   278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR 337
             + E KR RRK SNRESARRSR+RKQ   EEL   +  LI++N SL  E++Q  E  EK+ 
Sbjct:    44 DNERKR-RRKVSNRESARRSRMRKQRHMEELWSMLVQLINKNKSLVDELSQARECYEKVI 102

Query:   338 QENAAL 343
             +EN  L
Sbjct:   103 EENMKL 108

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

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

 Score = 142 (55.0 bits), Expect = 2.6e-09, P = 2.6e-09
 Identities = 36/69 (52%), Positives = 46/69 (66%)

Query:   275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE 334
             I NER   ++RR  SNRESARRSR+RKQ   +EL  +V  L  EN  L  ++N LSE+ +
Sbjct:    77 IINER---KQRRMISNRESARRSRMRKQRHLDELWSQVMWLRIENHQLLDKLNNLSESHD 133

Query:   335 KLRQENAAL 343
             K+ QENA L
Sbjct:   134 KVLQENAQL 142

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

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

 Score = 142 (55.0 bits), Expect = 2.6e-09, P = 2.6e-09
 Identities = 32/71 (45%), Positives = 49/71 (69%)

Query:   276 QNEREL---KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSEN 332
             +N +E+   ++++RK SNRESARRSR+RKQ + +EL  +V  L DEN  L  ++N + E+
Sbjct:    63 ENHKEIINERKQKRKISNRESARRSRMRKQRQVDELWSQVMWLRDENHQLLRKLNCVLES 122

Query:   333 SEKLRQENAAL 343
              EK+ +EN  L
Sbjct:   123 QEKVIEENVQL 133

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

 Score = 126 (49.4 bits), Expect = 1.5e-07, P = 1.5e-07
 Identities = 28/62 (45%), Positives = 42/62 (67%)

Query:   282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA 341
             +++RR  SNRESARRSR+RKQ   +EL  +V  L +EN  L  ++N++SE    + +EN+
Sbjct:    74 RKQRRMLSNRESARRSRMRKQRHLDELWSQVIRLRNENNCLIDKLNRVSETQNCVLKENS 133

Query:   342 AL 343
              L
Sbjct:   134 KL 135

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM

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

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P42776	GBF3_ARATH	No assigned EC number	0.5565	0.7984	0.8089	yes	no
Q99089	CPRF1_PETCR	No assigned EC number	0.5269	0.8630	0.8126	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.II.2523.1 hypothetical protein (411 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	387
pfam07777	189	pfam07777, MFMR, G-box binding protein MFMR	7e-62
smart00338	65	smart00338, BRLZ, basic region leucin zipper	6e-26
pfam00170	64	pfam00170, bZIP_1, bZIP transcription factor	2e-25
cd12193	54	cd12193, B_zip1, basic leucine zipper DNA-binding	3e-12
pfam07716	54	pfam07716, bZIP_2, Basic region leucine zipper	2e-10
COG1340	294	COG1340, COG1340, Uncharacterized archaeal coiled-	7e-06
pfam13863	126	pfam13863, DUF4200, Domain of unknown function (DU	5e-04
pfam06005	72	pfam06005, DUF904, Protein of unknown function (DU	5e-04
pfam08614	194	pfam08614, ATG16, Autophagy protein 16 (ATG16)	0.002
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
pfam00038	312	pfam00038, Filament, Intermediate filament protein	0.003
pfam03131	93	pfam03131, bZIP_Maf, bZIP Maf transcription factor	0.003
pfam07926	132	pfam07926, TPR_MLP1_2, TPR/MLP1/MLP2-like protein	0.004

>gnl|CDD|219569 pfam07777, MFMR, G-box binding protein MFMR

 Score =  196 bits (501), Expect = 7e-62
 Identities = 95/187 (50%), Positives = 114/187 (60%), Gaps = 13/187 (6%)

Query: 1   MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQ 60
           MG++E+GK  KS  P +    D     +Y DW+AMQAYYGPR   PPY+NS +AS   P 
Sbjct: 1   MGSSEEGKPSKS-SPKTSVQEDTPTPTVYPDWSAMQAYYGPRPP-PPYFNSSVASSPQPH 58

Query: 61  PYMWGPAQPMMPPYGAP--YAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAA--VTPLNT 116
           PYMWGP QPMMPPYG P  YAA+Y  GGVYAHP++P GSH  +     S      TPL+ 
Sbjct: 59  PYMWGPQQPMMPPYGTPPPYAAMYPPGGVYAHPSMPPGSHPFSPYAMPSAEVPGSTPLSM 118

Query: 117 EAPTKSSGNADRGLAKKLKGLD---GLAMSIGNASAESAEGG-AEQRPSQSE---ADGST 169
           E   KSS N D+G  KK KG D   GLAMS  N  +  A G  A    SQS    +DGS+
Sbjct: 119 ETDAKSSDNKDKGSIKKSKGSDGSLGLAMSGKNGESGKASGSSANGGSSQSSESGSDGSS 178

Query: 170 DGSDGNT 176
           +GSDGN+
Sbjct: 179 EGSDGNS 185

This region is found to the N-terminus of the pfam00170 transcription factor domain. It is between 150 and 200 amino acids in length. The N-terminal half is rather rich in proline residues and has been termed the PRD (proline rich domain), whereas the C-terminal half is more polar and has been called the MFMR (multifunctional mosaic region). It has been suggested that this family is composed of three sub-families called A, B and C, classified according to motif composition. It has been suggested that some of these motifs may be involved in mediating protein-protein interactions. The MFMR region contains a nuclear localisation signal in bZIP opaque and GBF-2. The MFMR also contains a transregulatory activity in TAF-1. The MFMR in CPRF-2 contains cytoplasmic retention signals. Length = 189

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

 Score = 98.8 bits (247), Expect = 6e-26
 Identities = 35/65 (53%), Positives = 43/65 (66%)

Query: 278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR 337
           E + KR RR++ NRE+ARRSR RK+AE EEL RKV+ L  EN  LK EI +L    EKL+
Sbjct: 1   EEDEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLK 60

Query: 338 QENAA 342
            E   
Sbjct: 61  SELEE 65

Length = 65

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

 Score = 97.4 bits (243), Expect = 2e-25
 Identities = 37/63 (58%), Positives = 47/63 (74%)

Query: 278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR 337
           E+ELKRERR+Q NRE+ARRSRLRK+A  EEL  KV  L  EN +L+SE+ +L +   KL+
Sbjct: 1   EKELKRERRRQKNREAARRSRLRKKAYIEELEEKVKELEAENKTLRSELERLKKECAKLK 60

Query: 338 QEN 340
            EN
Sbjct: 61  SEN 63

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

>gnl|CDD|213400 cd12193, B_zip1, basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins

 Score = 60.8 bits (148), Expect = 3e-12
 Identities = 21/51 (41%), Positives = 33/51 (64%)

Query: 281 LKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE 331
             R R++  NRE+ARRSR RK    ++L  KV+ L  EN+ L+ E+++L +
Sbjct: 1   DPRARKRARNREAARRSRARKMERMKQLEDKVEELTSENSDLEDEVDRLKK 51

Basic leucine zipper (bZIP) transcription factors act in networks of homo- and hetero-dimers in the regulation in a diverse set of cellular pathways. Classical leucine zippers have alpha helices with leucine residues 7 amino acids apart, which stabilize dimerization with a parallel leucine zipper domain. Dimerization creates a pair of basic regions that bind DNA and undergo conformational change. GCN4 was identified in Saccharomyces cerevisiae from mutations in a deficiency in activation with the general amino acid control pathway. GCN4 encodes a trans-activator of amino acid biosynthetic genes containing 2 acidic activation domains and a C-terminal bZIP domain, comprised of a basic alpha-helical DNA-binding region and a coiled-coil dimerization region. Length = 54

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

 Score = 55.3 bits (134), Expect = 2e-10
 Identities = 22/50 (44%), Positives = 34/50 (68%), Gaps = 1/50 (2%)

Query: 280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQL 329
           +  R+RR++ N E+ARRSR +K+   EEL  +V  L +ENA L+ ++ QL
Sbjct: 3   DEYRDRRRR-NNEAARRSREKKKQREEELEERVKELEEENAQLRQKVEQL 51

Length = 54

>gnl|CDD|224259 COG1340, COG1340, Uncharacterized archaeal coiled-coil protein [Function unknown]

 Score = 47.0 bits (112), Expect = 7e-06
 Identities = 20/83 (24%), Positives = 41/83 (49%), Gaps = 10/83 (12%)

Query: 267 AVLPPETWIQNERELKR-----ERRKQSNRESARRSRLRKQA-----EAEELSRKVDSLI 316
           +VL PE   +  +++K      E  K++  E+ +   L+ +      +A E+  K+  L 
Sbjct: 126 SVLTPEEERELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELA 185

Query: 317 DENASLKSEINQLSENSEKLRQE 339
           +E      E+ +L E +++LR+E
Sbjct: 186 NEAQEYHEEMIKLFEEADELRKE 208

Length = 294

>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 19/98 (19%), Positives = 32/98 (32%), Gaps = 29/98 (29%)

Query: 275 IQNEREL----------KRERRKQSNRESARRSRLR-KQAEAEELSRKVDSLIDENA--- 320
           ++  RE+          + E  ++      R   L  K+ E +E   K D  + EN    
Sbjct: 3   LEKRREMEEVQLALDAKREEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKR 62

Query: 321 ---------------SLKSEINQLSENSEKLRQENAAL 343
                            + EI +L    E+L+ E   L
Sbjct: 63  RRAEKKAEEEKKLRKEKEEEIKELKAELEELKAEIEKL 100

This family is found in eukaryotes. It is a coiled-coil domain of unknwon function. Length = 126

>gnl|CDD|203371 pfam06005, DUF904, Protein of unknown function (DUF904)

 Score = 38.0 bits (89), Expect = 5e-04
 Identities = 15/39 (38%), Positives = 23/39 (58%)

Query: 306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
           EEL  K+   ++  A L+ EI +L E +E+L +EN  L 
Sbjct: 7   EELESKIQQAVETIALLQMEIEELKEENEQLSEENEELE 45

This family consists of several bacterial and archaeal hypothetical proteins of unknown function. Length = 72

>gnl|CDD|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16)

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 3/70 (4%)

Query: 275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE 334
            Q E+ +      +S   S        + E +E  +  ++L DE  SL  E+N L E   
Sbjct: 112 QQLEKTIAE---LRSEITSLETEIRDLREELQEKEKDNETLQDELISLNIELNALEEKLR 168

Query: 335 KLRQENAALL 344
           KL++EN  L+
Sbjct: 169 KLQKENQELV 178

Autophagy is a ubiquitous intracellular degradation system for eukaryotic cells. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. ATG16 (also known as Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway. Length = 194

>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 38.8 bits (91), Expect = 0.002
 Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 10/73 (13%)

Query: 272 ETWIQNERELKRERRKQSNRESARRSRLRK-QAEAEELSRKVDSLIDENASLKSEINQLS 330
           E W+ + R L       S+  SAR  RL + Q E  EL  ++  L ++ A L+ E  +L 
Sbjct: 50  EGWVLS-RYL-------SDTPSAR-ERLPELQQELAELQEELAELQEQLAELQQENQELK 100

Query: 331 ENSEKLRQENAAL 343
           +    L  E   L
Sbjct: 101 QELSTLEAELERL 113

Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region. Length = 198

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 1/69 (1%)

Query: 276 QNERELKRERRKQSN-RESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE 334
           +   +L+    +     E         Q   EEL  +++SL +  A LK EI +L E  +
Sbjct: 730 EELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQ 789

Query: 335 KLRQENAAL 343
            L++E   L
Sbjct: 790 ALQEELEEL 798

Length = 1163

>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein

 Score = 38.7 bits (91), Expect = 0.003
 Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 3/65 (4%)

Query: 276 QNERELKRERRKQSNRESARRSRLRK--QAEAEELSRKVDSLIDENASLKSEINQLSENS 333
           QN +EL+ +  +   ++SA  SRL    + E  EL +++D L +E A L+ EI+ L   +
Sbjct: 26  QN-KELEAKIEELRQKKSAEPSRLYSLYEQEIRELRKQLDELTNERARLQLEIDNLRLAA 84

Query: 334 EKLRQ 338
           E  R+
Sbjct: 85  EDFRE 89

Length = 312

>gnl|CDD|190534 pfam03131, bZIP_Maf, bZIP Maf transcription factor

 Score = 36.2 bits (84), Expect = 0.003
 Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 7/64 (10%)

Query: 281 LKRERRKQSNR---ESARRSRLRKQAEAE----ELSRKVDSLIDENASLKSEINQLSENS 333
           LK+ RR   NR   +S R  R++++ E E    +L ++V+ L  E + L  E + L    
Sbjct: 29  LKQRRRTLKNRGYAQSCRSKRVQQRHELEKEKSQLQQQVEQLKQEVSRLARERDALKAKY 88

Query: 334 EKLR 337
           E L+
Sbjct: 89  EALQ 92

Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerisation and DNA binding property. Thus, this family is probably related to pfam00170. Length = 93

>gnl|CDD|149160 pfam07926, TPR_MLP1_2, TPR/MLP1/MLP2-like protein

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 11/78 (14%)

Query: 278 ERELKR---------ERRKQSNRESARRSRLRKQAEA--EELSRKVDSLIDENASLKSEI 326
           EREL +           RKQ N      ++L+ +AE+   ELS   +S  ++   L+ E+
Sbjct: 48  ERELVKHAEDIEELQALRKQLNELKKEIAQLKAEAESAQAELSEAEESWEEQKKMLEDEL 107

Query: 327 NQLSENSEKLRQENAALL 344
           ++L +  E+L ++N  L 
Sbjct: 108 SELEKRIEELNEQNKLLH 125

The sequences featured in this family are similar to a region of human TPR protein and to yeast myosin-like proteins 1 (MLP1) and 2 (MLP2). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores. TPR is thought to be a component of nuclear pore complex- attached intra-nuclear filaments, and is implicated in nuclear protein import. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity. Length = 132

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	387
PF07777	189	MFMR: G-box binding protein MFMR; InterPro: IPR012	100.0
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	99.5
smart00338	65	BRLZ basic region leucin zipper.	99.44
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	99.36
KOG3584	348	consensus cAMP response element binding protein an	99.36
KOG0709	472	consensus CREB/ATF family transcription factor [Tr	99.3
KOG4343	655	consensus bZIP transcription factor ATF6 [Transcri	99.21
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	99.17
KOG0837	279	consensus Transcriptional activator of the JUN fam	98.73
PF03131	92	bZIP_Maf: bZIP Maf transcription factor; InterPro:	98.45
KOG4571	294	consensus Activating transcription factor 4 [Trans	98.28
KOG3119	269	consensus Basic region leucine zipper transcriptio	98.15
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	97.76
PF07777	189	MFMR: G-box binding protein MFMR; InterPro: IPR012	97.35
KOG3863	604	consensus bZIP transcription factor NRF1 [Transcri	97.33
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	96.99
PRK10884	206	SH3 domain-containing protein; Provisional	96.95
PRK13169	110	DNA replication intiation control protein YabA; Re	96.84
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.66
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	96.51
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	96.38
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.07
PF10224	80	DUF2205: Predicted coiled-coil protein (DUF2205);	96.07
COG4467	114	Regulator of replication initiation timing [Replic	95.8
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	95.76
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	95.76
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	95.75
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	95.72
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	95.64
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	95.63
PRK10884	206	SH3 domain-containing protein; Provisional	95.58
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	95.45
PRK15422	79	septal ring assembly protein ZapB; Provisional	95.39
PRK15422	79	septal ring assembly protein ZapB; Provisional	95.37
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	95.25
COG4026	290	Uncharacterized protein containing TOPRIM domain,	95.2
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	95.13
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.96
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	94.82
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	94.68
KOG4343	655	consensus bZIP transcription factor ATF6 [Transcri	94.66
KOG4005	292	consensus Transcription factor XBP-1 [Transcriptio	94.48
PRK11637	428	AmiB activator; Provisional	94.4
TIGR00219	283	mreC rod shape-determining protein MreC. MreC (mur	94.37
KOG3119	269	consensus Basic region leucine zipper transcriptio	94.23
PRK00295	68	hypothetical protein; Provisional	94.15
PRK04325	74	hypothetical protein; Provisional	94.11
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	94.1
KOG1962	216	consensus B-cell receptor-associated protein and r	94.06
PRK02119	73	hypothetical protein; Provisional	94.01
PRK02793	72	phi X174 lysis protein; Provisional	94.0
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	93.98
PRK00736	68	hypothetical protein; Provisional	93.97
PRK04406	75	hypothetical protein; Provisional	93.79
PRK11637	428	AmiB activator; Provisional	93.55
KOG4196	135	consensus bZIP transcription factor MafK [Transcri	93.4
PRK13922	276	rod shape-determining protein MreC; Provisional	93.33
PRK00846	77	hypothetical protein; Provisional	93.14
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	93.11
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	93.1
smart00338	65	BRLZ basic region leucin zipper.	92.94
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	92.82
KOG1414	395	consensus Transcriptional activator FOSB/c-Fos and	92.74
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	92.73
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.54
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	92.53
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	92.49
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.42
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.27
COG2433	652	Uncharacterized conserved protein [Function unknow	92.25
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	92.18
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	92.14
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	92.11
PRK00888	105	ftsB cell division protein FtsB; Reviewed	92.08
PF00170	64	bZIP_1: bZIP transcription factor cAMP response el	92.06
KOG3650	120	consensus Predicted coiled-coil protein [General f	91.82
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	91.74
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	91.69
COG4942	420	Membrane-bound metallopeptidase [Cell division and	91.63
PRK09039	343	hypothetical protein; Validated	91.62
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	91.62
KOG3335	181	consensus Predicted coiled-coil protein [General f	91.45
PRK00888	105	ftsB cell division protein FtsB; Reviewed	91.43
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	91.42
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	91.41
PHA02562	562	46 endonuclease subunit; Provisional	91.38
KOG2236	483	consensus Uncharacterized conserved protein [Funct	91.27
PRK02119	73	hypothetical protein; Provisional	91.25
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	91.19
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	91.16
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	91.1
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	90.99
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	90.94
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	90.93
PRK04406	75	hypothetical protein; Provisional	90.82
PF10186	302	Atg14: UV radiation resistance protein and autopha	90.76
PRK13169	110	DNA replication intiation control protein YabA; Re	90.75
PRK10803	263	tol-pal system protein YbgF; Provisional	90.7
COG4026	290	Uncharacterized protein containing TOPRIM domain,	90.65
KOG4571	294	consensus Activating transcription factor 4 [Trans	90.65
PF06216	389	RTBV_P46: Rice tungro bacilliform virus P46 protei	90.49
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	90.45
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	90.38
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	90.37
PF12709	87	Kinetocho_Slk19: Central kinetochore-associated; I	90.32
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	90.24
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.2
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	90.18
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	90.18
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	90.17
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	90.17
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	89.85
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	89.75
KOG1962	216	consensus B-cell receptor-associated protein and r	89.63
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	89.62
PF12711	86	Kinesin-relat_1: Kinesin motor; InterPro: IPR02465	89.61
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	89.5
PF15058	200	Speriolin_N: Speriolin N terminus	89.46
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	89.31
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	89.25
KOG0971	1243	consensus Microtubule-associated protein dynactin	89.25
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	89.25
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.24
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	89.14
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	88.98
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	88.9
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	88.82
PRK02793	72	phi X174 lysis protein; Provisional	88.59
PF05103	131	DivIVA: DivIVA protein; InterPro: IPR007793 The Ba	88.54
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	88.53
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	88.47
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	88.41
PRK04325	74	hypothetical protein; Provisional	88.41
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	88.4
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	88.37
PF05377	55	FlaC_arch: Flagella accessory protein C (FlaC); In	88.36
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	88.3
COG2900	72	SlyX Uncharacterized protein conserved in bacteria	88.22
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	88.12
KOG4797	123	consensus Transcriptional regulator [Transcription	88.11
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	88.08
PF13815	118	Dzip-like_N: Iguana/Dzip1-like DAZ-interacting pro	88.0
PF15294	278	Leu_zip: Leucine zipper	87.9
PRK00846	77	hypothetical protein; Provisional	87.82
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	87.76
PF00038	312	Filament: Intermediate filament protein; InterPro:	87.72
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	87.64
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	87.64
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	87.35
COG2919	117	Septum formation initiator [Cell division and chro	87.24
PRK00295	68	hypothetical protein; Provisional	87.23
PRK09039	343	hypothetical protein; Validated	87.2
PHA02562	562	46 endonuclease subunit; Provisional	87.11
COG2433	652	Uncharacterized conserved protein [Function unknow	87.03
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	87.02
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	87.02
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	86.96
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	86.91
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	86.73
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	86.69
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	86.68
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	86.63
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	86.54
KOG1103	561	consensus Predicted coiled-coil protein [Function	86.46
PF07716	54	bZIP_2: Basic region leucine zipper; InterPro: IPR	86.39
PF15556	252	Zwint: ZW10 interactor	86.32
KOG1318	411	consensus Helix loop helix transcription factor EB	86.13
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	86.12
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	86.06
cd07596	218	BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of So	86.01
PF07558	46	Shugoshin_N: Shugoshin N-terminal coiled-coil regi	85.9
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	85.89
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	85.88
PF04871	136	Uso1_p115_C: Uso1 / p115 like vesicle tethering pr	85.81
KOG3248	421	consensus Transcription factor TCF-4 [Transcriptio	85.75
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	85.73
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	85.7
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	85.68
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	85.6
PRK10803	263	tol-pal system protein YbgF; Provisional	85.44
PF14662	193	CCDC155: Coiled-coil region of CCDC155	85.29
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	85.27
PHA03162	135	hypothetical protein; Provisional	85.27
PF10482	120	CtIP_N: Tumour-suppressor protein CtIP N-terminal	85.25
PF15030	277	DUF4527: Protein of unknown function (DUF4527)	85.18
PF14645	116	Chibby: Chibby family	85.18
PHA03155	115	hypothetical protein; Provisional	85.14
KOG0249	916	consensus LAR-interacting protein and related prot	85.1
PF14282	106	FlxA: FlxA-like protein	85.1
COG4467	114	Regulator of replication initiation timing [Replic	85.06
PRK00736	68	hypothetical protein; Provisional	84.98
PF14662	193	CCDC155: Coiled-coil region of CCDC155	84.87
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	84.82
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	84.77
KOG1318	411	consensus Helix loop helix transcription factor EB	84.58
PF07558	46	Shugoshin_N: Shugoshin N-terminal coiled-coil regi	84.57
PF05812	118	Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro:	84.52
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	84.39
KOG2077	832	consensus JNK/SAPK-associated protein-1 [Signal tr	84.36
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	84.3
PF03670	83	UPF0184: Uncharacterised protein family (UPF0184);	84.22
PRK14127	109	cell division protein GpsB; Provisional	84.07
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	84.03
PF12808	52	Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2	84.02
TIGR02231	525	conserved hypothetical protein. This family consis	83.88
PF10669	121	Phage_Gp23: Protein gp23 (Bacteriophage A118); Int	83.78
PF12808	52	Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2	83.45
PRK11546	143	zraP zinc resistance protein; Provisional	83.39
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	83.25
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	83.24
TIGR02231	525	conserved hypothetical protein. This family consis	83.2
PF00038	312	Filament: Intermediate filament protein; InterPro:	83.12
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	83.09
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	83.08
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	82.89
PF04568	100	IATP: Mitochondrial ATPase inhibitor, IATP; InterP	82.85
PF10226	195	DUF2216: Uncharacterized conserved proteins (DUF22	82.82
KOG0933	1174	consensus Structural maintenance of chromosome pro	82.78
PF03980	109	Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essent	82.74
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	82.63
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	82.48
PF07047	134	OPA3: Optic atrophy 3 protein (OPA3); InterPro: IP	82.46
smart00340	44	HALZ homeobox associated leucin zipper.	82.42
PRK03918	880	chromosome segregation protein; Provisional	82.37
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	82.16
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	82.09
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	82.04
smart00340	44	HALZ homeobox associated leucin zipper.	81.99
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	81.97
PRK10361	475	DNA recombination protein RmuC; Provisional	81.96
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	81.88
PF13118	126	DUF3972: Protein of unknown function (DUF3972)	81.78
PF04420	161	CHD5: CHD5-like protein; InterPro: IPR007514 Membe	81.76
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	81.7
PF13815	118	Dzip-like_N: Iguana/Dzip1-like DAZ-interacting pro	81.65
PRK03992	389	proteasome-activating nucleotidase; Provisional	81.57
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	81.46
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	81.41
PF08537	323	NBP1: Fungal Nap binding protein NBP1; InterPro: I	81.39
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	81.37
KOG0288	459	consensus WD40 repeat protein TipD [General functi	81.33
PRK14160	211	heat shock protein GrpE; Provisional	81.32
PF04859	131	DUF641: Plant protein of unknown function (DUF641)	81.28
PRK04863	1486	mukB cell division protein MukB; Provisional	81.16
PF11180	192	DUF2968: Protein of unknown function (DUF2968); In	81.12
PF08232	134	Striatin: Striatin family; InterPro: IPR013258 Thi	80.86
TIGR02209	85	ftsL_broad cell division protein FtsL. This model	80.52
KOG4001	259	consensus Axonemal dynein light chain [Cytoskeleto	80.48
KOG0709	472	consensus CREB/ATF family transcription factor [Tr	80.45
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	80.45
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	80.41
PRK05431	425	seryl-tRNA synthetase; Provisional	80.31
PF11365	96	DUF3166: Protein of unknown function (DUF3166); In	80.27

>PF07777 MFMR: G-box binding protein MFMR; InterPro: IPR012900 This region is found to the N terminus of IPR011616 from INTERPRO, which is a transcription factor domain

Probab=100.00  E-value=2e-70  Score=502.71  Aligned_cols=179  Identities=60%  Similarity=1.043  Sum_probs=168.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCC--C
Q 016555            1 MGNNEDGKSFKSEKPSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPYGAP--Y   78 (387)
Q Consensus         1 Mg~~e~~~~~k~~k~~s~~~~~~~~~~~ypdWs~~QaYygp~~~~pp~f~s~vas~~~phPymWg~~qpmmpPyGtP--y   78 (387)
                      ||++|++|++|++|++++++++|+++||||||++||||||+| ++|+||++.||++|+|||||||+|||||||||||  |
T Consensus         1 MG~~E~~~~~k~~k~~s~~~~~~~~~~~ypDWs~mQAYyg~~-~~p~~f~s~va~sp~phPYMWG~~q~mmPPYGtP~pY   79 (189)
T PF07777_consen    1 MGSSEEGKPSKSSKPSSPPPEDQPTPHVYPDWSAMQAYYGPG-APPPYFNSAVASSPQPHPYMWGPQQPMMPPYGTPVPY   79 (189)
T ss_pred             CCCccCCcCCCCCCCCCCCcCCCCCCccCCccHhhhhccCCC-CCCcccCcccCCCCCCCCcccCCCccccCCCCCCCCC
Confidence            999999999999999887655899999999999999999999 8889999999999999999999999999999997  9


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCcCC-CCCCCCCCcccchhhccccC-CcccccCCCCCCCCCC
Q 016555           79 AAIYSTGGVYAHPAVPLGSHAHNHGVPTSPA--AVTPLNTEA-PTKSSGNADRGLAKKLKGLD-GLAMSIGNASAESAEG  154 (387)
Q Consensus        79 ~a~yp~ggvyaHP~~p~~~~p~~~~~~~sp~--~~tp~s~e~-~~k~~~~~~~~~~Kk~Kg~~-Gl~ms~g~~~~~~~~~  154 (387)
                      +||||||||||||+||+++|||++++++++.  ..+|+++|+ ++|++++|||+++|||||+| ||+|++||++.+|+++
T Consensus        80 ~A~YphGgvYAHP~mp~~s~p~~~~~~~s~~~~~~tp~s~E~~p~Kss~~kd~~~~KksKg~~g~~a~s~~n~~~gk~~~  159 (189)
T PF07777_consen   80 PAMYPHGGVYAHPSMPPGSHPFSPYAMPSPETPAATPLSTETDPGKSSGNKDKGSMKKSKGFDGGLAMSIKNGESGKTSG  159 (189)
T ss_pred             ccccCCCccccCCCCCcccccCCCcccccccccCCCCcccccccccCcCccccccccccccccccceeeccCCccCcccc
Confidence            9999999999999999999999999999954  478999999 69999999999999999999 6999999999999998


Q ss_pred             -CCCCCCCCC---CCCCCCCCCCCcccccc
Q 016555          155 -GAEQRPSQS---EADGSTDGSDGNTVRAG  180 (387)
Q Consensus       155 -~~~~~~S~S---~segssdgsd~ns~~~~  180 (387)
                       ++|++.|||   .+||||||||+|+++++
T Consensus       160 ~s~n~~~Sqs~eSgsegSSdgSD~Nt~~~~  189 (189)
T PF07777_consen  160 SSANDGSSQSSESGSEGSSDGSDGNTNNDS  189 (189)
T ss_pred             CCCCCccCccccccccccccCcCccccCCC
Confidence             568899996   47999999999999874

It is between 150 and 200 amino acids in length. The N-terminal half is rather rich in proline residues and has been termed the PRD (proline rich domain) [], whereas the C-terminal half is more polar and has been called the MFMR (multifunctional mosaic region). It has been suggested that this family is composed of three sub-families called A, B and C [], classified according to motif composition. It has been suggested that some of these motifs may be involved in mediating protein-protein interactions []. The MFMR region contains a nuclear localisation signal in bZIP opaque and GBF-2 []. The MFMR also contains a transregulatory activity in TAF-1. The MFMR in CPRF-2 contains cytoplasmic retention signals []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>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=99.50  E-value=1.2e-13  Score=106.79  Aligned_cols=64  Identities=52%  Similarity=0.702  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      |++.|+.+|+++||+||++||.||++++++|+.+|..|+.+|..|+.++..|..++..|..+|.
T Consensus         1 e~~~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e~~   64 (64)
T PF00170_consen    1 EKEDKRERRRERNREAARRSRQRKKQYIEELEEKVEELESENEELKKELEQLKKEIQSLKSENH   64 (64)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            4678899999999999999999999999999999999999999999999999999999998873

; 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 ....

>smart00338 BRLZ basic region leucin zipper

Probab=99.44  E-value=5.5e-13  Score=103.30  Aligned_cols=62  Identities=55%  Similarity=0.720  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      +.|+.+|+++||+||++||.||++|+.+|+.+|..|+.+|..|+.++..|+.++..|+.++.
T Consensus         3 ~~k~~rR~~rNR~aA~~~R~rKk~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~~   64 (65)
T smart00338        3 DEKRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSELE   64 (65)
T ss_pred             cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45889999999999999999999999999999999999999999999998888777776653

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=99.36  E-value=2.5e-12  Score=122.52  Aligned_cols=91  Identities=27%  Similarity=0.227  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcc
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLF  359 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~l  359 (387)
                      |+|-+|||++||++|+-+|.|||+++++|+.++..|+.||+.|+.|.+.|++.++.|..+|..|..+|+.+..+++....
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            66788999999999999999999999999999999999999999999999999999999999999999999999988887


Q ss_pred             cccCCCcccee
Q 016555          360 SNEANRSCVFV  370 (387)
Q Consensus       360 ~~~~~~~~~~~  370 (387)
                      ..+.++.|...
T Consensus       147 ~~~~~~~v~ee  157 (292)
T KOG4005|consen  147 QQQHNTRVIEE  157 (292)
T ss_pred             HHHHhhHHHhh
Confidence            77777666543

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

Probab=99.36  E-value=1.7e-12  Score=126.48  Aligned_cols=64  Identities=33%  Similarity=0.325  Sum_probs=58.5

Q ss_pred             CccccccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          271 PETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE  334 (387)
Q Consensus       271 ~e~~~~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~  334 (387)
                      +..-..||.-+||+-|+++|||+||.||+|||+|+.+||.||..|+.+|..|-+||+.|++-|-
T Consensus       280 sp~~~aee~trKRevRLmKNREAARECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLYc  343 (348)
T KOG3584|consen  280 SPTQGAEEATRKREVRLMKNREAARECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELYC  343 (348)
T ss_pred             CCCccchhhhhHHHHHHHhhHHHHHHHHHhHhHHHHHHHhHHHHHhcccHHHHHHHHHHHHHhh
Confidence            3445678999999999999999999999999999999999999999999999999999987653

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

Probab=99.30  E-value=1.8e-12  Score=132.88  Aligned_cols=96  Identities=30%  Similarity=0.395  Sum_probs=73.7

Q ss_pred             cHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       277 dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      +|+.+||.|||+||++||+.||+|||+|++.||.||....+||++|++++++|+.++..|.++...|...+.+.      
T Consensus       246 EEriLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt~v~q~------  319 (472)
T KOG0709|consen  246 EERILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKLQTLVIQV------  319 (472)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHHHHHHhhc------
Confidence            78899999999999999999999999999999999999999999999999988766555555554444444332      


Q ss_pred             hcccccCCCccceeccccccccc
Q 016555          357 SLFSNEANRSCVFVCECFCCNLL  379 (387)
Q Consensus       357 ~~l~~~~~~~~~~~~~~f~~n~l  379 (387)
                       .-......+|.......||.++
T Consensus       320 -an~s~qt~tC~av~~lS~~l~~  341 (472)
T KOG0709|consen  320 -ANKSTQTSTCLAVLLLSFCLLL  341 (472)
T ss_pred             -ccchhccchhHHHHHHHHHHHH
Confidence             2233444557776655555554

>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]

Probab=99.21  E-value=5.6e-11  Score=123.55  Aligned_cols=69  Identities=35%  Similarity=0.430  Sum_probs=63.8

Q ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       276 ~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      .|.+-.||+.|+++|||+|..||+|||+|++.||.+++.|.+||+.|+.|...|+++++.|..||..|+
T Consensus       275 ~d~kv~krqQRmIKNResA~~SRkKKKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~En~~~k  343 (655)
T KOG4343|consen  275 SDIKVLKRQQRMIKNRESACQSRKKKKEYMLGLEARLQALLSENEQLKKENATLKRQLDELVSENQRLK  343 (655)
T ss_pred             cCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhcCcccc
Confidence            588899999999999999999999999999999999999999999999888888888888888887776

>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=99.17  E-value=1.7e-10  Score=86.79  Aligned_cols=52  Identities=54%  Similarity=0.739  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSEN  332 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee  332 (387)
                      +.++.||+ +||+||++||.||++++++|+.+|..|+.+|..|..+|..|+.+
T Consensus         3 ~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L~~E   54 (54)
T PF07716_consen    3 EEKRERRE-RNREAARRSRQRKKQREEELEQEVQELEEENEQLRQEIAQLERE   54 (54)
T ss_dssp             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34566677 99999999999999999999999999999999999999988754

; 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 ....

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

Probab=98.73  E-value=4.5e-08  Score=94.76  Aligned_cols=75  Identities=31%  Similarity=0.357  Sum_probs=63.4

Q ss_pred             CccccccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          271 PETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       271 ~e~~~~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .+..+++++..|-+|.+++|||+|++||.||.++|.+||.+|..|..+|..|..++..|++.       ..+|++++...
T Consensus       195 spid~e~qe~~kleRkrlrnreaa~Kcr~rkLdrisrLEdkv~~lk~~n~~L~~~l~~l~~~-------v~e~k~~V~~h  267 (279)
T KOG0837|consen  195 SPIDMEDQEKIKLERKRLRNREAASKCRKRKLDRISRLEDKVKTLKIYNRDLASELSKLKEQ-------VAELKQKVMEH  267 (279)
T ss_pred             CcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            45667788889999999999999999999999999999999999999999999988887664       44566666655


Q ss_pred             hh
Q 016555          351 II  352 (387)
Q Consensus       351 ~~  352 (387)
                      .+
T Consensus       268 i~  269 (279)
T KOG0837|consen  268 IH  269 (279)
T ss_pred             Hh
Confidence            43

>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=98.45  E-value=2.6e-09  Score=88.46  Aligned_cols=68  Identities=31%  Similarity=0.489  Sum_probs=56.5

Q ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       276 ~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      ++..++|..||+.+||.+|++||.||.+++++|+.++..|+.+...|..++..|+.+++.|..++..|
T Consensus        24 ~q~~~lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~~l~~~~~~L~~e~~~l~~e~~~lk~~~~~L   91 (92)
T PF03131_consen   24 EQIAELKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIEQLRQEIEQLQQELSELRQERDELKRKLEQL   91 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHCCCCCCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45678899999999999999999999999999999999988888888887777777666555555444

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=98.28  E-value=4.3e-06  Score=82.42  Aligned_cols=53  Identities=32%  Similarity=0.480  Sum_probs=44.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKL  336 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L  336 (387)
                      .|.+++|+.||-|.|+||+++.|.|+.+++.|+.+|.+|+.++..|.+|+.-|
T Consensus       229 ~rkr~qnk~AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~yl  281 (294)
T KOG4571|consen  229 RRKRQQNKAAATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRYL  281 (294)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456777889999999999999999999999999999999998876654433

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

Probab=98.15  E-value=7.2e-06  Score=80.21  Aligned_cols=55  Identities=29%  Similarity=0.579  Sum_probs=47.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      ..|+.||-+|+||||.++|...+++..||..|+.||+.|+.+|.+|+.++..|+.
T Consensus       196 ~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~  250 (269)
T KOG3119|consen  196 KERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRR  250 (269)
T ss_pred             HHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345569999999999999999999999999999999999999988776554443

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=97.76  E-value=0.00024  Score=62.91  Aligned_cols=67  Identities=28%  Similarity=0.382  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          279 RELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       279 ~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -.+|..||-++||=-|+-||-|+-++-++||       .++..|.++|+.|.+++..++.|.+.|+.+++.+..
T Consensus        50 vrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE-------~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~  116 (135)
T KOG4196|consen   50 VRLKQRRRTLKNRGYAQSCRVKRVQQKHELE-------KEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQN  116 (135)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4678888999999999999999988766655       555666667777777777777788888888887755

>PF07777 MFMR: G-box binding protein MFMR; InterPro: IPR012900 This region is found to the N terminus of IPR011616 from INTERPRO, which is a transcription factor domain

Probab=97.35  E-value=0.0017  Score=60.93  Aligned_cols=65  Identities=25%  Similarity=0.396  Sum_probs=38.9

Q ss_pred             ChhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCC-CCCCCCCc-----ccCCCCCCCCCCCCCCCCCCCC-CC
Q 016555           31 DWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMM-PPYGAPYA-----AIYSTGGVYAHPAVPLGSHAHN-HG  103 (387)
Q Consensus        31 dWs~~QaYygp~~~~pp~f~s~vas~~~phPymWg~~qpmm-pPyGtPy~-----a~yp~ggvyaHP~~p~~~~p~~-~~  103 (387)
                      |=....+|. -=.++=.||.+.     .+|||.--.   +. .|-.-||+     .|.||.|. .||+.++  |||+ .|
T Consensus        22 ~~~~~~~yp-DWs~mQAYyg~~-----~~p~~f~s~---va~sp~phPYMWG~~q~mmPPYGt-P~pY~A~--YphGgvY   89 (189)
T PF07777_consen   22 DQPTPHVYP-DWSAMQAYYGPG-----APPPYFNSA---VASSPQPHPYMWGPQQPMMPPYGT-PVPYPAM--YPHGGVY   89 (189)
T ss_pred             CCCCCccCC-ccHhhhhccCCC-----CCCcccCcc---cCCCCCCCCcccCCCccccCCCCC-CCCCccc--cCCCccc
Confidence            445566663 112344577532     678885432   11 12233444     68889888 8889988  7774 88


Q ss_pred             CCCC
Q 016555          104 VPTS  107 (387)
Q Consensus       104 ~~~s  107 (387)
                      ++++
T Consensus        90 AHP~   93 (189)
T PF07777_consen   90 AHPS   93 (189)
T ss_pred             cCCC
Confidence            8877

It is between 150 and 200 amino acids in length. The N-terminal half is rather rich in proline residues and has been termed the PRD (proline rich domain) [], whereas the C-terminal half is more polar and has been called the MFMR (multifunctional mosaic region). It has been suggested that this family is composed of three sub-families called A, B and C [], classified according to motif composition. It has been suggested that some of these motifs may be involved in mediating protein-protein interactions []. The MFMR region contains a nuclear localisation signal in bZIP opaque and GBF-2 []. The MFMR also contains a transregulatory activity in TAF-1. The MFMR in CPRF-2 contains cytoplasmic retention signals []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]

Probab=97.33  E-value=0.00037  Score=74.81  Aligned_cols=74  Identities=22%  Similarity=0.183  Sum_probs=55.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccc
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLFSN  361 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~l~~  361 (387)
                      |-.||+=+||.||++||.||..-|..||.+|+.|+.|-.+|.+|-..+.       .+...++.+|..|+.+.-..+.+.
T Consensus       490 rDIRRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~~~d-------~~L~~~kqqls~L~~~Vf~~lrd~  562 (604)
T KOG3863|consen  490 RDIRRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERDELD-------STLGVMKQQLSELYQEVFQQLRDE  562 (604)
T ss_pred             hccccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3456888999999999999999999999999998888777766655544       455566666666666555555444


Q ss_pred             c
Q 016555          362 E  362 (387)
Q Consensus       362 ~  362 (387)
                      .
T Consensus       563 e  563 (604)
T KOG3863|consen  563 E  563 (604)
T ss_pred             c
Confidence            4

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

Probab=96.99  E-value=0.0034  Score=54.06  Aligned_cols=50  Identities=24%  Similarity=0.346  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +.+.+|+.++..|..+..+|+.++..|-+++..|+.||..||++|.++..
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            56889999999999999999999999999999999999999999998755

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=96.95  E-value=0.012  Score=55.97  Aligned_cols=50  Identities=14%  Similarity=0.124  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..++.+++++..+..|+.+|++|++++..++.+++.|++||..++..+..
T Consensus       122 ~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~~  171 (206)
T PRK10884        122 EMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTIIM  171 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33555666777778888888888888888888888888888888877665

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=96.84  E-value=0.0053  Score=53.20  Aligned_cols=48  Identities=25%  Similarity=0.351  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ..+.+|++++..|..+...|+..+..|-+++..|+.||..||++|.++
T Consensus         8 d~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          8 DALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            467889999999999999999999999999999999999999999986

>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=96.66  E-value=0.015  Score=46.77  Aligned_cols=49  Identities=27%  Similarity=0.283  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .+.-|+.+++.|+.+|..|..+...|++++.+|+.|...+.++|..+.+
T Consensus        19 ti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~   67 (72)
T PF06005_consen   19 TIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLG   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555555555544555555555555555555555554444

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

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

Probab=96.51  E-value=0.021  Score=45.94  Aligned_cols=49  Identities=24%  Similarity=0.314  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +.++.|+.+|..+-..+..|+.++..|++++..|..+|..|+++...+.
T Consensus         4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~   52 (72)
T PF06005_consen    4 ELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLK   52 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            3567777777777666666666666666665555555555555555443

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

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=96.38  E-value=0.027  Score=44.68  Aligned_cols=53  Identities=21%  Similarity=0.185  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWT  355 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~  355 (387)
                      +.++.|-..++.|+.||..|+.++..++.+...|...|..-+.+|+.+...+.
T Consensus         7 ~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk   59 (65)
T TIGR02449         7 AQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLK   59 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            45677777778888888888888888888888888888877777777765443

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.

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

Probab=96.07  E-value=0.13  Score=47.91  Aligned_cols=75  Identities=20%  Similarity=0.173  Sum_probs=56.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      ++.++....+..-+.-......++.+++.-++.|..|...|.-++..|.+++..|+.||..|-+++-+.....++
T Consensus       116 ~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm~~k~~eAe  190 (194)
T PF08614_consen  116 RRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWMQRKAQEAE  190 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444555555555666778888888888888888888888999999999999999999998887776554

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

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

Probab=96.07  E-value=0.038  Score=45.48  Aligned_cols=50  Identities=30%  Similarity=0.363  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +.-++|.+++..|+.....|..++...++++++|+.||..|..=|..+..
T Consensus        16 e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~   65 (80)
T PF10224_consen   16 EEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMS   65 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34477888999999999999999999999999999999999999988755

The exact function is unknown.

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

Probab=95.80  E-value=0.036  Score=47.97  Aligned_cols=47  Identities=26%  Similarity=0.324  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..+.+|+.++.+|-+|...|++.+..|-+++..|+-||..||++|..
T Consensus         8 d~v~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~   54 (114)
T COG4467           8 DQVDNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE   54 (114)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence            46788999999999999999999999999999999999999999988

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.76  E-value=0.057  Score=43.60  Aligned_cols=45  Identities=24%  Similarity=0.327  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      .-+.-|+-+|+.|+.+|+.|..++..++...+.|+.||.+|+++-
T Consensus        18 dTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~   62 (79)
T COG3074          18 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQ   62 (79)
T ss_pred             HHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345567778888888888888888877777777777777777653

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.76  E-value=0.06  Score=43.49  Aligned_cols=54  Identities=24%  Similarity=0.206  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      ==|-++++|..+-..|..|-+.++...+.|..++++|..|.....++|+.+.+.
T Consensus        22 LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsLLGk   75 (79)
T COG3074          22 LLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRALLGK   75 (79)
T ss_pred             HHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            446789999999999999999999999999999999999999999999988774

>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=95.75  E-value=0.029  Score=41.31  Aligned_cols=39  Identities=21%  Similarity=0.237  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          314 SLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       314 ~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +|+.+...|+...+.|+.+++.|..||..|+.+|..+..
T Consensus         2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~   40 (45)
T PF02183_consen    2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE   40 (45)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555666666666666666655544

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

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=95.72  E-value=0.042  Score=50.57  Aligned_cols=39  Identities=26%  Similarity=0.279  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ...|+.||..|+.++..|+++++.|+.||..|..++..+
T Consensus        99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~  137 (161)
T TIGR02894        99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTI  137 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666666666666666666666665543

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.

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=95.64  E-value=0.067  Score=42.45  Aligned_cols=49  Identities=27%  Similarity=0.258  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      +..|+.+|+.|-...+.|+.+...|+++...+..|++.|+++.......
T Consensus         2 L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~r   50 (65)
T TIGR02449         2 LQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQK   50 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999998876543

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.

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

Probab=95.63  E-value=0.00048  Score=70.83  Aligned_cols=64  Identities=30%  Similarity=0.404  Sum_probs=55.3

Q ss_pred             ccccHHHHHHHHHHHHhHHHHHH---HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 016555          274 WIQNERELKRERRKQSNRESARR---SRLRKQAEAEELSRKVDSLI-DENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       274 ~~~dE~e~KR~RRk~rNRESARR---SR~RKq~~~eeLe~rV~~L~-~EN~~L~~el~~L~ee~~~L~  337 (387)
                      .+..+.+.||.+|+++|+.+|.+   ||.||+....+|+.+|+.|+ .++..|..+|..|+.+.+.|+
T Consensus       146 ~~~~~~~~~~~~rr~rn~~aA~~~~~~r~~~~~~t~~l~~qv~~l~~~~~~~l~~~is~Lqne~~~l~  213 (395)
T KOG1414|consen  146 VLTPEPEEKRLLRRERNPVAAAKPIPCRNRKKPSTSPLQRQVELLPPGINSPLSPQISPLQNEADHLE  213 (395)
T ss_pred             CCCCcchHHHHhhccccccccCCCCCCccccccccccccchHhhcCCCCCcccCccccccccHHHHHH
Confidence            35588899999999999999999   99999999999999999999 888888777777766554443

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.58  E-value=0.22  Score=47.37  Aligned_cols=55  Identities=15%  Similarity=-0.020  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWT  355 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~  355 (387)
                      -+++..+|+.+++.+..+..+|+.++++|+++++.++.|++.|+.++..+.....
T Consensus       116 ~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~  170 (206)
T PRK10884        116 WNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTII  170 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3467778888888888888888888888888888888888888888887766443

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=95.45  E-value=0.067  Score=56.58  Aligned_cols=48  Identities=23%  Similarity=0.230  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +..++||++++.|+.|.+.|.++.+.++++++.|+.||..|+++++.+
T Consensus        76 ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~  123 (475)
T PRK13729         76 VTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKAL  123 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhh
Confidence            477899999999999999999999999999999999999999999654

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=95.39  E-value=0.094  Score=43.08  Aligned_cols=44  Identities=25%  Similarity=0.335  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVC  346 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~  346 (387)
                      +-|.-|+-+|+.|+.+|..|..+++.++.....|+.||..|+++
T Consensus        18 dtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E   61 (79)
T PRK15422         18 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQ   61 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            45566777777888888888777777444444444444444444

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=95.37  E-value=0.1  Score=42.84  Aligned_cols=52  Identities=21%  Similarity=0.222  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      |-++++|+.+-..|..+++.++..-..|.+++.+|+.|...+.++|..+.+.
T Consensus        24 qmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLGk   75 (79)
T PRK15422         24 QMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGR   75 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4567777777777777777777777777777777777777777777776653

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=95.25  E-value=0.46  Score=39.61  Aligned_cols=76  Identities=21%  Similarity=0.259  Sum_probs=68.7

Q ss_pred             cHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       277 dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -+.-++|..+.+.+=|++=..|.-+.....+|+.+++.|..+...|-+++.....++..|+.-|..+..+|.....
T Consensus         6 le~al~rL~~aid~LE~~v~~r~~~~~~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e   81 (89)
T PF13747_consen    6 LEAALTRLEAAIDRLEKAVDRRLERDRKRDELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIE   81 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667889999999999998888888888899999999999999999999999999999999999999999987654

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

Probab=95.20  E-value=0.12  Score=50.18  Aligned_cols=55  Identities=22%  Similarity=0.219  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWT  355 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~  355 (387)
                      -++.++++..+-+.|..+|.+|..+++.+++++..|+.||..|.+.++.+.++.-
T Consensus       140 ~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~  194 (290)
T COG4026         140 LKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVY  194 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHH
Confidence            3445666666667777777777777778888888899999999988888766443

>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=95.13  E-value=0.077  Score=39.11  Aligned_cols=42  Identities=36%  Similarity=0.388  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .||...+.|+..-..|+.+...|.++++.|++|...|+.+|.
T Consensus         2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~   43 (45)
T PF02183_consen    2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQ   43 (45)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            478888888888888889999999999999999999988875

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

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

Probab=94.96  E-value=0.49  Score=42.07  Aligned_cols=73  Identities=19%  Similarity=0.222  Sum_probs=52.7

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          281 LKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       281 ~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      +++..|-..-||..-....++...++.|+..++.|+.++..+..++..++.+...|..++..+...++....+
T Consensus        44 l~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee  116 (151)
T PF11559_consen   44 LQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEE  116 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555666777777778888888888888888888888888888777777777766666666666555443

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.

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

Probab=94.82  E-value=0.15  Score=40.44  Aligned_cols=50  Identities=16%  Similarity=0.130  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+++++||.++..++.-..+|...+...+++++.|+.+...|.++|+.+.
T Consensus         3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    3 EERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            36789999999999999999999999999999999999999999998875

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.

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

Probab=94.68  E-value=0.047  Score=50.49  Aligned_cols=46  Identities=28%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      +++||.++++--++|.-|..||+    |.+.|+.++..||++|.+|..++
T Consensus         2 LeD~EsklN~AIERnalLE~ELd----EKE~L~~~~QRLkDE~RDLKqEl   47 (166)
T PF04880_consen    2 LEDFESKLNQAIERNALLESELD----EKENLREEVQRLKDELRDLKQEL   47 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHCH--------------
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            57888888888888888888773    33444444444444444444444

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.

>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]

Probab=94.66  E-value=0.098  Score=56.01  Aligned_cols=83  Identities=20%  Similarity=0.147  Sum_probs=60.5

Q ss_pred             CCccccccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          270 PPETWIQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       270 ~~e~~~~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.+....-+.|.|-.||.+         |+-|-.+-.++.++.  -++--..|+.+|+.|..||+.|+.||..||.+|..
T Consensus       266 l~~stp~~~~d~kv~krqQ---------RmIKNResA~~SRkK--KKEy~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~  334 (655)
T KOG4343|consen  266 LQSSTPNVGSDIKVLKRQQ---------RMIKNRESACQSRKK--KKEYMLGLEARLQALLSENEQLKKENATLKRQLDE  334 (655)
T ss_pred             ccCCCCCCccCHHHHHHHH---------HHHhhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            3455556788999888765         233433444433322  23344678999999999999999999999999999


Q ss_pred             hhhhhhhhcccccC
Q 016555          350 VIIFWTVSLFSNEA  363 (387)
Q Consensus       350 l~~~~~~~~l~~~~  363 (387)
                      +..|.....+....
T Consensus       335 l~~En~~~kvpsp~  348 (655)
T KOG4343|consen  335 LVSENQRLKVPSPK  348 (655)
T ss_pred             HhhcCcccccCCCc
Confidence            99988888766654

>KOG4005 consensus Transcription factor XBP-1 [Transcription]

Probab=94.48  E-value=0.46  Score=46.55  Aligned_cols=51  Identities=22%  Similarity=0.175  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      .++.+|+.+-+.|+.||+.|+.+...|-.++.+|+.+...|+++|.++...
T Consensus        97 ~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l~~~~~~  147 (292)
T KOG4005|consen   97 YEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELELLRQELAELKQQ  147 (292)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHHH
Confidence            457889999999999999999999999999999999999898888776443

>PRK11637 AmiB activator; Provisional

Probab=94.40  E-value=0.58  Score=48.35  Aligned_cols=59  Identities=14%  Similarity=0.104  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      .-+.+++.|+.++..++.+...+..+|..++.++..|+.+...|+++|..+...+....
T Consensus        72 ~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rl  130 (428)
T PRK11637         72 SLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQL  130 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44466677777777777777777777777777777777777777777666655554444

>TIGR00219 mreC rod shape-determining protein MreC

Probab=94.37  E-value=0.094  Score=51.88  Aligned_cols=40  Identities=30%  Similarity=0.295  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhh
Q 016555          311 KVDSLIDENASLKSEINQLSENSE----KLRQENAALLVCHINV  350 (387)
Q Consensus       311 rV~~L~~EN~~L~~el~~L~ee~~----~L~~EN~~Lr~~L~~l  350 (387)
                      .+..|++||++|++|+..|+++..    .|+.||++||+.|.-.
T Consensus        67 ~~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~  110 (283)
T TIGR00219        67 DVNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSP  110 (283)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            456677888888888766644333    4889999999877654

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.

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

Probab=94.23  E-value=0.3  Score=48.12  Aligned_cols=60  Identities=13%  Similarity=0.205  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       297 SR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      .++|++...+-+++..+.-+....+++.++..|.+|++.|+.++.+|+.+|..+......
T Consensus       195 y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~~  254 (269)
T KOG3119|consen  195 YKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRRLFLQ  254 (269)
T ss_pred             HHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444444555555555555556666666666666666666666666666665554333

>PRK00295 hypothetical protein; Provisional

Probab=94.15  E-value=0.35  Score=38.36  Aligned_cols=49  Identities=18%  Similarity=0.176  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +++++||.++..++.-..+|-..|.+.+++++.|+.+...|.++|+.+.
T Consensus         5 ~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00295          5 ERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4589999999999999999999999999999999999999999998864

>PRK04325 hypothetical protein; Provisional

Probab=94.11  E-value=0.35  Score=39.01  Aligned_cols=49  Identities=12%  Similarity=0.051  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +++++||.++..++.-..+|-..|...++++..|+.+...|.++|+++.
T Consensus         9 ~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~   57 (74)
T PRK04325          9 DRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN   57 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4589999999999999999999999999999999999999998888764

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.10  E-value=0.46  Score=53.09  Aligned_cols=34  Identities=15%  Similarity=-0.050  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccc
Q 016555          328 QLSENSEKLRQENAALLVCHINVIIFWTVSLFSN  361 (387)
Q Consensus       328 ~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~l~~  361 (387)
                      .|+.+...|..|...|..+|+++.+.+.+..++.
T Consensus       434 ~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~  467 (1118)
T KOG1029|consen  434 YLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDI  467 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhheecc
Confidence            4455566666667777777777666655555444

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

Probab=94.06  E-value=0.25  Score=47.54  Aligned_cols=49  Identities=18%  Similarity=0.220  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .+++++..+.+.+.++.++..|+++.+.++.|+++|..|++.|+++++.
T Consensus       163 L~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~  211 (216)
T KOG1962|consen  163 LETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIES  211 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhc
Confidence            3445555556666777777778888888888888888888888888763

>PRK02119 hypothetical protein; Provisional

Probab=94.01  E-value=0.35  Score=38.95  Aligned_cols=50  Identities=10%  Similarity=-0.003  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+++.+||.++..++.-..+|-..|.+.+++++.|+.+...|.++|+.+.
T Consensus         8 e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~   57 (73)
T PRK02119          8 ENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ   57 (73)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            36788888888888888888888888888888888888888888887764

>PRK02793 phi X174 lysis protein; Provisional

Probab=94.00  E-value=0.35  Score=38.77  Aligned_cols=49  Identities=16%  Similarity=0.016  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +++.+||.++..++.-..+|-..|.+.++++..|+.+...|.++|+.+.
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            6788899999999988889988888888888888888888888888764

>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=93.98  E-value=0.91  Score=41.03  Aligned_cols=67  Identities=22%  Similarity=0.204  Sum_probs=50.0

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      ..+.|++.+-+--.-+++.++.|+.++..+..+...|..++..|+.+...|..+....+.++..+..
T Consensus        35 ~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~  101 (140)
T PF10473_consen   35 MSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELES  101 (140)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556777777777777888888888888888888888888888777777777777777766666543

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

>PRK00736 hypothetical protein; Provisional

Probab=93.97  E-value=0.37  Score=38.22  Aligned_cols=49  Identities=16%  Similarity=0.179  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +++++||.++..++.-..+|-..|.+.+++++.|+.+...|.++|+.+.
T Consensus         5 ~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~   53 (68)
T PRK00736          5 ERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE   53 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4599999999999999999999999999999999999999999998764

>PRK04406 hypothetical protein; Provisional

Probab=93.79  E-value=0.43  Score=38.71  Aligned_cols=49  Identities=10%  Similarity=0.018  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +++.+||.++..++.-..+|-..|...+++++.|+.+.+.|.++|+.+.
T Consensus        11 ~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~   59 (75)
T PRK04406         11 ERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD   59 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            5678888888888888888888888888888888888888888887654

>PRK11637 AmiB activator; Provisional

Probab=93.55  E-value=1  Score=46.53  Aligned_cols=53  Identities=21%  Similarity=0.228  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .-...++.++.+++.++.+...+..++..|++++..++.+...+++.|..+..
T Consensus        79 ~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlr  131 (428)
T PRK11637         79 KQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLD  131 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666777777777777777777777777777777776666666665544

>KOG4196 consensus bZIP transcription factor MafK [Transcription]

Probab=93.40  E-value=0.76  Score=41.18  Aligned_cols=39  Identities=23%  Similarity=0.166  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          320 ASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       320 ~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      .+|..+-..|.+++++|..||..++.++..+........
T Consensus        77 ~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~  115 (135)
T KOG4196|consen   77 HELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQ  115 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777778888888888888888888877665444433

>PRK13922 rod shape-determining protein MreC; Provisional

Probab=93.33  E-value=0.52  Score=45.77  Aligned_cols=41  Identities=29%  Similarity=0.244  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSE---KLRQENAALLVCHINV  350 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~---~L~~EN~~Lr~~L~~l  350 (387)
                      .....|.+||.+|++|+..|+.+..   .|+.||++|++.|.-.
T Consensus        69 ~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~  112 (276)
T PRK13922         69 ASLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLK  112 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            3455666666666666666655544   6789999999877643

>PRK00846 hypothetical protein; Provisional

Probab=93.14  E-value=0.6  Score=38.25  Aligned_cols=51  Identities=14%  Similarity=0.005  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .+++++||.++...+.-..+|-..+...+.+++.|+.+...|.++|+++..
T Consensus        12 e~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~   62 (77)
T PRK00846         12 EARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRS   62 (77)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            367888888888888888888888888888888888888888888888753

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

Probab=93.11  E-value=0.5  Score=40.78  Aligned_cols=45  Identities=24%  Similarity=0.304  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |=.++..|+.....|..++..|+.+...|..||..|+-+...+..
T Consensus         6 l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~   50 (107)
T PF06156_consen    6 LFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRE   50 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555555555555555555544444433

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

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=93.10  E-value=0.36  Score=51.20  Aligned_cols=30  Identities=27%  Similarity=0.251  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          318 ENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       318 EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +..+|.++.+.|+++..+|+.....|..+|
T Consensus       110 ~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l  139 (472)
T TIGR03752       110 ETQELTKEIEQLKSERQQLQGLIDQLQRRL  139 (472)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444

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.

>smart00338 BRLZ basic region leucin zipper

Probab=92.94  E-value=0.9  Score=35.00  Aligned_cols=40  Identities=23%  Similarity=0.258  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      ...+..|+.+...|..++..|..++..|+.|+..|+.++.
T Consensus        25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~~   64 (65)
T smart00338       25 KAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSELE   64 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3456777777777777777777777777777777777653

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

Probab=92.82  E-value=0.77  Score=51.02  Aligned_cols=40  Identities=25%  Similarity=0.252  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      |.|..|+.+|+.|...|+.++...++++..|+.|...|+.
T Consensus       541 e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~  580 (697)
T PF09726_consen  541 ESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRK  580 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3356666777777777777777666666666666655554

; GO: 0016021 integral to membrane

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

Probab=92.74  E-value=0.022  Score=58.67  Aligned_cols=40  Identities=33%  Similarity=0.397  Sum_probs=38.2

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLK  323 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~  323 (387)
                      .|=.++||.||-|||.|||..+..|+.+.+.+..+|..|.
T Consensus       287 ~~~lern~~aas~~r~~~k~~~~~~~~~~~~~~~~n~~l~  326 (395)
T KOG1414|consen  287 RRFLERNRAAASRCRQKKKVWVLSLEKKAEELSSENGQLL  326 (395)
T ss_pred             hhhhhhhhhhhccccCCcccccccccccccchhhhhcccc
Confidence            7778999999999999999999999999999999999998

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

Probab=92.73  E-value=0.69  Score=41.57  Aligned_cols=49  Identities=31%  Similarity=0.315  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +..+.|+.++..|+.++..+..+|..|+.++..|+.+...|..+|....
T Consensus        14 ~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k   62 (143)
T PF12718_consen   14 DRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAK   62 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555566666666666666666666555555555555555555543

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 [].

>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=92.54  E-value=0.67  Score=42.05  Aligned_cols=52  Identities=35%  Similarity=0.284  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEI--NQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el--~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -++++.+|+.++..|+.|...|...+  .+|..++..|+.|+..|.++|..+..
T Consensus        84 L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   84 LREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34556666666666666666666655  46677788888888888888887765

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 [].

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

Probab=92.53  E-value=0.51  Score=46.16  Aligned_cols=43  Identities=21%  Similarity=0.196  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .|+.+||+|+..+.+++..|+.+++.|++.|-.|=++++-+..
T Consensus        93 ~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS  135 (248)
T PF08172_consen   93 QRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQS  135 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3344455555555555666666666667777788777776644

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

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=92.49  E-value=1  Score=35.95  Aligned_cols=48  Identities=29%  Similarity=0.313  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSE-------INQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~e-------l~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .+++.|.+++...+.+|..|..+       +..+-.++.+|+.||..|+.+|+..
T Consensus        12 ~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~   66 (69)
T PF14197_consen   12 NRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEEL   66 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455555555555555555544       4445555566666666666665543

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

Probab=92.42  E-value=2.3  Score=40.97  Aligned_cols=47  Identities=19%  Similarity=0.217  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       299 ~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      ..-+++++.|+.+++.|+..|..|...+..++++...|..+...+..
T Consensus        52 ~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~   98 (251)
T PF11932_consen   52 QELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEE   98 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455566666666666666666666666666666666555554443

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.

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

Probab=92.27  E-value=2.4  Score=40.78  Aligned_cols=49  Identities=24%  Similarity=0.125  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ++..+|..+++.|+.|...|+..++.|+...+.++.+...|..++..+.
T Consensus        49 ~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~   97 (251)
T PF11932_consen   49 DEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIE   97 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555666666666666666666666666666666655543

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.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=92.25  E-value=0.58  Score=51.01  Aligned_cols=46  Identities=28%  Similarity=0.337  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .++..|+.+|+.|+.||..|+.++.+|+.++++|+++.+.++.++.
T Consensus       422 ~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~  467 (652)
T COG2433         422 KRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVR  467 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677777777778777777777777777777777766666554

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

Probab=92.18  E-value=1.5  Score=46.16  Aligned_cols=51  Identities=25%  Similarity=0.247  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      |--+++.|+.++++|+.||.+|+..+..|+..+++|..+...+.++|+.+.
T Consensus       295 asle~Enlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lr  345 (502)
T KOG0982|consen  295 ASLEKENLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALR  345 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            334567788899999999999999999999888888777766666665543

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

Probab=92.14  E-value=3.1  Score=39.35  Aligned_cols=60  Identities=23%  Similarity=0.351  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      +++....++.+++-+.-+.+-..-+.++..++.++..|+-|+..|.+++..|.++.+.|.
T Consensus        68 ~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~  127 (201)
T PF13851_consen   68 EEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELY  127 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666655555555566666666666666666666666666666555554

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

Probab=92.11  E-value=2.1  Score=46.37  Aligned_cols=58  Identities=24%  Similarity=0.334  Sum_probs=24.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      .+++..+...+....-+.+++.|+..+...+.++..|+.+...|....+.|..|+..|
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            3344444444444444444444444444444444444444444333333333333333

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 [].

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=92.08  E-value=0.59  Score=39.97  Aligned_cols=32  Identities=22%  Similarity=0.257  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +.++++++|+++++.|+++|+.|+.++..|+.
T Consensus        31 ~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~   62 (105)
T PRK00888         31 RVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG   62 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            45566677777777777777777777777654

>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=92.06  E-value=1.9  Score=33.15  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVC  346 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~  346 (387)
                      ..++.|+.+...|..++..|..++..|..++..|+.+
T Consensus        26 ~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e   62 (64)
T PF00170_consen   26 QYIEELEEKVEELESENEELKKELEQLKKEIQSLKSE   62 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3455555555555555555555555555555555544

; 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 ....

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

Probab=91.82  E-value=0.86  Score=39.29  Aligned_cols=46  Identities=26%  Similarity=0.257  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      |-.+|-+|+.-...|.+++..+++++.+|++||..|-+-|+.+...
T Consensus        61 lItQVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQYIeNLMSa  106 (120)
T KOG3650|consen   61 LITQVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQYIENLMSA  106 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHhh
Confidence            4456677777777888888999999999999999998888776543

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=91.74  E-value=1.5  Score=49.21  Aligned_cols=17  Identities=12%  Similarity=-0.011  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHhhhh
Q 016555          336 LRQENAALLVCHINVII  352 (387)
Q Consensus       336 L~~EN~~Lr~~L~~l~~  352 (387)
                      |.+.+..|..+|+.|..
T Consensus       435 ~nak~~ql~~eletLn~  451 (1118)
T KOG1029|consen  435 LNAKKKQLQQELETLNF  451 (1118)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444445555554444

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.69  E-value=0.46  Score=47.06  Aligned_cols=44  Identities=25%  Similarity=0.336  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          294 ARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       294 ARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      ++.--.+....++++..+++.++.++.++..++..|+.+++.|+
T Consensus        50 ~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~   93 (265)
T COG3883          50 IQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK   93 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333445555555555555555555555555555555554443

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

Probab=91.63  E-value=2.3  Score=44.76  Aligned_cols=73  Identities=21%  Similarity=0.217  Sum_probs=53.7

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      ||.+-.+++=+.-.+.....+++...|+.+++.|+.++..|..++.+....+.+++..++.+...|..+..+.
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            4444445555555555666677888888999999999888888888888888888877777777777665544

>PRK09039 hypothetical protein; Validated

Probab=91.62  E-value=2.5  Score=43.04  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      |..|++|...|+.++..|+.+++.++
T Consensus       139 V~~L~~qI~aLr~Qla~le~~L~~ae  164 (343)
T PRK09039        139 VELLNQQIAALRRQLAALEAALDASE  164 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444333333333

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

Probab=91.62  E-value=3.5  Score=42.32  Aligned_cols=64  Identities=22%  Similarity=0.226  Sum_probs=34.3

Q ss_pred             cHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       277 dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +++..++.++.+-+|..         ++++.|.++-+.|..-.++|+.++++|+++...|....+.|+.+.++
T Consensus       215 ~~eklR~r~eeeme~~~---------aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~e  278 (365)
T KOG2391|consen  215 VREKLRRRREEEMERLQ---------AEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVRE  278 (365)
T ss_pred             HHHHHHHHHHHHHHHHH---------HHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            44444444444444433         44445555555555555555555555666655566566666666655

>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]

Probab=91.45  E-value=0.26  Score=46.12  Aligned_cols=42  Identities=33%  Similarity=0.427  Sum_probs=28.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          283 RERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      |.+|.++++|      +.+++++++|+.+++.|+.+.++|+..+..|-
T Consensus        92 R~~~~e~~ke------e~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~  133 (181)
T KOG3335|consen   92 RQARKERKKE------EKRKQEIMELRLKVEKLENAIAELTKFFSQLH  133 (181)
T ss_pred             HhhhcchhhH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777766663      44557788888888888776665555555554

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=91.43  E-value=0.69  Score=39.56  Aligned_cols=44  Identities=20%  Similarity=0.197  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      ...+|+++++.++.+|+.|+++...|+++.+.|+..-..|.+..
T Consensus        28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~A   71 (105)
T PRK00888         28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERA   71 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHH
Confidence            45667777777777777777777777777777765333333333

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

Probab=91.42  E-value=1.1  Score=38.33  Aligned_cols=48  Identities=21%  Similarity=0.241  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASL--KSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L--~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++++.|+..|+.+...|  ++++..|+-+..+++.+...|.++|+.+.+
T Consensus        44 ~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~   93 (106)
T PF10805_consen   44 LDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSH   93 (106)
T ss_pred             HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            334466666666666666  666666666666666666666666665543

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

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

Probab=91.41  E-value=2.1  Score=41.88  Aligned_cols=48  Identities=25%  Similarity=0.240  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .++..|..++..++.+...|..++..|..+.+.|+.+...|+.+|..+
T Consensus        89 ~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~  136 (239)
T COG1579          89 RELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERL  136 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555655555555555555555555555555555555554443

>PHA02562 46 endonuclease subunit; Provisional

Probab=91.38  E-value=2.1  Score=45.02  Aligned_cols=13  Identities=15%  Similarity=0.182  Sum_probs=5.3

Q ss_pred             CcccccCCCCCCC
Q 016555          139 GLAMSIGNASAES  151 (387)
Q Consensus       139 Gl~ms~g~~~~~~  151 (387)
                      |+++++|.+-++|
T Consensus        28 g~~~i~G~NG~GK   40 (562)
T PHA02562         28 KKTLITGKNGAGK   40 (562)
T ss_pred             CEEEEECCCCCCH
Confidence            3444444433333

>KOG2236 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.27  E-value=0.31  Score=51.43  Aligned_cols=30  Identities=17%  Similarity=0.332  Sum_probs=19.2

Q ss_pred             CCCCCCCCCCCCCCCCCcCCCCCCCCCCCC--CCcccCCCC
Q 016555           47 PYYNSPIASGHAPQPYMWGPAQPMMPPYGA--PYAAIYSTG   85 (387)
Q Consensus        47 p~f~s~vas~~~phPymWg~~qpmmpPyGt--Py~a~yp~g   85 (387)
                      |+|+.+     ++||.+    +.+.+.||-  ||.+|||-.
T Consensus       424 p~f~m~-----~~hP~~----~~p~~~~g~~~P~~~mpp~~  455 (483)
T KOG2236|consen  424 PSFPMF-----QPHPPE----SNPPANFGQANPFNQMPPAY  455 (483)
T ss_pred             CCCCcc-----CCCCCC----CCCcccccccCccccCCCCC
Confidence            566533     677754    445566776  888888754

>PRK02119 hypothetical protein; Provisional

Probab=91.25  E-value=1.5  Score=35.36  Aligned_cols=55  Identities=9%  Similarity=-0.066  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      ++..|+.|+..|+....-+..-|+.|.+.+.+...++..|+.+|+.+...+....
T Consensus         3 ~~~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~   57 (73)
T PRK02119          3 IQQNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ   57 (73)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            5678999999999999999999999999999999999999999999877665543

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

Probab=91.19  E-value=0.81  Score=44.80  Aligned_cols=48  Identities=33%  Similarity=0.450  Sum_probs=24.6

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          283 RERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      |.|=|+||.|-=..-| +-++.+..|+.+|+.|+++|..|-+++.-|+.
T Consensus        88 RDRFR~Rn~ELE~elr-~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS  135 (248)
T PF08172_consen   88 RDRFRQRNAELEEELR-KQQQTISSLRREVESLRADNVKLYEKIRYLQS  135 (248)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4444444544444432 23344555566666666666666666555543

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

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

Probab=91.16  E-value=3.5  Score=40.39  Aligned_cols=68  Identities=16%  Similarity=0.156  Sum_probs=45.5

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHhh
Q 016555          283 RERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE---------NSEKLRQENAALLVCHINV  350 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~e---------e~~~L~~EN~~Lr~~L~~l  350 (387)
                      -.++...-.+.+++.=.-++.++++|+.+|..++.+.+.++.++..++.         ++..|..|...+++++..+
T Consensus        32 ~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          32 ALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSL  108 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555677777777788888999999999999888888887776543         3344444444444444443

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=91.10  E-value=1  Score=41.60  Aligned_cols=47  Identities=26%  Similarity=0.328  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ...|+.+.+.|+.++..|+.++..|+.++..|..++..+.+..+.+.
T Consensus        99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~  145 (161)
T TIGR02894        99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLI  145 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666666666666666666666666666666666655543

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.

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

Probab=90.99  E-value=2.3  Score=43.59  Aligned_cols=56  Identities=14%  Similarity=0.283  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          298 RLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       298 R~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      =.|-+.+...||.-+..|++||+.|..+++.|.++|.+.+.|...|..+|.+...-
T Consensus       122 f~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~lay  177 (401)
T PF06785_consen  122 FMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAY  177 (401)
T ss_pred             HHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHH
Confidence            34556777888888999999999999999999999999999988888887775543

>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=90.94  E-value=5.8  Score=35.21  Aligned_cols=45  Identities=20%  Similarity=0.142  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .++.|+.+++.++.++..+..+...|+.++..+...+..+++++.
T Consensus        74 ~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~  118 (151)
T PF11559_consen   74 DVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQ  118 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444443333333333333333333

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.

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

Probab=90.93  E-value=4.7  Score=35.41  Aligned_cols=33  Identities=21%  Similarity=0.308  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          318 ENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       318 EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +-..|..++..++..++.|..+|..|..+|+.+
T Consensus        99 qk~~le~e~~~~~~r~~dL~~QN~lLh~QlE~l  131 (132)
T PF07926_consen   99 QKEQLEKELSELEQRIEDLNEQNKLLHDQLESL  131 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            334455566666666666777777777766543

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

>PRK04406 hypothetical protein; Provisional

Probab=90.82  E-value=1.8  Score=35.04  Aligned_cols=53  Identities=13%  Similarity=0.026  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      ++.|+.|+..|+....-+..-|+.|.+.+.+...++..|+.+|+.+...+...
T Consensus         6 ~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~   58 (75)
T PRK04406          6 IEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNM   58 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            45799999999999999999999999999999999999999999987766554

>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=90.76  E-value=4.5  Score=38.73  Aligned_cols=45  Identities=27%  Similarity=0.319  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      .+.++++++.+++.|+.+...++.++..+++++..++.++...+.
T Consensus        61 ~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~  105 (302)
T PF10186_consen   61 LKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRS  105 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444333

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

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=90.75  E-value=1.4  Score=38.43  Aligned_cols=9  Identities=33%  Similarity=1.032  Sum_probs=5.7

Q ss_pred             ccccccccc
Q 016555          372 ECFCCNLLI  380 (387)
Q Consensus       372 ~~f~~n~l~  380 (387)
                      ||-||..++
T Consensus        99 dClFCl~~L  107 (110)
T PRK13169         99 DCLFCLELL  107 (110)
T ss_pred             CcHHHHHHH
Confidence            677776543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=90.70  E-value=2  Score=42.08  Aligned_cols=49  Identities=8%  Similarity=0.091  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -+-+|..+++.|+.|+..|+-+|++++-++++|....+.|-.+|.....
T Consensus        55 ~~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~r~~  103 (263)
T PRK10803         55 LLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDSLSS  103 (263)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3467777777788777778777777777777777777777777666543

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

Probab=90.65  E-value=1.4  Score=43.14  Aligned_cols=6  Identities=33%  Similarity=0.645  Sum_probs=2.9

Q ss_pred             Cccccc
Q 016555          242 PTKLEL  247 (387)
Q Consensus       242 ~t~l~~  247 (387)
                      ||++.|
T Consensus        45 TT~~eI   50 (290)
T COG4026          45 TTNVEI   50 (290)
T ss_pred             CchHHH
Confidence            444444

>KOG4571 consensus Activating transcription factor 4 [Transcription]

Probab=90.65  E-value=1.5  Score=44.02  Aligned_cols=46  Identities=17%  Similarity=0.246  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +.-..+-+.|+.|...|..+.++|+++...|+.|++.||+-|.+..
T Consensus       244 qKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~~  289 (294)
T KOG4571|consen  244 QKKRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEVY  289 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334445555556666666666666666666666666665555443

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

Probab=90.49  E-value=0.94  Score=44.97  Aligned_cols=55  Identities=13%  Similarity=-0.000  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      +++=.||.+++....|...|+.++..|+.++..++++.+..|+.|+-+..++...
T Consensus        64 ~~~y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglrep~kkp  118 (389)
T PF06216_consen   64 DYIYNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLREPVKKP  118 (389)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC
Confidence            3444556666666666666666666666666666666666666666555544433

The function of this family is unknown.

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

Probab=90.45  E-value=5.9  Score=36.17  Aligned_cols=44  Identities=20%  Similarity=0.317  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      +.+++++.++..++.+..+...|.+++.+++++...++.+...+
T Consensus       127 ~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~  170 (191)
T PF04156_consen  127 SVEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERL  170 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444433333333333333333333

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 [].

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

Probab=90.38  E-value=2.9  Score=32.47  Aligned_cols=47  Identities=23%  Similarity=0.295  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .+++|...|..|..+...|..++..|+.+......|-..-.++|..+
T Consensus         4 kid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN~RlDN~   50 (56)
T PF04728_consen    4 KIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARANQRLDNI   50 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            45666666666666666666666665555555555544444444433

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

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

Probab=90.37  E-value=2.1  Score=46.40  Aligned_cols=65  Identities=18%  Similarity=0.199  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          294 ARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       294 ARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      +.+.|..-++.+.++...+..|++|...++.++..|.++...|+.||..|+.+|..+...+.+..
T Consensus       132 ~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Et  196 (546)
T KOG0977|consen  132 AEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDET  196 (546)
T ss_pred             HHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            33334444455666677788888888888888888888888888888888888888776555444

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

Probab=90.32  E-value=1.5  Score=36.75  Aligned_cols=43  Identities=35%  Similarity=0.457  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      |+-|-...+.+|+.|+.+|..|..++..|+.+++.-+.|-..|
T Consensus        40 KksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~L   82 (87)
T PF12709_consen   40 KKSYEARWEKKVDELENENKALKRENEQLKKKLDTEREEKQEL   82 (87)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555555555555555555444444444

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 [].

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

Probab=90.24  E-value=1.8  Score=44.41  Aligned_cols=60  Identities=22%  Similarity=0.118  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       297 SR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      -|.|.+++++.|....+.|++.-++|+.-.+.|+++.+.|+.|...|...+.-+.....+
T Consensus       219 lR~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~~e  278 (365)
T KOG2391|consen  219 LRRRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKVRE  278 (365)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            345778888888888888888888888888888888888888888888887777665555

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

Probab=90.20  E-value=2.2  Score=47.44  Aligned_cols=6  Identities=33%  Similarity=0.673  Sum_probs=3.3

Q ss_pred             HHHHHH
Q 016555          297 SRLRKQ  302 (387)
Q Consensus       297 SR~RKq  302 (387)
                      ||.|++
T Consensus       543 ~r~r~~  548 (697)
T PF09726_consen  543 CRQRRR  548 (697)
T ss_pred             HHHHHH
Confidence            555554

; GO: 0016021 integral to membrane

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

Probab=90.18  E-value=4.6  Score=37.60  Aligned_cols=52  Identities=15%  Similarity=0.227  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      ..+.+|+..++.+...|+.|..|+..|+-++..|+..+..|..+=..++..+
T Consensus       130 ~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw  181 (194)
T PF08614_consen  130 EKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW  181 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444445555555555555555555555555554444444443

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.

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

Probab=90.18  E-value=3.3  Score=41.64  Aligned_cols=44  Identities=25%  Similarity=0.281  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVC  346 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~  346 (387)
                      .+++.|..++..+..++..++.++..|+.++..|+.+.+.+.++
T Consensus       209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~  252 (325)
T PF08317_consen  209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQ  252 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555555544444444444444444433333333

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

Probab=90.17  E-value=1.9  Score=37.89  Aligned_cols=33  Identities=27%  Similarity=0.369  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      +..++..|+.++..|+.+-..|..+|-.|..++
T Consensus        28 ~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~   60 (120)
T PF12325_consen   28 LEGELASLQEELARLEAERDELREEIVKLMEEN   60 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444

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 [].

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=90.17  E-value=1.9  Score=34.41  Aligned_cols=50  Identities=22%  Similarity=0.196  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSE-------KLRQENAALLVCHINVIIF  353 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~-------~L~~EN~~Lr~~L~~l~~~  353 (387)
                      .+..|+.+++.|..++......+..|..+.+       .+-.+|..|++++..+..+
T Consensus         6 ~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen    6 EIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555554444445544432       2234455555555555444

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

Probab=89.85  E-value=3.4  Score=47.77  Aligned_cols=58  Identities=19%  Similarity=0.216  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          294 ARRSRLRKQAEAEELSRKV-DSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       294 ARRSR~RKq~~~eeLe~rV-~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .++++.+....+.+++.+. +.|..+..++..+++.|+++++.|+.++..|++++..+.
T Consensus       370 ~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~  428 (1074)
T KOG0250|consen  370 LKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVK  428 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444555555554 444455555555666666666666666666666665543

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

Probab=89.75  E-value=0.42  Score=37.29  Aligned_cols=31  Identities=32%  Similarity=0.411  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          317 DENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       317 ~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      .|...|+.+|..|.+++.+|+.||..||..+
T Consensus        14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk~~~   44 (59)
T PF01166_consen   14 EEVEVLKEQIAELEERNSQLEEENNLLKQNA   44 (59)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3455666777777777777788888887654

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

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

Probab=89.63  E-value=2.9  Score=40.45  Aligned_cols=43  Identities=21%  Similarity=0.235  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      |+.+.+.+.++...|+.+++..+.+++.+..++..|+.+.+.+
T Consensus       149 ~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~  191 (216)
T KOG1962|consen  149 LEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGL  191 (216)
T ss_pred             hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3344444444444444444444444444444444444444443

>smart00787 Spc7 Spc7 kinetochore protein

Probab=89.62  E-value=5.6  Score=40.18  Aligned_cols=20  Identities=15%  Similarity=0.204  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 016555          308 LSRKVDSLIDENASLKSEIN  327 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~  327 (387)
                      |..++..+..++...+.++.
T Consensus       209 lk~~l~~~~~ei~~~~~~l~  228 (312)
T smart00787      209 AKEKLKKLLQEIMIKVKKLE  228 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

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

>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=89.61  E-value=1.8  Score=36.24  Aligned_cols=39  Identities=31%  Similarity=0.273  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhhh
Q 016555          314 SLIDENASLKSEINQLSEN------SEKLRQENAALLVCHINVII  352 (387)
Q Consensus       314 ~L~~EN~~L~~el~~L~ee------~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -|..+|..|+.+|+.|+.+      ..+...||-.|++++..+..
T Consensus        21 ~~~~e~~~L~eEI~~Lr~qve~nPevtr~A~EN~rL~ee~rrl~~   65 (86)
T PF12711_consen   21 YLEEENEALKEEIQLLREQVEHNPEVTRFAMENIRLREELRRLQS   65 (86)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666666666653      44566777777777776543

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.

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

Probab=89.50  E-value=4.4  Score=38.25  Aligned_cols=54  Identities=22%  Similarity=0.223  Sum_probs=26.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          283 RERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKL  336 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L  336 (387)
                      -.+.++....+-+..+.+.+++...|+.++..-+.++..|..++..|+.++..|
T Consensus        90 ~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el  143 (190)
T PF05266_consen   90 FLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILEL  143 (190)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            344455555666666666666666666655544434444333333333333333

>PF15058 Speriolin_N: Speriolin N terminus

Probab=89.46  E-value=0.94  Score=43.05  Aligned_cols=40  Identities=25%  Similarity=0.302  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .|.|.++++.|-.||++||+++..++        ||..||.-|.+...
T Consensus         7 yeGlrhqierLv~ENeeLKKlVrLir--------EN~eLksaL~ea~~   46 (200)
T PF15058_consen    7 YEGLRHQIERLVRENEELKKLVRLIR--------ENHELKSALGEACA   46 (200)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHHH--------HHHHHHHHHHHhhc
Confidence            47788889999999999998887665        56777766655544

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

Probab=89.31  E-value=2.2  Score=33.01  Aligned_cols=39  Identities=23%  Similarity=0.360  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      +++||.++..|+.....|+.+++.|++.++.|..-...|
T Consensus         2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~l   40 (55)
T PF05377_consen    2 IDELENELPRIESSINTVKKENEEISESVEKIEENVKDL   40 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666666666665555555555555555444444333

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

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

Probab=89.25  E-value=5.5  Score=40.12  Aligned_cols=27  Identities=33%  Similarity=0.479  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      +++++|+.+.+.|.+|...|..+...|
T Consensus        64 ~eL~~LE~e~~~l~~el~~le~e~~~l   90 (314)
T PF04111_consen   64 QELEELEKEREELDQELEELEEELEEL   90 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444443333

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.

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

Probab=89.25  E-value=2.7  Score=48.04  Aligned_cols=51  Identities=22%  Similarity=0.302  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSEN---------------SEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee---------------~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      +.|+.+|+.|+..+.+|...++.|+.|               ..+|+.+|..||+-|-++..-.+.
T Consensus       328 esLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~  393 (1243)
T KOG0971|consen  328 ESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSAS  393 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchH
Confidence            334455555555555555555555553               345677777777776666554333

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

Probab=89.25  E-value=6.6  Score=37.05  Aligned_cols=53  Identities=25%  Similarity=0.203  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       299 ~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+....+.+|+.++..|+.+.+.|..+.+....++.+|..+...|.+++....
T Consensus       127 ~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~~~~e  179 (190)
T PF05266_consen  127 KELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEAEALKEEIENAE  179 (190)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556667777777777777666666666666666666666666666666543

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

Probab=89.24  E-value=3.4  Score=33.29  Aligned_cols=53  Identities=15%  Similarity=0.170  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -|.+.|..|..+-+.|......+...|..|+.++..++.++..|+.++.....
T Consensus         9 EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~   61 (74)
T PF12329_consen    9 EKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEK   61 (74)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566777777777777777667777777777666666666666666665544

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.

>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=89.14  E-value=4  Score=37.57  Aligned_cols=43  Identities=28%  Similarity=0.390  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      |..+|+.|+.+|..|..++..+..+...|......|+.++..+
T Consensus        94 L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~e~~l~~e~~~l  136 (158)
T PF09744_consen   94 LQSQVEQLEEENRQLELKLKNLSDQSSRLEEREAELKKEYNRL  136 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhccccchhHHHHHHHHHHH
Confidence            3444444444444444444444343334444444444444433

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

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

Probab=88.98  E-value=8.7  Score=36.35  Aligned_cols=43  Identities=30%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .+..++..++.+...|+-+.+.|.+++.+|..|-..|..++..
T Consensus        90 ~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~  132 (201)
T PF13851_consen   90 NLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFES  132 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444445555555555555444443

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

Probab=88.90  E-value=1.7  Score=43.85  Aligned_cols=73  Identities=23%  Similarity=0.169  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHhH-----HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          278 ERELKRERRKQSNR-----ESARRSRLRK-QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       278 E~e~KR~RRk~rNR-----ESARRSR~RK-q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      |-|.|=++=++.|.     .++-....-- |..+++|+..+.+|+.++.+...+++++++.+..|+.|...|+++|.+.
T Consensus        88 evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~L~~r  166 (302)
T PF09738_consen   88 EVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQLKQR  166 (302)
T ss_pred             HHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555553     2232222222 4556666666677777776666677777788888888888888888654

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

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

Probab=88.82  E-value=2.8  Score=45.43  Aligned_cols=65  Identities=20%  Similarity=0.253  Sum_probs=39.1

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          285 RRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       285 RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..+++-|..+|..-.--...+.+|+.++..++..+..|..++..|+.++.+|+.+...+|.+|.+
T Consensus       130 ~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~  194 (546)
T KOG0977|consen  130 EKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDD  194 (546)
T ss_pred             HHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            34444555555533323455666677777777666666666666666666666666666655444

>PRK02793 phi X174 lysis protein; Provisional

Probab=88.59  E-value=3.1  Score=33.35  Aligned_cols=53  Identities=17%  Similarity=0.003  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      ..|+.|+..|+....-+..-|+.|.+.+.+...++..|+.+|+.+...+....
T Consensus         4 ~~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~   56 (72)
T PRK02793          4 SSLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ   56 (72)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            45889999999999999999999999999999999999999998877666543

>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=88.54  E-value=0.24  Score=42.39  Aligned_cols=47  Identities=36%  Similarity=0.487  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .+++.|...+..|..+|..|+.++..|+.++..++.+...|+..|..
T Consensus        25 ~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l~~   71 (131)
T PF05103_consen   25 DFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRALIQ   71 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-----------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhhhh
Confidence            68889999999999999999999999998888888888888777643

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.

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

Probab=88.53  E-value=3.1  Score=32.27  Aligned_cols=42  Identities=26%  Similarity=0.306  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+++.|..+.+.|..++..|..+...|+.+....+++..+.-
T Consensus         3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN   44 (56)
T PF04728_consen    3 AKIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARAN   44 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467778888778888887777777777777777776665543

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

>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=88.47  E-value=3.8  Score=38.40  Aligned_cols=47  Identities=19%  Similarity=0.341  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ..+|+.++..|+.++..|..++..|+.+++.++..+..+++.....+
T Consensus       122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~  168 (189)
T PF10211_consen  122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKH  168 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56788888888888888888888888888777766666555444433

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 [].

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

Probab=88.41  E-value=3.4  Score=38.71  Aligned_cols=11  Identities=36%  Similarity=0.649  Sum_probs=4.2

Q ss_pred             HHHHHHHHHHH
Q 016555          304 EAEELSRKVDS  314 (387)
Q Consensus       304 ~~eeLe~rV~~  314 (387)
                      .+++|+.+++.
T Consensus        84 ~i~~l~~~i~~   94 (188)
T PF03962_consen   84 KIEELEEKIEE   94 (188)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

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

>PRK04325 hypothetical protein; Provisional

Probab=88.41  E-value=3.2  Score=33.44  Aligned_cols=55  Identities=13%  Similarity=0.008  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      .+..|+.++..|+....-+..-|+.|.+.+.+...++..|+.+|+.+...+....
T Consensus         3 ~~~~~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~   57 (74)
T PRK04325          3 AVQEMEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN   57 (74)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3567889999999999999999999999999999999999999998877665543

>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=88.40  E-value=1.9  Score=39.14  Aligned_cols=49  Identities=29%  Similarity=0.263  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENS--EKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~--~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      +.+|+.++..|+.++..|+.++..|....  +.|..++..|+.++..+...
T Consensus        81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~k  131 (169)
T PF07106_consen   81 IKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEK  131 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555444432  44444455555554444443

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

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

Probab=88.37  E-value=3.2  Score=32.82  Aligned_cols=50  Identities=12%  Similarity=-0.001  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      |+.++..|+....-+..-|+.|.+...+...++..|+.+|+.+...+...
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~   51 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLREL   51 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            67888888888888888888888888888888888888888877765554

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.

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

Probab=88.36  E-value=1.8  Score=33.41  Aligned_cols=42  Identities=17%  Similarity=0.302  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          311 KVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       311 rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |++.|+.+...|...+..++.+++.|+.++..|.+-++.+..
T Consensus         1 Ri~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll~   42 (55)
T PF05377_consen    1 RIDELENELPRIESSINTVKKENEEISESVEKIEENVKDLLS   42 (55)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355666666666666666666666666666666666655543

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

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

Probab=88.30  E-value=1.9  Score=33.55  Aligned_cols=30  Identities=37%  Similarity=0.576  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      +.++++.+|+.+++.|+.+|..|+.+++.|
T Consensus        21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l   50 (80)
T PF04977_consen   21 QLNQEIAELQKEIEELKKENEELKEEIERL   50 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344556666666666666666666666665

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

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

Probab=88.22  E-value=3.7  Score=33.35  Aligned_cols=50  Identities=14%  Similarity=0.022  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++.+||.++..-+.-..+|...+.+.+...++++.+.+.|-++|+.+..
T Consensus         8 ~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~~~   57 (72)
T COG2900           8 ARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDLQP   57 (72)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            56778888888777777778777777777777777777777777776644

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=88.12  E-value=2.5  Score=46.18  Aligned_cols=48  Identities=23%  Similarity=0.133  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .++-+||.+.+.|..|..++..++++|++.+.+-..|..+|+.++++.
T Consensus        93 ~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqa  140 (907)
T KOG2264|consen   93 LELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQA  140 (907)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHH
Confidence            467777777777777777777777777777766666666666665553

>KOG4797 consensus Transcriptional regulator [Transcription]

Probab=88.11  E-value=2  Score=37.52  Aligned_cols=24  Identities=38%  Similarity=0.529  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          321 SLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      .|+.+|.+|.+++..|+.||.-||
T Consensus        71 ~Lk~qI~eL~er~~~Le~EN~lLk   94 (123)
T KOG4797|consen   71 VLKEQIRELEERNSALERENSLLK   94 (123)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444445555555555665555

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

Probab=88.08  E-value=6  Score=39.78  Aligned_cols=14  Identities=14%  Similarity=-0.223  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHhhhh
Q 016555          339 ENAALLVCHINVII  352 (387)
Q Consensus       339 EN~~Lr~~L~~l~~  352 (387)
                      |...|++++..+..
T Consensus       277 Ev~~Lk~~~~~Le~  290 (325)
T PF08317_consen  277 EVKRLKAKVDALEK  290 (325)
T ss_pred             HHHHHHHHHHHHHH
Confidence            34445555444433

>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal

Probab=88.00  E-value=1.6  Score=37.73  Aligned_cols=38  Identities=18%  Similarity=0.150  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          314 SLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       314 ~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .|...+..|..++..+.+++++|+.++..+.++++.+.
T Consensus        77 ~L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk  114 (118)
T PF13815_consen   77 YLSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLK  114 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444443

>PF15294 Leu_zip: Leucine zipper

Probab=87.90  E-value=1.6  Score=43.51  Aligned_cols=45  Identities=22%  Similarity=0.313  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |..++..|+.||..|+.++..|+.++.....|...|..+|.++..
T Consensus       130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788999999999999999999999999999999999999998876

>PRK00846 hypothetical protein; Provisional

Probab=87.82  E-value=3.6  Score=33.72  Aligned_cols=53  Identities=13%  Similarity=0.006  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      +.|+.|+..|+....-...-|+.|.+.+.+...++..|+.+|+.+...+....
T Consensus         9 ~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~   61 (77)
T PRK00846          9 QALEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   61 (77)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            67889999999999999999999999999999999999999998888766654

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

Probab=87.76  E-value=4.1  Score=32.01  Aligned_cols=43  Identities=14%  Similarity=0.182  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ..++...+..|..+.++++....++..|..|...|+.+++++.
T Consensus        17 ~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r   59 (61)
T PF08826_consen   17 QEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELR   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3344456677777777777777777777777777777777654

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

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

Probab=87.72  E-value=11  Score=36.77  Aligned_cols=26  Identities=31%  Similarity=0.523  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      .+..|+.++..|+..|..|...|..|
T Consensus       224 ~~~~l~~el~~l~~~~~~Le~~l~~l  249 (312)
T PF00038_consen  224 QIQSLQAELESLRAKNASLERQLREL  249 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHhhhhhhccccchhhhhhhHHHH
Confidence            33444444444444444444444433

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 ....

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

Probab=87.64  E-value=5.7  Score=31.19  Aligned_cols=36  Identities=25%  Similarity=0.375  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      .-...++.+++.-+..|..|..+|..|+++.+.+++
T Consensus        25 ~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~   60 (61)
T PF08826_consen   25 SANLAFESKLQEAEKRNRELEQEIERLKKEMEELRS   60 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344556778888888888888888888888777665

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

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=87.64  E-value=2.8  Score=39.27  Aligned_cols=45  Identities=22%  Similarity=0.287  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++=+.+.+.|..-|.-|+.+++.....++.|..++..|...+..+
T Consensus        70 eEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l  114 (182)
T PF15035_consen   70 EEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERL  114 (182)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333445555555555555555555555555555555544444443

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

Probab=87.35  E-value=4.3  Score=41.36  Aligned_cols=46  Identities=15%  Similarity=0.175  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ..|...+...+.+|..|..++..|++++..+..++..||++|..+.
T Consensus        68 ~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r  113 (319)
T PF09789_consen   68 KNLAQLLSESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQR  113 (319)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhh
Confidence            4555666667777777777777777777777777777777766653

>COG2919 Septum formation initiator [Cell division and chromosome partitioning]

Probab=87.24  E-value=12  Score=32.34  Aligned_cols=66  Identities=21%  Similarity=0.075  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          281 LKRERRKQSNRESARRSRLRKQAE-AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVC  346 (387)
Q Consensus       281 ~KR~RRk~rNRESARRSR~RKq~~-~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~  346 (387)
                      ..+.+|++-.+..+-..-...-.+ ...+-..+..|..+...+.++++.|..+...|++|+..|++.
T Consensus        20 ~~~~~~~l~~~l~~~l~~f~~~~~~g~~~~~~~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg   86 (117)
T COG2919          20 RVRRRRILTLVLLALLALFQYLAWFGKNGAADVLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG   86 (117)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            334444455555444433332221 122334444555555555555555555555555555555555

>PRK00295 hypothetical protein; Provisional

Probab=87.23  E-value=4  Score=32.38  Aligned_cols=50  Identities=16%  Similarity=0.067  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      |+.++..|+....-+..-|+.|.+.+.+...++..|+.+|+.+...+...
T Consensus         3 ~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~   52 (68)
T PRK00295          3 LEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEM   52 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            67788888888888888888888888888888888888888887766554

>PRK09039 hypothetical protein; Validated

Probab=87.20  E-value=8.3  Score=39.31  Aligned_cols=48  Identities=17%  Similarity=0.151  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ..+..|.++++.|+.+...|..+|..++++....+.+...|..+|...
T Consensus       137 ~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        137 AQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555554444444444444444443

>PHA02562 46 endonuclease subunit; Provisional

Probab=87.11  E-value=6.8  Score=41.24  Aligned_cols=32  Identities=16%  Similarity=0.293  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQE  339 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~E  339 (387)
                      |+.+++.|+.++..+..++..|.+++..+..+
T Consensus       363 l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~  394 (562)
T PHA02562        363 VKAAIEELQAEFVDNAEELAKLQDELDKIVKT  394 (562)
T ss_pred             HHHHHHHHHhhhhchHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=87.03  E-value=3.9  Score=44.90  Aligned_cols=43  Identities=23%  Similarity=0.374  Sum_probs=22.2

Q ss_pred             HHhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          288 QSNRESARRSRLRK-QAEAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       288 ~rNRESARRSR~RK-q~~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      ..+|..+.+.+..+ +.+..+|+.++++|+.++..|+.++.+++
T Consensus       420 ~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~  463 (652)
T COG2433         420 YEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFR  463 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444433332 24455566666666666666666655544

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

Probab=87.02  E-value=9.5  Score=36.41  Aligned_cols=54  Identities=22%  Similarity=0.170  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       297 SR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      -|.||..+.+ ...++..|+.+=..|..++-.+...|..|+.|+..|+.+..++.
T Consensus       163 N~~RK~~Q~~-~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~~~  216 (221)
T PF05700_consen  163 NRERKRRQEE-AGEELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAELK  216 (221)
T ss_pred             HHHHHHHHHH-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445555443 56777788888788888888888888888888888887766553

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

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

Probab=87.02  E-value=10  Score=34.56  Aligned_cols=44  Identities=23%  Similarity=0.280  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .++.+++.++.....+.+++..|.+++.+++.+...++.+++++
T Consensus       127 ~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~  170 (191)
T PF04156_consen  127 SVEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERL  170 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555555555555666666665555

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 [].

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=86.96  E-value=7.3  Score=35.94  Aligned_cols=39  Identities=31%  Similarity=0.250  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          315 LIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       315 L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      ++.++..+..|++.|++++++.+.|.+.|+.|.+.+..+
T Consensus       152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~e  190 (192)
T PF05529_consen  152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKE  190 (192)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            445667788888888888888888888888888877544

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

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

Probab=86.91  E-value=2.3  Score=33.07  Aligned_cols=32  Identities=31%  Similarity=0.405  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKL  336 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L  336 (387)
                      +..+..++..|+.+++.|+.++..|+++.+.|
T Consensus        19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l   50 (80)
T PF04977_consen   19 YYQLNQEIAELQKEIEELKKENEELKEEIERL   50 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455555555555555555555555544444

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

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

Probab=86.73  E-value=6.2  Score=34.34  Aligned_cols=58  Identities=19%  Similarity=0.225  Sum_probs=33.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      ..-++.-.|...-|+..=..+-++|+..+..|++++..+.+++..|+.++..++....
T Consensus        18 La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le   75 (107)
T PF09304_consen   18 LASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLE   75 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555555555555666666666666666666666666666555554443

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.

>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development

Probab=86.69  E-value=9.5  Score=31.77  Aligned_cols=46  Identities=22%  Similarity=0.337  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLI-----DENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       303 ~~~eeLe~rV~~L~-----~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .++..||.+++.--     .....|..++..|+.+...|..+|..|+.+|.
T Consensus        49 ~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~en~~L~~~~~   99 (100)
T PF01486_consen   49 KELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEENNQLRQKIE   99 (100)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45566665554322     24456777888888888888889999988875

The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 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=86.68  E-value=5.9  Score=37.13  Aligned_cols=34  Identities=26%  Similarity=0.354  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      .-+..+.+|+.+.+.|+.+...|+.+++.+.+..
T Consensus       124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~  157 (189)
T PF10211_consen  124 ELEEEIEELEEEKEELEKQVQELKNKCEQLEKRE  157 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345666666666666666666666665554443

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 [].

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

Probab=86.63  E-value=15  Score=37.05  Aligned_cols=9  Identities=22%  Similarity=0.139  Sum_probs=3.3

Q ss_pred             HHHHHHHHH
Q 016555          338 QENAALLVC  346 (387)
Q Consensus       338 ~EN~~Lr~~  346 (387)
                      .|...|..+
T Consensus       113 ~e~~sl~~q  121 (314)
T PF04111_consen  113 EERDSLKNQ  121 (314)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

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.

>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=86.54  E-value=14  Score=36.02  Aligned_cols=45  Identities=18%  Similarity=0.095  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      .+.+..|+....+++.+..+.++...+|..|...|++++.++..+
T Consensus        59 ~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   59 NQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555555555555555555555555555555544

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.

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

Probab=86.46  E-value=3.3  Score=42.98  Aligned_cols=65  Identities=15%  Similarity=0.151  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          292 ESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       292 ESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      +.|..-|.|-.+--.+.+..++++..|...|+.+++++......|..|+..|++-++.+...+.-
T Consensus       227 ee~aaERerglqteaqvek~i~EfdiEre~LRAel~ree~r~K~lKeEmeSLkeiVkdlEA~hQh  291 (561)
T KOG1103|consen  227 EEAAAERERGLQTEAQVEKLIEEFDIEREFLRAELEREEKRQKMLKEEMESLKEIVKDLEADHQH  291 (561)
T ss_pred             HHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            44555566666666677778888888889999999999888889999999999888876554433

>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=86.39  E-value=9  Score=28.61  Aligned_cols=24  Identities=46%  Similarity=0.664  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          320 ASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       320 ~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      ..|..++..|..++..|..++..|
T Consensus        28 ~~le~~~~~L~~en~~L~~~i~~L   51 (54)
T PF07716_consen   28 EELEQEVQELEEENEQLRQEIAQL   51 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444333

; 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 ....

>PF15556 Zwint: ZW10 interactor

Probab=86.32  E-value=13  Score=36.06  Aligned_cols=63  Identities=11%  Similarity=0.163  Sum_probs=36.3

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          287 KQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       287 k~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.++|.+...-.++...++..|.....+++..-..-+++++.|..++..|+.+-..-+++|.+
T Consensus       118 ~eK~r~AQkqwqlqQeK~LQ~Lae~sAEvrerq~~~qqeLe~l~qeL~~lkqQa~qeqdKLQR  180 (252)
T PF15556_consen  118 MEKLRAAQKQWQLQQEKHLQHLAEVSAEVRERQTGTQQELERLYQELGTLKQQAGQEQDKLQR  180 (252)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444455666666555555555556666666666666666665555666654

>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]

Probab=86.13  E-value=2.7  Score=44.10  Aligned_cols=18  Identities=22%  Similarity=0.294  Sum_probs=11.9

Q ss_pred             CCCCCCCC-CCcccCCCCC
Q 016555           69 PMMPPYGA-PYAAIYSTGG   86 (387)
Q Consensus        69 pmmpPyGt-Py~a~yp~gg   86 (387)
                      +.+-|.|+ .|-.+|.-++
T Consensus        70 ~~en~s~~~~~~~~~~~~~   88 (411)
T KOG1318|consen   70 QLENPSGYHIQQTIRGSEG   88 (411)
T ss_pred             cccCCCCccceeeeecccc
Confidence            36666675 5667777776

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=86.12  E-value=9.7  Score=37.77  Aligned_cols=76  Identities=20%  Similarity=0.113  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEAEE---------LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~ee---------Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      -.+..+.++++...-+.+.  ..|++.+..         ++..+.....+|..+..++..-++.++.|+.++..|+++++
T Consensus       140 ldel~e~~~~el~~l~~~~--q~k~~~il~~~~~k~~~~~~~~l~~~~~~N~~m~kei~~~re~i~el~e~I~~L~~eV~  217 (258)
T PF15397_consen  140 LDELNEMRQMELASLSRKI--QEKKEEILSSAAEKTQSPMQPALLQRTLENQVMQKEIVQFREEIDELEEEIPQLRAEVE  217 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666655555443  333333322         34456677789999999999999999999999999999998


Q ss_pred             hhhhhhh
Q 016555          349 NVIIFWT  355 (387)
Q Consensus       349 ~l~~~~~  355 (387)
                      .+.....
T Consensus       218 ~L~~~~~  224 (258)
T PF15397_consen  218 QLQAQAQ  224 (258)
T ss_pred             HHHHhhc
Confidence            8866433

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=86.06  E-value=2.9  Score=44.66  Aligned_cols=51  Identities=22%  Similarity=0.280  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++++.|+++++.|.++++.|.++|+.|+.++++|+.+...++.++....+
T Consensus        82 EKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~~~~~~~~  132 (475)
T PRK13729         82 QKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGANPVTATG  132 (475)
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCC
Confidence            355667777777777888888888888888888888888777776554433

>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

Probab=86.01  E-value=12  Score=33.74  Aligned_cols=53  Identities=21%  Similarity=0.244  Sum_probs=29.5

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELS-------RKVDSLIDENASLKSEINQLSENSE  334 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe-------~rV~~L~~EN~~L~~el~~L~ee~~  334 (387)
                      +++.+++..-+.+.+.-.+|++.++.|+       .+|+.|+.+...+..++..++.+++
T Consensus       110 ~~R~~~~~~~~~~~~~l~~k~~~~~kl~~~~~~~~~ki~~l~~~i~~~e~~~~~~~~~~~  169 (218)
T cd07596         110 DDRADALLTLQSLKKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESALEEARKRYE  169 (218)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555666666666666666664       2555555555555555555554433

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

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

Probab=85.90  E-value=0.82  Score=33.75  Aligned_cols=35  Identities=29%  Similarity=0.329  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          313 DSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       313 ~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      ..|-..|..|..++..|..++..|..||..||+++
T Consensus        10 ~~laK~Ns~l~~ki~~le~~~s~L~~en~~lR~~~   44 (46)
T PF07558_consen   10 RELAKRNSALSIKIQELENEVSKLLNENVNLRELV   44 (46)
T ss_dssp             --------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHhHhHHHHhHHHHHHhHHHHHHHHHHHHHHHh
Confidence            33444566666666666666666777777776654

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

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

Probab=85.89  E-value=1.3  Score=45.22  Aligned_cols=17  Identities=47%  Similarity=0.610  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 016555          313 DSLIDENASLKSEINQL  329 (387)
Q Consensus       313 ~~L~~EN~~L~~el~~L  329 (387)
                      ..|++||.+|+.|+++|
T Consensus        42 ~~LKkEN~~Lk~eVerL   58 (420)
T PF07407_consen   42 HSLKKENNDLKIEVERL   58 (420)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

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

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

Probab=85.88  E-value=4.2  Score=32.99  Aligned_cols=28  Identities=36%  Similarity=0.386  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      .+++..++.|+.||=.|+-+|-.|.+..
T Consensus         3 rEqe~~i~~L~KENF~LKLrI~fLee~l   30 (75)
T PF07989_consen    3 REQEEQIDKLKKENFNLKLRIYFLEERL   30 (75)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            3556667777777777776666665543

>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein

Probab=85.81  E-value=13  Score=33.16  Aligned_cols=32  Identities=13%  Similarity=-0.009  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          321 SLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .++.++..|---+..|...+..+|.+|+.+-.
T Consensus        81 ~~q~EldDLL~ll~Dle~K~~kyk~rLk~LG~  112 (136)
T PF04871_consen   81 EAQSELDDLLVLLGDLEEKRKKYKERLKELGE  112 (136)
T ss_pred             hhhhhHHHHHHHHHhHHHHHHHHHHHHHHcCC
Confidence            34444444444455556667777777776643

This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane

>KOG3248 consensus Transcription factor TCF-4 [Transcription]

Probab=85.75  E-value=3.2  Score=42.74  Aligned_cols=105  Identities=26%  Similarity=0.401  Sum_probs=62.2

Q ss_pred             CCCCChhhhhhccCCCCC--CCCCC-CCCCCCCCCCCCCCcCCCCCCCCCCCC--CCcc--------cCCCCCCCCCCCC
Q 016555           27 HMYTDWAAMQAYYGPRVA--IPPYY-NSPIASGHAPQPYMWGPAQPMMPPYGA--PYAA--------IYSTGGVYAHPAV   93 (387)
Q Consensus        27 ~~ypdWs~~QaYygp~~~--~pp~f-~s~vas~~~phPymWg~~qpmmpPyGt--Py~a--------~yp~ggvyaHP~~   93 (387)
                      |.-.|-+.+|.-|-|..+  +.||| +++-|-+.-|||--|=  --|+|+||.  ||++        +-||-.+-.||..
T Consensus        72 ~~p~dis~k~g~~r~~~~pd~~p~y~ls~gavgqip~~l~wp--~y~~pt~~~~~p~p~~~~asmsrf~ph~~~p~~p~~  149 (421)
T KOG3248|consen   72 PLPADISPKQGIPRPPHPPDLSPFYPLSPGAVGQIPHPLGWP--VYPIPTFGFRHPYPGVVNASMSRFSPHHVEPGHPGL  149 (421)
T ss_pred             CCcccccccCCCCCCCCCccccccccCCccccccCCCccCCc--cccCCCCCCCCCCchhhhhhhhhcchhccCCCCCCc
Confidence            344678889976655433  24555 4555667789999992  346688888  7884        3356667788877


Q ss_pred             CCCCCCCCCCCCCC---CCCCCCCCcC--CCCCCCCCCcccchhh
Q 016555           94 PLGSHAHNHGVPTS---PAAVTPLNTE--APTKSSGNADRGLAKK  133 (387)
Q Consensus        94 p~~~~p~~~~~~~s---p~~~tp~s~e--~~~k~~~~~~~~~~Kk  133 (387)
                      ....+||..-++|+   +....+.+..  ..+|..+.+.+--|||
T Consensus       150 ~tagiPhpaiv~P~~kqes~~~~~nvk~~~~~k~e~e~KkphiKK  194 (421)
T KOG3248|consen  150 HTAGIPHPAIVTPPVKQESDSAPQNVKRQAESKKEEEAKKPHIKK  194 (421)
T ss_pred             cccCCCCccccCCcccCcccccccccchhhhccccccccCccccc
Confidence            77777775544443   1122233333  2444444434444554

>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=85.73  E-value=23  Score=30.85  Aligned_cols=61  Identities=18%  Similarity=0.170  Sum_probs=35.3

Q ss_pred             HhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          289 SNRESA-RRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       289 rNRESA-RRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .||.++ .++..--|.-.++|..+.+.|+.-++.|+.+...+.+.+..|.++...++..|..
T Consensus        15 ~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~   76 (107)
T PF09304_consen   15 QNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLED   76 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344433 3444445555556666666666666666666666666666666666666655554

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.

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=85.70  E-value=9.7  Score=41.86  Aligned_cols=66  Identities=14%  Similarity=0.002  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          291 RESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       291 RESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      |++.+.-=..-+....+|..+++++....++|++.|.+-+.++.+|+.+.++-..+++++......
T Consensus        88 ~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~~n~p  153 (907)
T KOG2264|consen   88 LASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRETNNP  153 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHhhcCC
Confidence            344443333333344566777777777777777777777777777777777777777776554433

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

Probab=85.68  E-value=9.2  Score=38.81  Aligned_cols=51  Identities=18%  Similarity=0.263  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      .++-+|+.+++.+..||.+|...+...++--..|.+|+..|+++..+..+-
T Consensus       241 sqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~m  291 (306)
T PF04849_consen  241 SQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAM  291 (306)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445566666667777777777777777777777777777777777665443

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 [].

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

Probab=85.60  E-value=4.7  Score=33.74  Aligned_cols=12  Identities=33%  Similarity=0.363  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLI  316 (387)
Q Consensus       305 ~eeLe~rV~~L~  316 (387)
                      +++|..+...+.
T Consensus        45 ~e~lr~~rN~~s   56 (108)
T PF02403_consen   45 LEELRAERNELS   56 (108)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHH
Confidence            333333333333

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 ....

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=85.44  E-value=3.8  Score=40.18  Aligned_cols=50  Identities=16%  Similarity=0.156  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       299 ~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .-=+.++++|+.+|..|+-+++++.-+++.|+++-..|-.+.+.+..+++
T Consensus        57 ~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~r~~~~~  106 (263)
T PRK10803         57 TQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDSLSSGGA  106 (263)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            45588999999999999999999999999999998888888887766553

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=85.29  E-value=5.4  Score=37.98  Aligned_cols=15  Identities=40%  Similarity=0.466  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDE  318 (387)
Q Consensus       304 ~~eeLe~rV~~L~~E  318 (387)
                      ++++|..-+..|+.+
T Consensus        68 EledLk~~~~~lEE~   82 (193)
T PF14662_consen   68 ELEDLKTLAKSLEEE   82 (193)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444333333333

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

Probab=85.27  E-value=12  Score=31.22  Aligned_cols=13  Identities=23%  Similarity=0.008  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 016555          336 LRQENAALLVCHI  348 (387)
Q Consensus       336 L~~EN~~Lr~~L~  348 (387)
                      |..|...|+++|.
T Consensus        72 l~~e~~~lk~~i~   84 (108)
T PF02403_consen   72 LKAEVKELKEEIK   84 (108)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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 ....

>PHA03162 hypothetical protein; Provisional

Probab=85.27  E-value=0.33  Score=43.44  Aligned_cols=28  Identities=32%  Similarity=0.464  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEIN  327 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~  327 (387)
                      +++.-+|+|+.++..|+-||..|+.+|.
T Consensus        10 k~~~tmEeLaaeL~kLqmENK~LKkkl~   37 (135)
T PHA03162         10 KAQPTMEDLAAEIAKLQLENKALKKKIK   37 (135)
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667799999999999999999999994

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

Probab=85.25  E-value=5.7  Score=35.04  Aligned_cols=65  Identities=15%  Similarity=0.123  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          294 ARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       294 ARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      ..|-|.--..++..|+.++..|..|--.=-++++.|=.++++|+.++..|++-|..+...+..-+
T Consensus         5 l~kLkE~He~ev~glq~K~~~L~~erc~Daqrleel~~knqqLreQqk~L~e~i~~LE~RLRaGl   69 (120)
T PF10482_consen    5 LNKLKEIHEKEVQGLQNKLLELKKERCLDAQRLEELFSKNQQLREQQKTLHENIKVLENRLRAGL   69 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHcccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            34444455566777777777777766555556666666666677777777777666655554444

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

>PF15030 DUF4527: Protein of unknown function (DUF4527)

Probab=85.18  E-value=11  Score=37.35  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQ  302 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq  302 (387)
                      |++.|-..|++.-+.---+|-+|-|
T Consensus        11 eed~rL~v~~LhHQvlTLqcQLRDQ   35 (277)
T PF15030_consen   11 EEDLRLRVQQLHHQVLTLQCQLRDQ   35 (277)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444433333333333

>PF14645 Chibby: Chibby family

Probab=85.18  E-value=3  Score=36.47  Aligned_cols=45  Identities=24%  Similarity=0.196  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      .....|.++.++|+.||.-|+-+++.|-.-+....+|...+..+|
T Consensus        71 ~~~~~l~~~n~~L~EENN~Lklk~elLlDMLtettae~~l~ek~l  115 (116)
T PF14645_consen   71 EENQRLRKENQQLEEENNLLKLKIELLLDMLTETTAEAHLLEKEL  115 (116)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344556666778888888888888888777777777766666554

>PHA03155 hypothetical protein; Provisional

Probab=85.14  E-value=2.7  Score=36.87  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQ  328 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~  328 (387)
                      -+|+|+.++..|+-||..|++++.+
T Consensus         9 tvEeLaaeL~kL~~ENK~LKkkl~~   33 (115)
T PHA03155          9 DVEELEKELQKLKIENKALKKKLLQ   33 (115)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            4799999999999999999999965

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

Probab=85.10  E-value=7.7  Score=43.49  Aligned_cols=43  Identities=19%  Similarity=0.199  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      ++.+.|..|...+++++..++...++|...++.|+.+|.+++.
T Consensus       216 e~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~  258 (916)
T KOG0249|consen  216 EDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRR  258 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3566777788888888888888888888888888888888773

>PF14282 FlxA: FlxA-like protein

Probab=85.10  E-value=4.6  Score=34.45  Aligned_cols=51  Identities=14%  Similarity=0.162  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          304 EAEELSRKVDSLID----ENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       304 ~~eeLe~rV~~L~~----EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      .+..|+.++..|..    .......++..|+.++..|.+++..|..+........
T Consensus        27 Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~~~~~~~~   81 (106)
T PF14282_consen   27 QIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQAEQQQQK   81 (106)
T ss_pred             HHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34555555665555    2244556666777777777777777776666554433

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

Probab=85.06  E-value=4.3  Score=35.48  Aligned_cols=49  Identities=22%  Similarity=0.201  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTV  356 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~  356 (387)
                      |=.+|..|+.....|.+++..|++....|..||..|+-+.+.+...+..
T Consensus         6 iFd~v~~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~   54 (114)
T COG4467           6 IFDQVDNLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE   54 (114)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence            4456888888888888999999999999999999988777776665554

>PRK00736 hypothetical protein; Provisional

Probab=84.98  E-value=6.1  Score=31.36  Aligned_cols=50  Identities=10%  Similarity=-0.013  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      ++.++..|+....-+..-|+.|.+.+.+-..++..|+.+|+.+...+...
T Consensus         3 ~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~   52 (68)
T PRK00736          3 AEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSL   52 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            67788888888888888888888888888888888888888887766554

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=84.87  E-value=4.6  Score=38.46  Aligned_cols=41  Identities=29%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      .|..++..|+.||..|..+...|+.+...|-.++..|+.+|
T Consensus        99 ~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql  139 (193)
T PF14662_consen   99 SLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQL  139 (193)
T ss_pred             HHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHH
Confidence            44455555555555555555555555555555555555554

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

Probab=84.82  E-value=17  Score=30.36  Aligned_cols=65  Identities=15%  Similarity=0.022  Sum_probs=53.8

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          285 RRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       285 RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .++...++..+..=..|+..+..|+.++..|..|...-.+++-.+.+..+.|..|+..|+..+..
T Consensus         6 ~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~K   70 (96)
T PF08647_consen    6 VSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSK   70 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            35566677777777889999999999999999999988888888888888888888888776654

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.77  E-value=15  Score=36.61  Aligned_cols=59  Identities=22%  Similarity=0.232  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      -=+.+++.|..+|+.+..+...++.++.+++.++..|..|+..|++.|.+...-+..+.
T Consensus        49 ~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~ra  107 (265)
T COG3883          49 NIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRA  107 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567777888888888888888888888888888888888888888877655544444

>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]

Probab=84.58  E-value=28  Score=36.82  Aligned_cols=29  Identities=28%  Similarity=0.381  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      +.+++.+.+.|+..|+.|..++++|+.++
T Consensus       292 ~~E~~~rqk~le~~n~~L~~rieeLk~~~  320 (411)
T KOG1318|consen  292 ARELENRQKKLESTNQELALRIEELKSEA  320 (411)
T ss_pred             HHHHHhhhhHHHhHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444443

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

Probab=84.57  E-value=1.1  Score=33.17  Aligned_cols=43  Identities=30%  Similarity=0.508  Sum_probs=11.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          283 RERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEI  326 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el  326 (387)
                      ++++...||+-|+..-... ..+.+|+.++..|..||..|+.++
T Consensus         2 k~k~~~qn~~laK~Ns~l~-~ki~~le~~~s~L~~en~~lR~~~   44 (46)
T PF07558_consen    2 KEKYSRQNRELAKRNSALS-IKIQELENEVSKLLNENVNLRELV   44 (46)
T ss_dssp             -----------------------------HHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhHhHHHH-hHHHHHHhHHHHHHHHHHHHHHHh
Confidence            3567778888887755443 456777777777777777777665

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

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

Probab=84.52  E-value=0.88  Score=40.12  Aligned_cols=29  Identities=34%  Similarity=0.434  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      |..-+|+|+.++..|+-||..|+.+|..-
T Consensus         1 k~~t~EeLaaeL~kLqmENk~LKkkl~~~   29 (118)
T PF05812_consen    1 KDMTMEELAAELQKLQMENKALKKKLRQS   29 (118)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            44568999999999999999999998753

; PDB: 2OA5_B 2H3R_D.

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

Probab=84.39  E-value=8.9  Score=43.52  Aligned_cols=63  Identities=14%  Similarity=0.094  Sum_probs=46.9

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      ...++-..=.--+++-...++.|.+.+..|+.||.+|..+++.+..+..+|+.++..|+.+|.
T Consensus       654 ~l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg  716 (970)
T KOG0946|consen  654 ELDDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLG  716 (970)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333444444555566667788888888888888888888888888888888888888888877

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

Probab=84.36  E-value=2.7  Score=45.93  Aligned_cols=52  Identities=21%  Similarity=0.148  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      .+|-.+|++|.-|+..|+.++...++-..+|+..+..|.++|+.+..+..+.
T Consensus       325 NDLIakVDeL~~E~~vLrgElea~kqak~Klee~i~elEEElk~~k~ea~~a  376 (832)
T KOG2077|consen  325 NDLIAKVDELTCEKDVLRGELEAVKQAKLKLEEKIRELEEELKKAKAEAEDA  376 (832)
T ss_pred             HHHHHHHHhhccHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677889999999999999998888777777777777877777776665554

>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=84.30  E-value=15  Score=40.04  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      +++.|+.+.+.|...+..|..+...|
T Consensus       186 e~e~L~~~~kel~~~~e~l~~E~~~L  211 (546)
T PF07888_consen  186 EMEQLKQQQKELTESSEELKEERESL  211 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444443333333333333333

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 [].

>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function

Probab=84.22  E-value=6.7  Score=32.69  Aligned_cols=48  Identities=13%  Similarity=0.127  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      ++.|...++.|..-...|.++...|..++..|...|++.|.++++...
T Consensus        28 ~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~   75 (83)
T PF03670_consen   28 YAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLS   75 (83)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344444444444444444444444444455555666777766666543

>PRK14127 cell division protein GpsB; Provisional

Probab=84.07  E-value=2.3  Score=36.94  Aligned_cols=39  Identities=13%  Similarity=0.247  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      +.++++...++.|..||..|+.++.+|++++..++.+..
T Consensus        30 ~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~   68 (109)
T PRK14127         30 KFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS   68 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            455556666666666666666666665555544444333

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

Probab=84.03  E-value=3.7  Score=41.67  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSE  325 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~e  325 (387)
                      .+++-+..++..|..+|..|+..
T Consensus        41 ~El~~ek~~~~~L~~e~~~lr~~   63 (310)
T PF09755_consen   41 RELETEKARCKHLQEENRALREA   63 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555555543

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

Probab=84.02  E-value=3.3  Score=31.60  Aligned_cols=47  Identities=21%  Similarity=0.109  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++.++++|+.++..=+   +.=...-...+.++.+|+.||..|+++|..+
T Consensus         2 w~~Rl~ELe~klkaer---E~R~~d~~~a~~rl~~l~~EN~~Lr~eL~~~   48 (52)
T PF12808_consen    2 WLLRLEELERKLKAER---EARSLDRSAARKRLSKLEGENRLLRAELERL   48 (52)
T ss_pred             HHHHHHHHHHHHHHhH---HhccCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555443321   1111122334445555566666666666543

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

>TIGR02231 conserved hypothetical protein

Probab=83.88  E-value=17  Score=38.68  Aligned_cols=43  Identities=14%  Similarity=0.028  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +-.+.+..+..+|+.++..|..+.+.|+.+...|+.+|..+..
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~  173 (525)
T TIGR02231       131 QAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLT  173 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3333444445555555555555555555555555555554433

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

>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli

Probab=83.78  E-value=11  Score=32.60  Aligned_cols=48  Identities=27%  Similarity=0.405  Sum_probs=28.9

Q ss_pred             cccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEI  326 (387)
Q Consensus       275 ~~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el  326 (387)
                      +.+|++.+.++|..+||||-|.    |+..+-.+..+-..|..+|.-+.++-
T Consensus        48 MKEER~K~E~~~q~r~rES~~E----r~K~~~s~~~~q~Lm~rQN~mm~~qq   95 (121)
T PF10669_consen   48 MKEERSKKEEKRQKRNRESKRE----RQKFIWSMNKQQSLMNRQNNMMKQQQ   95 (121)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHH----HHhHHhhhhHHHHHHHHHhHHHHHHH
Confidence            4578888888899999998654    23333333333333555665555443

The function is currently unknown.

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

Probab=83.45  E-value=3.4  Score=31.54  Aligned_cols=29  Identities=21%  Similarity=0.394  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      ..-.....++..|+.||..|+.++..++.
T Consensus        22 ~d~~~a~~rl~~l~~EN~~Lr~eL~~~r~   50 (52)
T PF12808_consen   22 LDRSAARKRLSKLEGENRLLRAELERLRS   50 (52)
T ss_pred             CCchhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33456678889999999999999887754

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

>PRK11546 zraP zinc resistance protein; Provisional

Probab=83.39  E-value=5.4  Score=36.31  Aligned_cols=53  Identities=15%  Similarity=0.018  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +=...+++|.+++-..+.|.+.|...-.-=.+.+..|..|+..|+.+|.+++-
T Consensus        58 ~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~  110 (143)
T PRK11546         58 DFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRV  110 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555544444444332221233344455555555555554433

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

Probab=83.25  E-value=18  Score=36.16  Aligned_cols=48  Identities=21%  Similarity=0.238  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.+++.++.++.+.+.+..+++.++...+.++..|+.+-..|...|..
T Consensus       206 ~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~  253 (269)
T PF05278_consen  206 KEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKS  253 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555555555555544443

>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=83.24  E-value=3.5  Score=41.77  Aligned_cols=32  Identities=19%  Similarity=0.277  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          322 LKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       322 L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      |..++..-.+++.....|+..|..+|..+...
T Consensus       218 LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r  249 (306)
T PF04849_consen  218 LSEELARKTEENRRQQEEITSLLSQIVDLQQR  249 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444433

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 [].

>TIGR02231 conserved hypothetical protein

Probab=83.20  E-value=13  Score=39.51  Aligned_cols=48  Identities=13%  Similarity=-0.031  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcc
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSLF  359 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~l  359 (387)
                      +..|.+-...+..++..|..+...|+.+.+.|+++|..+..++....-
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~  173 (525)
T TIGR02231       126 LKEWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLT  173 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            455667777777888888888888999999999999988887766653

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

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

Probab=83.12  E-value=27  Score=34.21  Aligned_cols=41  Identities=27%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +..++.|+..++.++..|+.++..|+..|..|..+|..+..
T Consensus       211 ~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~  251 (312)
T PF00038_consen  211 LESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQ  251 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHH
Confidence            44555555556666666666666666666666665555443

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 ....

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=83.09  E-value=4.2  Score=32.44  Aligned_cols=31  Identities=29%  Similarity=0.393  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      ....+++.++++++.|+.||..|+.|+..|.
T Consensus        28 ~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~   58 (85)
T TIGR02209        28 QLNNELQKLQLEIDKLQKEWRDLQLEVAELS   58 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3445556666666666666666666666554

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

>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=83.08  E-value=13  Score=34.24  Aligned_cols=37  Identities=24%  Similarity=0.267  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          313 DSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       313 ~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.++.++..|..++..|+.++..|......+.+++..
T Consensus        85 d~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~r  121 (158)
T PF09744_consen   85 DQWRQERKDLQSQVEQLEEENRQLELKLKNLSDQSSR  121 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccc
Confidence            5667777777777777777666666555444444433

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

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

Probab=82.89  E-value=6.3  Score=43.24  Aligned_cols=45  Identities=31%  Similarity=0.323  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      ++++|..+++.++.+...|..++..+.++.+..+.++..|.+++.
T Consensus       336 ~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~  380 (594)
T PF05667_consen  336 QLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELK  380 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555555555555544

>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface

Probab=82.85  E-value=6.9  Score=33.58  Aligned_cols=45  Identities=24%  Similarity=0.401  Sum_probs=27.9

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          289 SNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       289 rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      .-||.|+.-+-=++.+.|.|+.-.+.|+.|...-+++|+.|++++
T Consensus        55 ~krE~A~E~~Y~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I   99 (100)
T PF04568_consen   55 GKREAAQEEQYFRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI   99 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            346667766666666666666666666666666666666665543

It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain

Probab=82.82  E-value=9.4  Score=36.36  Aligned_cols=54  Identities=20%  Similarity=0.277  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEA----EELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~----eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      |+-.+|.||-+..+.++=.-+-+=-+++    ...-.++..|+..|+.|..+.++|+.
T Consensus        19 eel~~rLR~~E~ek~~~m~~~g~lm~evNrrlQ~hl~EIR~LKe~NqkLqedNqELRd   76 (195)
T PF10226_consen   19 EELVRRLRRAEAEKMSLMVEHGRLMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQELRD   76 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566788888888777654333322221    22223445555555555555555444

Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.

>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=82.78  E-value=13  Score=43.05  Aligned_cols=55  Identities=25%  Similarity=0.214  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      ++..+.+.|+-++++|+.+...++.++..+..++..|..|+..|+.+|.......
T Consensus       812 k~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~  866 (1174)
T KOG0933|consen  812 KRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDV  866 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHH
Confidence            3344556666777777777777777777777777777777777777766654433

>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export []

Probab=82.74  E-value=2  Score=36.34  Aligned_cols=32  Identities=31%  Similarity=0.484  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      .|+.+++.|..+++.|+.+|..|..+|..+++
T Consensus        77 ~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r~  108 (109)
T PF03980_consen   77 YKKKEREQLNARLQELEEENEALAEEIQEQRK  108 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            44566677777777777777777777766553

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=82.63  E-value=5.8  Score=35.08  Aligned_cols=37  Identities=24%  Similarity=0.363  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      |..-+++|+.+++.|+.+...|..+...|+++++.|+
T Consensus        68 k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq  104 (119)
T COG1382          68 KEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQ  104 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555444444444444443333

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

Probab=82.48  E-value=13  Score=35.58  Aligned_cols=17  Identities=6%  Similarity=-0.128  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHhhh
Q 016555          335 KLRQENAALLVCHINVI  351 (387)
Q Consensus       335 ~L~~EN~~Lr~~L~~l~  351 (387)
                      .++..+..|+.+|.++.
T Consensus       193 eie~a~~~Le~ei~~l~  209 (221)
T PF05700_consen  193 EIEVACEELEQEIEQLK  209 (221)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33334444444444433

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

>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans

Probab=82.46  E-value=2.8  Score=37.18  Aligned_cols=38  Identities=24%  Similarity=0.395  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLK  323 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~  323 (387)
                      |..|..|+.++||.+++      +++++|+.+++.|+.+.+.+.
T Consensus        95 E~~Rs~~ke~~Ke~~~~------~~l~~L~~~i~~L~~~~~~~~  132 (134)
T PF07047_consen   95 EYWRSARKEAKKEEELQ------ERLEELEERIEELEEQVEKQQ  132 (134)
T ss_pred             HHHHHHhhHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHh
Confidence            45566666555555433      555666666666665555443

This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.

>smart00340 HALZ homeobox associated leucin zipper

Probab=82.42  E-value=3  Score=30.75  Aligned_cols=26  Identities=23%  Similarity=0.141  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          327 NQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       327 ~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +-|++-|+.|..||+.|+.+|+++..
T Consensus         8 e~LKrcce~LteeNrRL~ke~~eLra   33 (44)
T smart00340        8 ELLKRCCESLTEENRRLQKEVQELRA   33 (44)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555556666666666666665544

>PRK03918 chromosome segregation protein; Provisional

Probab=82.37  E-value=14  Score=41.13  Aligned_cols=15  Identities=27%  Similarity=0.616  Sum_probs=9.8

Q ss_pred             CCcccccCCCCCCCC
Q 016555          138 DGLAMSIGNASAESA  152 (387)
Q Consensus       138 ~Gl~ms~g~~~~~~~  152 (387)
                      .|+++++|.+-+||+
T Consensus        23 ~g~~~i~G~nG~GKS   37 (880)
T PRK03918         23 DGINLIIGQNGSGKS   37 (880)
T ss_pred             CCcEEEEcCCCCCHH
Confidence            367777776666553

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=82.16  E-value=4.8  Score=41.78  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      |+.+++.|+.++..|..++..       ++.|...|+++|..+.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~   63 (398)
T PTZ00454         27 LEKELEFLDIQEEYIKEEQKN-------LKRELIRAKEEVKRIQ   63 (398)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHh
Confidence            334444444444444444444       4444445555555543

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

Probab=82.09  E-value=19  Score=30.70  Aligned_cols=49  Identities=16%  Similarity=0.167  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          302 QAEAEELSRKVDSL--IDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       302 q~~~eeLe~rV~~L--~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ..++..||.+++.|  ..+...|+-++.+++-++..|..+.+.+..++.-+
T Consensus        48 ~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   48 DRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            45566677777777  66666677777666666666666666665555443

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

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

Probab=82.04  E-value=8.8  Score=41.87  Aligned_cols=47  Identities=30%  Similarity=0.251  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .|+.+++.+-..++.....|+.++....+|++.|+.+|..|+.+|+.
T Consensus       280 ~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~  326 (581)
T KOG0995|consen  280 AYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIEL  326 (581)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45566666666666666666666666667777777777777766654

>smart00340 HALZ homeobox associated leucin zipper

Probab=81.99  E-value=3.4  Score=30.44  Aligned_cols=27  Identities=37%  Similarity=0.570  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      .++-|.+-.+.|..||..|+.++++|+
T Consensus         6 dCe~LKrcce~LteeNrRL~ke~~eLr   32 (44)
T smart00340        6 DCELLKRCCESLTEENRRLQKEVQELR   32 (44)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666777777777777777776665

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

Probab=81.97  E-value=8.6  Score=34.55  Aligned_cols=33  Identities=24%  Similarity=0.387  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSEN  332 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee  332 (387)
                      ++-.+|..|..++..|+.+...|..++..++..
T Consensus        32 ~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~   64 (143)
T PF12718_consen   32 QKEQEITSLQKKNQQLEEELDKLEEQLKEAKEK   64 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666666666666666666666555443

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 [].

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=81.96  E-value=18  Score=38.87  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      .|+.++..++.++..|..++..|
T Consensus        64 ~~~~~l~~~~~~~~~~~~~~~~l   86 (475)
T PRK10361         64 LLNNEVRSLQSINTSLEADLREV   86 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444443333333333

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=81.88  E-value=13  Score=37.23  Aligned_cols=48  Identities=25%  Similarity=0.349  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEIN---QLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~---~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      +---++++++++++.-..|.-|..++.   .|-+..++|+.|-+.|+++|.
T Consensus       131 ti~sleDfeqrLnqAIErnAfLESELdEke~llesvqRLkdEardlrqela  181 (333)
T KOG1853|consen  131 TIYSLEDFEQRLNQAIERNAFLESELDEKEVLLESVQRLKDEARDLRQELA  181 (333)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334456666666666666666666654   244455555555555555554

>PF13118 DUF3972: Protein of unknown function (DUF3972)

Probab=81.78  E-value=6.9  Score=34.95  Aligned_cols=47  Identities=19%  Similarity=0.140  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      -+...+.-+..|+.||.-|+..+-.+++.++.=+.....|+++|+..
T Consensus        79 vl~aKdETI~~lk~EN~fLKeAl~s~QE~y~ed~kTI~~L~~qL~~~  125 (126)
T PF13118_consen   79 VLDAKDETIEALKNENRFLKEALYSMQELYEEDRKTIELLREQLKIM  125 (126)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34555667889999999999999999999999999999999999753

>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein

Probab=81.76  E-value=1.5  Score=39.99  Aligned_cols=45  Identities=18%  Similarity=0.219  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          305 AEELSRKVDSLIDENASLKS-----EINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~-----el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..+|+.++.+|++|...+..     +-..|++++++|+.|.+.+++++..
T Consensus        42 ~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~~~~~~~   91 (161)
T PF04420_consen   42 QRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKLNKSLSS   91 (161)
T ss_dssp             HHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555444321     2334555555555555555555544

The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.

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

Probab=81.70  E-value=14  Score=38.19  Aligned_cols=28  Identities=21%  Similarity=0.103  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          327 NQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       327 ~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      +.|+.-...++.||..|..+|.++..+.
T Consensus       130 q~LE~li~~~~EEn~~lqlqL~~l~~e~  157 (401)
T PF06785_consen  130 QHLEGLIRHLREENQCLQLQLDALQQEC  157 (401)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            3455556667788888887777765543

>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal

Probab=81.65  E-value=8.3  Score=33.29  Aligned_cols=42  Identities=26%  Similarity=0.310  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +.|...+..|+.++..+..+++.|++++.++..|...|+.++
T Consensus        76 ~~L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~E~  117 (118)
T PF13815_consen   76 EYLSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKKES  117 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            346667777777777777777777777777777777777765

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=81.57  E-value=4.8  Score=41.31  Aligned_cols=46  Identities=22%  Similarity=0.239  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ..|+.++..|+.+++.|+.++..|..+.+.++.+...|+++|..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (389)
T PRK03992          4 EALEERNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLK   49 (389)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3444555555555555555555555555556666666666665544

>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=81.46  E-value=34  Score=31.03  Aligned_cols=9  Identities=22%  Similarity=0.401  Sum_probs=4.0

Q ss_pred             HHHHHHHHH
Q 016555          279 RELKRERRK  287 (387)
Q Consensus       279 ~e~KR~RRk  287 (387)
                      .++||.+|.
T Consensus        10 ~kLK~~~~e   18 (140)
T PF10473_consen   10 EKLKESESE   18 (140)
T ss_pred             HHHHHHHHh
Confidence            444444443

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

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

Probab=81.41  E-value=2  Score=33.60  Aligned_cols=27  Identities=33%  Similarity=0.450  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      +++-|..++..|+.+|.+|..|...|+
T Consensus        15 EVevLK~~I~eL~~~n~~Le~EN~~Lk   41 (59)
T PF01166_consen   15 EVEVLKEQIAELEERNSQLEEENNLLK   41 (59)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444

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

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

Probab=81.39  E-value=21  Score=36.51  Aligned_cols=25  Identities=28%  Similarity=0.195  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAE  304 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~  304 (387)
                      ..+++|+++++|...-..=.||..+
T Consensus       120 ~~~e~r~~lk~RI~rSEAFKRKllE  144 (323)
T PF08537_consen  120 SGREERRLLKDRILRSEAFKRKLLE  144 (323)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455667777887766555555433

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=81.37  E-value=5.6  Score=43.27  Aligned_cols=50  Identities=14%  Similarity=0.359  Sum_probs=31.2

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDE-------NASLKSEINQLSENSEK  335 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~E-------N~~L~~el~~L~ee~~~  335 (387)
                      ...+++--+|...+-+++.+++++++++.|+..       ..+.+++++.|+.+...
T Consensus       174 k~~~~~w~~~~~~Lp~~~~~~~yk~~v~~i~~~~ik~p~~i~~~~~e~d~lk~e~~~  230 (555)
T TIGR03545       174 KAMQQKWKKRKKDLPNKQDLEEYKKRLEAIKKKDIKNPLELQKIKEEFDKLKKEGKA  230 (555)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHH
Confidence            344455666666676778889999999888874       22344455544444443

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

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

Probab=81.33  E-value=17  Score=38.48  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEIN  327 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~  327 (387)
                      +++.++|..+..|+.||..|..+.-
T Consensus        48 a~~~~~E~~l~~Lq~e~~~l~e~~v   72 (459)
T KOG0288|consen   48 AKLQEKELELNRLQEENTQLNEERV   72 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555544443

>PRK14160 heat shock protein GrpE; Provisional

Probab=81.32  E-value=6.3  Score=37.92  Aligned_cols=47  Identities=21%  Similarity=0.245  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..+..|+.++..|+.++..|+.++..|+.++.++.++...+|.+..+
T Consensus        54 ~~~~~l~~e~~~l~~~l~~l~~e~~elkd~~lR~~AefeN~RKR~~k  100 (211)
T PRK14160         54 VKIEELKDENNKLKEENKKLENELEALKDRLLRTVAEYDNYRKRTAK  100 (211)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666666666666666666666666666666666666655544

>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function

Probab=81.28  E-value=4.6  Score=36.17  Aligned_cols=35  Identities=31%  Similarity=0.339  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      .-++.|+.|...-..+|..|+++++.+...|..|.
T Consensus        94 ~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~Le  128 (131)
T PF04859_consen   94 IVVKKLEAELRAKDSEIDRLREKLDELNRANKSLE  128 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33444444444444444444444444444444443

>PRK04863 mukB cell division protein MukB; Provisional

Probab=81.16  E-value=17  Score=43.95  Aligned_cols=67  Identities=13%  Similarity=0.103  Sum_probs=29.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          283 RERRKQSNRESARRSRLRKQA-------------EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       283 R~RRk~rNRESARRSR~RKq~-------------~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.+.+.+.++.|++.+.-+++             .+++|+.+++.++.+...++.++..+++++..++.+...|+.++.+
T Consensus       322 rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLae  401 (1486)
T PRK04863        322 AESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLAD  401 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455556666665443322             2233333333334444444444444444444444444444444443

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

Probab=81.12  E-value=17  Score=34.68  Aligned_cols=72  Identities=14%  Similarity=0.177  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |++|. +++.-.+-..|.-..-+++...|+..++.-+.+-+....+-..++++...|+.|...++.+|..+..
T Consensus       104 eirR~-~LeAQka~~eR~ia~~~~ra~~LqaDl~~~~~Q~~~va~~Q~q~r~ea~aL~~e~~aaqaQL~~lQ~  175 (192)
T PF11180_consen  104 EIRRA-QLEAQKAQLERLIAESEARANRLQADLQIARQQQQQVAARQQQARQEAQALEAERRAAQAQLRQLQR  175 (192)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44433 3555556666666666777777777776666665555555555556666666666666666555544

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

Probab=80.86  E-value=10  Score=33.72  Aligned_cols=47  Identities=11%  Similarity=0.007  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .+|+.++..|+.|+..+..-...|...+..|+-.+.+.+.++..+..
T Consensus        28 aEmkarIa~LEGE~r~~e~l~~dL~rrIkMLE~aLkqER~k~~~~~~   74 (134)
T PF08232_consen   28 AEMKARIAFLEGERRGQENLKKDLKRRIKMLEYALKQERAKYKKLKY   74 (134)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            45666677777777766666667777777777777777777766443

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 [, ].

>TIGR02209 ftsL_broad cell division protein FtsL

Probab=80.52  E-value=6.1  Score=31.49  Aligned_cols=28  Identities=25%  Similarity=0.312  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          322 LKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       322 L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +..++..++++.+.++.||..|+.++..
T Consensus        29 ~~~~~~~~~~~~~~l~~en~~L~~ei~~   56 (85)
T TIGR02209        29 LNNELQKLQLEIDKLQKEWRDLQLEVAE   56 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444443

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

>KOG4001 consensus Axonemal dynein light chain [Cytoskeleton]

Probab=80.48  E-value=15  Score=35.64  Aligned_cols=45  Identities=27%  Similarity=0.274  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          291 RESARRSRLRKQAEA----EELSRKVDSLIDENASLKSEINQLSENSEK  335 (387)
Q Consensus       291 RESARRSR~RKq~~~----eeLe~rV~~L~~EN~~L~~el~~L~ee~~~  335 (387)
                      -+|+-..-+||.-..    ..++.+++.|+.++.+|..+|..|+.+++.
T Consensus       169 yeSsvAfGmRKALqae~ek~~~~~~~k~le~~k~~Le~~ia~~k~K~e~  217 (259)
T KOG4001|consen  169 YESSVAFGMRKALQAENEKTRATTEWKVLEDKKKELELKIAQLKKKLET  217 (259)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            466666666665433    345566777777777777776666554443

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

Probab=80.45  E-value=5.5  Score=42.41  Aligned_cols=41  Identities=22%  Similarity=0.293  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |+.|+.....-.++.++|+++.+.|+.+|..|.++|+.+..
T Consensus       274 id~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt  314 (472)
T KOG0709|consen  274 IDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKLQT  314 (472)
T ss_pred             HHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            66777777777788889999999999999999999987744

>TIGR00606 rad50 rad50

Probab=80.45  E-value=16  Score=43.42  Aligned_cols=31  Identities=26%  Similarity=0.315  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      .|+.+++.|..++..|+.++..+.+++..|.
T Consensus       885 ~le~~L~el~~el~~l~~~~~~~~~~~~~~~  915 (1311)
T TIGR00606       885 QFEEQLVELSTEVQSLIREIKDAKEQDSPLE  915 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            3334444444444444444444433333333

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

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=80.41  E-value=5.8  Score=42.36  Aligned_cols=20  Identities=25%  Similarity=0.321  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKS  324 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~  324 (387)
                      ++.|..+-+.|++||+.|++
T Consensus        75 ~~~l~~~N~~l~~eN~~L~~   94 (472)
T TIGR03752        75 LAKLISENEALKAENERLQK   94 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555554

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.

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=80.31  E-value=21  Score=37.45  Aligned_cols=28  Identities=25%  Similarity=0.227  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          322 LKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       322 L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      |+.++..|++++..|+.+...|.++|.+
T Consensus        71 l~~~~~~l~~~~~~~~~~~~~~~~~~~~   98 (425)
T PRK05431         71 LIAEVKELKEEIKALEAELDELEAELEE   98 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444

>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function

Probab=80.27  E-value=7.1  Score=33.34  Aligned_cols=42  Identities=19%  Similarity=0.306  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      .+|..+++..+.|-.-|+..+..|..+++.|+.|...++.++
T Consensus         4 aeLR~qLqFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~~~   45 (96)
T PF11365_consen    4 AELRRQLQFVEEEAELLRRKLSELEDENKQLTEELNKYKSKY   45 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            456666666666666666666666655555555555555544

---

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	387
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	1e-17
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	1e-17
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	1e-16
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	1e-16
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	4e-16
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	2e-15
2wt7_B	90	Transcription factor MAFB; transcription, transcri	8e-15
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	2e-13
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	4e-12
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	6e-12
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	1e-10
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	4e-07
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-05
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-04
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	4e-04
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	5e-04
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	7e-04

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

 Score = 75.9 bits (187), Expect = 1e-17
 Identities = 16/58 (27%), Positives = 34/58 (58%)

Query: 281 LKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ 338
           +K+ ++ + N+ +A R R +K+AE E L+ +   L  +N +LK   + L++  + L+ 
Sbjct: 1   MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYLKD 58

>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 = 75.1 bits (185), Expect = 1e-17
 Identities = 19/50 (38%), Positives = 29/50 (58%)

Query: 282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE 331
           KRE R   NRE+AR SR +K+   + L  +V  L ++N +L  E+  L +
Sbjct: 1   KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKD 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 = 72.9 bits (179), Expect = 1e-16
 Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENA 341
           KR  R++ N+ +A + R R++   + L  + D L DE ++L++EI  L +  EKL     
Sbjct: 2   KRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEF--- 58

Query: 342 ALLVCH 347
            +L  H
Sbjct: 59  -ILAAH 63

>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 = 72.4 bits (178), Expect = 1e-16
 Identities = 18/58 (31%), Positives = 31/58 (53%)

Query: 282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQE 339
           KR +  + NR +A RSR +++   + L +K + L   N  L+SE+  L     +L+Q 
Sbjct: 1   KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58

>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 = 71.2 bits (175), Expect = 4e-16
 Identities = 22/58 (37%), Positives = 32/58 (55%)

Query: 282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQE 339
           K ER++  NR +A +SR RK      L  KV +L  +N+ L S  N L E   +L+Q+
Sbjct: 1   KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQK 58

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

 Score = 70.9 bits (173), Expect = 2e-15
 Identities = 20/66 (30%), Positives = 31/66 (46%)

Query: 278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR 337
             +LK+ RR   NR  A   R+++  + EEL ++   L  E   L SE   +    + LR
Sbjct: 33  IIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLASENASMKLELDALR 92

Query: 338 QENAAL 343
            +  AL
Sbjct: 93  SKYEAL 98

>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 = 68.5 bits (167), Expect = 8e-15
 Identities = 16/67 (23%), Positives = 32/67 (47%)

Query: 278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR 337
              LK++RR   NR  A+  R ++  +   L  +   LI +   LK E+++L+   +  +
Sbjct: 23  VIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYK 82

Query: 338 QENAALL 344
            ++  L 
Sbjct: 83  VKSEKLA 89

>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 = 64.3 bits (156), Expect = 2e-13
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKL 336
           N  +    +RK  NR + R  R RK+   + L  +V +L + ++S   E +QL +   +L
Sbjct: 3   NSDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQL 62

Query: 337 RQENAAL 343
            +E   L
Sbjct: 63  EEELRIL 69

>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 = 60.8 bits (147), Expect = 4e-12
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 277 NERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKL 336
           ++   + + R++ N  + R+SR + +    E   KV  L  EN  L+ ++ QLS     L
Sbjct: 10  DKHSDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTL 69

Query: 337 RQ 338
           R 
Sbjct: 70  RN 71

>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 = 59.4 bits (144), Expect = 6e-12
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 4/56 (7%)

Query: 276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSE 331
            +   LKR R    N E+ARRSR RK    ++L  KV+ L+ +N  L++E+ +L +
Sbjct: 7   SDPAALKRAR----NTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKK 58

>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 = 56.4 bits (136), Expect = 1e-10
 Identities = 17/54 (31%), Positives = 26/54 (48%)

Query: 285 RRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ 338
            R++ N  + R+SR + +    E   KV  L  EN  L+ ++ QLS     LR 
Sbjct: 18  IRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRN 71

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae} Length = 152

 Score = 48.4 bits (114), Expect = 4e-07
 Identities = 15/108 (13%), Positives = 37/108 (34%), Gaps = 1/108 (0%)

Query: 238 SPGMPTKLELRNAPGMNVKASPTSVPQPCAVLPPETWIQNERELKRERRKQSNRESARRS 297
           +  M   L  R     + +A    + Q  +       + ++  L            ++  
Sbjct: 23  TDSMDDLLIRRLTDRNDKEAHLNELFQDNSGAIGGNIVSHDDALLNTLAILQKELKSKEQ 82

Query: 298 RLRK-QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL 344
            +R+ +      ++  + L     S   E N L +    L++E++ L+
Sbjct: 83  EIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLV 130

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 44.4 bits (104), Expect = 1e-05
 Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 15/72 (20%)

Query: 275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEIN----QLS 330
           +  E E  R+ R++      +R RL++   A +          E A  K ++     + S
Sbjct: 80  LTQEPESIRKWREE------QRKRLQELDAASK--VMEQEWR-EKA--KKDLEEWNQRQS 128

Query: 331 ENSEKLRQENAA 342
           E  EK +  N  
Sbjct: 129 EQVEKNKINNRI 140

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 42.5 bits (99), Expect = 2e-04
 Identities = 13/110 (11%), Positives = 25/110 (22%), Gaps = 4/110 (3%)

Query: 15  PSSPPPSDQGNIHMYTDWAAMQAYYGPRVAIPPYYNSPIASGHAPQPYMWGPAQPMMPPY 74
             +  P  Q    M     A       ++ +PP    P             PAQ  +   
Sbjct: 17  GQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLT----PAQEQLHQQ 72

Query: 75  GAPYAAIYSTGGVYAHPAVPLGSHAHNHGVPTSPAAVTPLNTEAPTKSSG 124
                   +   ++  P V   ++            +          + G
Sbjct: 73  IDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYG 122

>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 Length = 83

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 16/83 (19%), Positives = 32/83 (38%), Gaps = 20/83 (24%)

Query: 284 ERRKQSNR-ESARRSRLR----------------KQAEAEELSRKVD---SLIDENASLK 323
           ++R   N  E  RR  ++                K + A+ L +  +    +  +N + +
Sbjct: 1   DKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQ 60

Query: 324 SEINQLSENSEKLRQENAALLVC 346
            +I+ L   +  L Q+  AL  C
Sbjct: 61  QDIDDLKRQNALLEQQVRALGGC 83

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 39.7 bits (92), Expect = 5e-04
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 3/68 (4%)

Query: 276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEK 335
           Q   +L+R +R           RL +   A E +  ++S +DE  SL   + +L + +  
Sbjct: 116 QANDDLERAKRATIMSLEDFEQRLNQ---AIERNAFLESELDEKESLLVSVQRLKDEARD 172

Query: 336 LRQENAAL 343
           LRQE A  
Sbjct: 173 LRQELAVR 180

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A Length = 93

 Score = 37.6 bits (88), Expect = 7e-04
 Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 2/63 (3%)

Query: 276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEK 335
           QN + L  E  +   +  +R   L  + E  EL R+VD L ++ A ++ E + L+E+  +
Sbjct: 31  QN-KILLAELEQLKGQGKSRLGDL-YEEEMRELRRQVDQLTNDKARVEVERDNLAEDIMR 88

Query: 336 LRQ 338
           LR+
Sbjct: 89  LRE 91

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	387
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	99.51
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	99.46
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	99.43
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	99.38
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	99.33
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	99.21
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	99.16
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	99.02
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	98.97
3a5t_A	107	Transcription factor MAFG; protein-DNA complex, BZ	98.8
2wt7_B	90	Transcription factor MAFB; transcription, transcri	98.58
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	97.23
1skn_P	92	DNA-binding domain of SKN-1; complex (transcriptio	96.92
1deb_A	54	APC protein, adenomatous polyposis coli protein; c	96.66
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.27
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	96.16
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	96.05
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	95.95
2c9l_Y	63	EB1, zebra, BZLF1 trans-activator protein; viral p	95.83
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.77
3he5_A	49	Synzip1; heterodimeric coiled-coil, de novo protei	95.72
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	95.49
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	95.48
3m48_A	33	General control protein GCN4; leucine zipper, synt	95.46
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.43
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	95.19
1kd8_B	36	GABH BLL, GCN4 acid base heterodimer base-D12LA16L	95.09
3vmx_A	48	Voltage-gated hydrogen channel 1; coiled-coil, ION	95.03
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	94.95
3a2a_A	58	Voltage-gated hydrogen channel 1; voltage-gated pr	94.92
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	94.83
1kd8_A	36	GABH AIV, GCN4 acid base heterodimer acid-D12IA16V	94.81
3c3f_A	34	Alpha/beta peptide with the GCN4-PLI SIDE chain S	94.72
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	94.54
1ci6_A	63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	94.42
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	94.26
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	94.23
3c3g_A	33	Alpha/beta peptide with the GCN4-PLI SIDE chain S	94.22
1t2k_D	61	Cyclic-AMP-dependent transcription factor ATF-2; p	94.18
2bni_A	34	General control protein GCN4; four helix bundle, a	94.11
1uo4_A	34	General control protein GCN4; four helix bundle, c	93.96
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	93.92
2hy6_A	34	General control protein GCN4; protein design, para	93.78
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	93.77
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	93.68
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	93.68
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	93.65
1hjb_A	87	Ccaat/enhancer binding protein beta; transcription	93.63
2wq1_A	33	General control protein GCN4; TAA, nucleus, coiled	93.53
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	93.43
2wt7_B	90	Transcription factor MAFB; transcription, transcri	93.42
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	93.32
1jnm_A	62	Proto-oncogene C-JUN; BZIP, protein-DNA complex, t	92.83
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	92.81
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	92.72
1gu4_A	78	CAAT/enhancer binding protein beta; transcription/	92.53
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	92.3
2kz5_A	91	Transcription factor NF-E2 45 kDa subunit; structu	92.24
1gd2_E	70	Transcription factor PAP1; basic leucine zipper, p	92.22
1t6f_A	37	Geminin; coiled-coil, cell cycle; 1.47A {Synthetic	91.96
1fmh_A	33	General control protein GCN4; coiled coil, leucine	91.64
2dgc_A	63	Protein (GCN4); basic domain, leucine zipper, DNA	91.57
1gmj_A	84	ATPase inhibitor; coiled-coil structure, P depende	91.47
4emc_A	190	Monopolin complex subunit CSM1; RWD domain, kineto	91.05
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	90.79
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	90.35
2r2v_A	34	GCN4 leucine zipper; coiled coils, anti-parallel t	90.29
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	90.02
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	89.78
1uii_A	83	Geminin; human, DNA replication, cell cycle; 2.00A	89.6
2zxx_A	79	Geminin; coiled-coil, cell cycle, coiled coil, DNA	89.54
3u06_A	412	Protein claret segregational; motor domain, stalk	89.41
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	89.41
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	89.37
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	89.37
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	89.25
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	89.06
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	89.05
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	89.0
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	88.98
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	88.97
4h22_A	103	Leucine-rich repeat flightless-interacting protei;	88.85
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	88.82
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	88.8
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	88.76
3efg_A	78	Protein SLYX homolog; xanthomonas campestris PV. c	88.68
3htk_A	60	Structural maintenance of chromosomes protein 5; S	88.52
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	88.45
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	88.37
1nkp_B	83	MAX protein, MYC proto-oncogene protein; transcrip	88.31
1wlq_A	83	Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2z	88.25
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	88.25
3he5_B	52	Synzip2; heterodimeric coiled-coil, de novo protei	88.22
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	88.12
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	88.11
2oa5_A	110	Hypothetical protein BQLF2; MHR28B, NESG, structur	87.91
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	87.86
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	87.81
3he5_B	52	Synzip2; heterodimeric coiled-coil, de novo protei	87.79
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	87.78
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	87.77
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	87.69
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	87.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.68
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	87.58
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	87.45
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	86.96
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	86.8
1nlw_A	80	MAD protein, MAX dimerizer; transcription factor,	86.71
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	86.13
2wvr_A	209	Geminin; DNA replication license, DNA replication	86.05
1lwu_C	323	Fibrinogen gamma chain; heterotrimer, protein-pept	85.95
4dzn_A	33	Coiled-coil peptide CC-PIL; de novo protein; HET:	85.95
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	85.93
3ra3_A	28	P1C; coiled coil domain, fiber, KIH interactions,	85.88
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	85.85
1dip_A	78	Delta-sleep-inducing peptide immunoreactive peptid	85.83
2j5u_A	255	MREC protein; bacterial cell shape determining pro	85.76
2ve7_C	250	Kinetochore protein NUF2, kinetochore protein SPC;	85.52
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	85.49
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	85.39
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	85.38
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	85.38
1a93_B	34	MAX protein, coiled coil, LZ; leucine zipper, 2D s	85.32
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	85.18
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	84.86
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	84.8
2xdj_A	83	Uncharacterized protein YBGF; unknown function; 1.	84.79
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	84.75
1dh3_A	55	Transcription factor CREB; protein-DNA complex, tr	84.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	84.59
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	84.53
1nkp_A	88	C-MYC, MYC proto-oncogene protein; transcription,	84.47
4etp_A	403	Kinesin-like protein KAR3; kinesin motor protein,	84.42
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	84.35
3htk_A	60	Structural maintenance of chromosomes protein 5; S	84.2
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	84.2
2ve7_C	250	Kinetochore protein NUF2, kinetochore protein SPC;	84.04
1g6u_A	48	Domain swapped dimer; designed three helix bundle,	83.87
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	83.76
3bas_A	89	Myosin heavy chain, striated muscle/general contro	83.75
1a93_B	34	MAX protein, coiled coil, LZ; leucine zipper, 2D s	83.67
2ve7_A	315	Kinetochore protein HEC1, kinetochore protein SPC;	83.65
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	83.61
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	83.54
2xv5_A	74	Lamin-A/C; structural protein, intermediate filame	82.88
1fmh_B	33	General control protein GCN4; coiled coil, leucine	82.73
2wuj_A	57	Septum site-determining protein diviva; bacterial	82.69
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	82.47
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	82.3
3qne_A	485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	82.27
3lay_A	175	Zinc resistance-associated protein; salmonella typ	82.24
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	81.98
1wle_A	501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	81.92
3ra3_B	28	P2F; coiled coil domain, fiber, KIH interactions,	81.52
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	81.3
1am9_A	82	Srebp-1A, protein (sterol regulatory element bindi	81.14
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	81.03
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	81.02
2oxj_A	34	Hybrid alpha/beta peptide based on the GCN4-P1 Se	80.9
1p9i_A	31	Cortexillin I/GCN4 hybrid peptide; coiled-coil, un	80.75
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	80.64

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

Probab=99.51  E-value=1.9e-14  Score=108.28  Aligned_cols=52  Identities=37%  Similarity=0.470  Sum_probs=49.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      ||++|+++||+||++||.||++|+++|+.+|..|+.||..|+.++..|++++
T Consensus         1 kr~rR~~~NResA~rSR~RKk~~~~~LE~~v~~L~~eN~~L~~~~~~L~~~~   52 (55)
T 1dh3_A            1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLY   52 (55)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             ChHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5889999999999999999999999999999999999999999999988754

>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=99.46  E-value=3e-13  Score=103.98  Aligned_cols=58  Identities=33%  Similarity=0.479  Sum_probs=52.6

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          281 LKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       281 ~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      +||++|+++||+||++||.||++++++|+.+|+.|+.+|..|+.+|..|++++..|..
T Consensus         1 Ekr~rrrerNR~AA~rcR~rKk~~~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk~   58 (63)
T 2wt7_A            1 EKRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEF   58 (63)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3789999999999999999999999999999999999999999999888776665554

>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=99.43  E-value=4.8e-13  Score=101.99  Aligned_cols=57  Identities=32%  Similarity=0.471  Sum_probs=52.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      ||++|+++||+||++||.||++++++|+.+|+.|+.+|..|..+|..|++++..|+.
T Consensus         1 kR~~r~erNr~AA~k~R~rKk~~~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk~   57 (61)
T 1t2k_D            1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQ   57 (61)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            689999999999999999999999999999999999999999999988776665554

>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=99.38  E-value=6.5e-13  Score=101.65  Aligned_cols=57  Identities=39%  Similarity=0.500  Sum_probs=50.5

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      |++||+++||+||++||.||++++++|+.+|+.|+.+|..|..++..|++++..|+.
T Consensus         1 K~errr~rNr~AA~k~R~rKk~~~~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~Lk~   57 (62)
T 1jnm_A            1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQ   57 (62)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             ChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            568899999999999999999999999999999999999999999888776555443

>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=99.33  E-value=1.8e-12  Score=99.88  Aligned_cols=50  Identities=34%  Similarity=0.507  Sum_probs=44.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      ++++.+||+||||||.||++++++|+.+|+.|+.+|..|..++..|++++
T Consensus        11 ~~KR~rNreAArrsR~RK~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~l   60 (63)
T 2dgc_A           11 ALKRARNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLV   60 (63)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445599999999999999999999999999999999999998887754

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

Probab=99.21  E-value=2.3e-11  Score=93.56  Aligned_cols=57  Identities=28%  Similarity=0.467  Sum_probs=45.5

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          281 LKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       281 ~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      .|+.+++++||.||+|||.||++++++|+.+++.|+.+|..|+.+|..|+.++..|+
T Consensus         1 ~k~~rKr~rNr~AA~R~R~KKk~~~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~Lk   57 (63)
T 1ci6_A            1 MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYLK   57 (63)
T ss_dssp             -------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            367889999999999999999999999999999999999999999988776655443

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

Probab=99.16  E-value=9.8e-11  Score=92.11  Aligned_cols=61  Identities=30%  Similarity=0.353  Sum_probs=55.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          284 ERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       284 ~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      .||+.+||+|+|.+|.||++||.+|+.+|..|+.++..|..++..|+.++..|..||..|+
T Consensus        10 ~kR~~qNR~AQRafReRK~~~i~~LE~~v~~le~~~~~l~~en~~Lr~~i~~L~~El~~lr   70 (70)
T 1gd2_E           10 SKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK   70 (70)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            5789999999999999999999999999999999999999999998888888888887764

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

Probab=99.02  E-value=8.6e-10  Score=90.09  Aligned_cols=65  Identities=28%  Similarity=0.292  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      +.+...|+.+|.+||+|||.++++...+++.+++.|+.||..|+.+|..|+.++..|+.-..+|.
T Consensus        13 d~~Y~~rR~rNN~AarrSR~krk~r~~e~~~r~~~Le~EN~~Lr~~v~~L~~E~~~Lr~ll~~~p   77 (87)
T 1hjb_A           13 SDEYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLFKQLP   77 (87)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCc
Confidence            33455567789999999999999999999999999999999999999988776655554444333

>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=98.97  E-value=1.9e-09  Score=86.34  Aligned_cols=56  Identities=30%  Similarity=0.385  Sum_probs=48.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          282 KRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       282 KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      +...|+.+|.+||+|||.++++...+++.+|..|+.||..|+.+|..|+.++..|+
T Consensus        15 ~Y~~rR~rNN~AakrSR~krk~r~~e~~~r~~~L~~eN~~L~~~v~~L~~E~~~Lr   70 (78)
T 1gu4_A           15 EYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLR   70 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445778999999999999999999999999999999999999998877665554

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

Probab=98.80  E-value=1.2e-10  Score=98.39  Aligned_cols=60  Identities=27%  Similarity=0.337  Sum_probs=46.9

Q ss_pred             cccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          275 IQNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSE  334 (387)
Q Consensus       275 ~~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~  334 (387)
                      .++..++|..||+++||++|++||.||.+++++||.++..|..+...|+.++..|+.+.+
T Consensus        30 ~~e~~~lK~~RR~lKNR~yAq~CR~rk~~~~~~LE~e~~~L~~e~e~L~~En~~l~~E~~   89 (107)
T 3a5t_A           30 KEEIIQLKQRRRTLKNRGYAASCRVKRVTQKEELEKQKAELQQEVEKLASENASMKLELD   89 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSTTTTTTSTTSHHHHTTT
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457889999999999999999999999999999997776666555555555544444433

>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=98.58  E-value=3.1e-07  Score=75.44  Aligned_cols=68  Identities=26%  Similarity=0.366  Sum_probs=51.7

Q ss_pred             ccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          276 QNERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       276 ~dE~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++-..+|..||.++||.+|+.||.||.+++.+||.++..|..+...|+.++..+       ..|.+.++.+++.+
T Consensus        21 eev~~lKq~RRtlKNRgyAq~CR~Kr~~q~~~LE~e~~~L~~e~~~L~~e~~~~-------~~e~d~~k~k~~~L   88 (90)
T 2wt7_B           21 DEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQLIQQVEQLKQEVSRL-------ARERDAYKVKSEKL   88 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHh
Confidence            345688999999999999999999999999988887777766655555555554       45566666666554

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

Probab=97.23  E-value=0.00059  Score=48.40  Aligned_cols=36  Identities=28%  Similarity=0.458  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      |+|+.+||.+++.|+..|.+|..++..|+.|+..||
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            589999999999999999999999988776554444

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

Probab=96.92  E-value=0.00041  Score=56.80  Aligned_cols=33  Identities=24%  Similarity=0.484  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEAEELSR  310 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~  310 (387)
                      -...|..||+.+||.+|++||.||.+.+++|+.
T Consensus        58 l~~ir~~RRR~KNr~AA~~CRkrK~~~~d~l~~   90 (92)
T 1skn_P           58 RQLIRKIRRRGKNKVAARTCRQRRTDRHDKMSH   90 (92)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTC--
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhc
Confidence            356778899999999999999999999888763

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

Probab=96.66  E-value=0.0096  Score=43.91  Aligned_cols=48  Identities=23%  Similarity=0.284  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .++|-++|+.|+.||..|+.|++.-..++.+|+.|-..+++-|+.+.+
T Consensus         5 YdQL~~QVe~Lk~ENshLrrEL~dNS~~lskLE~ets~mKevlk~lq~   52 (54)
T 1deb_A            5 YDQLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVLKQLQG   52 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHcc
Confidence            578999999999999999999999999999999999999999887754

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

Probab=96.27  E-value=0.021  Score=45.90  Aligned_cols=49  Identities=14%  Similarity=0.227  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLS-------ENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~-------ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .+.-|+.+++.|+.+|..|..+++.++       +++.+|+.|...+.++|..+.+
T Consensus        21 tI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLg   76 (81)
T 2jee_A           21 TITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLG   76 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455566666666666666666644       4444444444444455555444

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

Probab=96.16  E-value=0.026  Score=45.39  Aligned_cols=40  Identities=35%  Similarity=0.394  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAA  342 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~  342 (387)
                      +-++.|+.+|+.+-....-|+.++..|++++..|..|+..
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e   45 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN   45 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3467788888877776666666666666666665544444

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

Probab=96.05  E-value=0.1  Score=46.43  Aligned_cols=81  Identities=16%  Similarity=0.065  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          278 ERELKRERRKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       278 E~e~KR~RRk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      ..+.+..++..+.+...++.-....+++.+-..-++.|+.|...|.-++..++++...|+.||..|-+++-......++.
T Consensus        64 ~~~~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RWM~rk~qEAe~  143 (152)
T 3a7p_A           64 DALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARWLKKTEKETEA  143 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555554445556666666778899999999999999999999999999999999988877776665


Q ss_pred             c
Q 016555          358 L  358 (387)
Q Consensus       358 ~  358 (387)
                      .
T Consensus       144 M  144 (152)
T 3a7p_A          144 M  144 (152)
T ss_dssp             C
T ss_pred             H
Confidence            4

>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=95.95  E-value=0.028  Score=46.72  Aligned_cols=50  Identities=28%  Similarity=0.315  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKS-------EINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~-------el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++-+|+.+++.|+.||..|+.       +|..|..++++|+.||..|+.+-+....
T Consensus        37 qEYl~LE~~~s~le~e~~rlr~~~~~~~~~v~eLe~everL~~ENq~L~~e~~~~~~   93 (104)
T 3s9g_A           37 KEYLELEKSLSRMEDENNRLRLESKRLDARVRELELELDRLRAENLQLLTENELHRQ   93 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            4556788999999888888887       7888888888899999888877554433

>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=95.83  E-value=0.042  Score=41.21  Aligned_cols=27  Identities=22%  Similarity=0.303  Sum_probs=19.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKV  312 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV  312 (387)
                      .+-+||.++|+||.|=+..++....-.
T Consensus         5 kryknr~asrk~rakfkn~lqh~r~va   31 (63)
T 2c9l_Y            5 KRYKNRVAARKSRAKFKQLLQHYREVA   31 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345699999999988777665544333

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

Probab=95.77  E-value=0.049  Score=47.49  Aligned_cols=54  Identities=19%  Similarity=0.055  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      +.+++++.|+.+++.+..|+..|+.++..++.+++.++.|+..|++++..+...
T Consensus        72 k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~  125 (138)
T 3hnw_A           72 KAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKN  125 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444556677777777777777777766666666666666666666666555443

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

Probab=95.72  E-value=0.037  Score=39.35  Aligned_cols=45  Identities=27%  Similarity=0.160  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .+.+|+.+|..|+.||..|+.+.---+.-+.-|+.|...||.+|+
T Consensus         4 lvaqlenevaslenenetlkkknlhkkdliaylekeianlrkkie   48 (49)
T 3he5_A            4 LVAQLENEVASLENENETLKKKNLHKKDLIAYLEKEIANLRKKIE   48 (49)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhcccHHHHHhcccHHHHHHHHHHHHHHHHHHhc
Confidence            467899999999999999999887777777888889999988875

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

Probab=95.49  E-value=0.054  Score=41.19  Aligned_cols=40  Identities=33%  Similarity=0.410  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      ..-|.+|++|..-|..|.+|+..|+.++..|..||..||.
T Consensus        23 aaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~~Lr~   62 (63)
T 2w6a_A           23 ATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENLQLRQ   62 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhhhhcc
Confidence            4447889999999999999999999999999999999983

>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=95.48  E-value=0.016  Score=39.27  Aligned_cols=29  Identities=28%  Similarity=0.487  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +++.+||.+|+.|-.+|..|..++.+|+.
T Consensus         1 eRMnQLE~kVEeLl~~n~~Le~eV~rLk~   29 (34)
T 2oxj_A            1 XRMXQLEXKVXELLXKNXHLEXEVXRLKX   29 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            35788999999999999999999988865

>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=95.46  E-value=0.014  Score=39.38  Aligned_cols=28  Identities=29%  Similarity=0.518  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      ++.+||.+|+.|..+|..|..++.+|+.
T Consensus         1 RM~QLE~kVEeLl~~n~~Le~EV~RLk~   28 (33)
T 3m48_A            1 RMAQLEAKVEELLSKNWNLENEVARLKK   28 (33)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3578999999999999999999988865

>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=95.43  E-value=0.15  Score=52.04  Aligned_cols=48  Identities=19%  Similarity=0.241  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++++++.+.|+.|..+|+.+++..+++..+|+.|+..++++|+++..
T Consensus       532 ~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          532 ADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444555555555555555555555666666666666665544

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

Probab=95.19  E-value=0.033  Score=44.58  Aligned_cols=54  Identities=26%  Similarity=0.259  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      +++++..+++.|+.+|+.|..+|..|+..++.-+.+-..++.+|+.+...+...
T Consensus         7 e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l~e~Ld~K   60 (79)
T 3cvf_A            7 EREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRAAQLLDVS   60 (79)
T ss_dssp             ---CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            467788888899999999999999988888888888888888887776554443

>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=95.09  E-value=0.031  Score=38.36  Aligned_cols=31  Identities=23%  Similarity=0.367  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      +++.+|+.+|+.|..+|..|..++.+|++.+
T Consensus         1 eRMnQLE~KVEeLl~~~~~Le~eV~RLk~ll   31 (36)
T 1kd8_B            1 XKVKQLKAKVEELKSKLWHLKNKVARLKKKN   31 (36)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            3578899999999999999999998887644

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

Probab=95.03  E-value=0.086  Score=38.47  Aligned_cols=42  Identities=21%  Similarity=0.137  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +.++..|+.-|..|..++..|+..|..++.|+..|+.-|++.
T Consensus         3 eq~l~kLKe~n~~L~~kv~~Le~~c~~~eQEieRL~~LLkqH   44 (48)
T 3vmx_A            3 ERQILRLKQINIQLATKIQHLEFSCSEKEQEIERLNKLLKQN   44 (48)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHc
Confidence            578889999999999999999999999999999999887753

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

Probab=94.95  E-value=0.18  Score=43.96  Aligned_cols=53  Identities=9%  Similarity=0.071  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      .+.+++++.++..|+.++..++.+++.++++++.|+.++..|..++..+..++
T Consensus        81 ~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~  133 (138)
T 3hnw_A           81 SLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETEL  133 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35556666666666666666666666666666666666666666666665443

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

Probab=94.92  E-value=0.06  Score=40.35  Aligned_cols=42  Identities=21%  Similarity=0.135  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++++..|++.|-.|..+++.|+..|.+.+.|+..|..-|++.
T Consensus        10 e~q~~kLKq~n~~L~~kv~~Le~~c~e~eQEieRL~~LLkqH   51 (58)
T 3a2a_A           10 ERQLLRLKQMNVQLAAKIQHLEFSCSEKEQEIERLNKLLRQH   51 (58)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            567888999999999999999999999999999998887763

>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=94.83  E-value=0.076  Score=44.27  Aligned_cols=20  Identities=20%  Similarity=0.132  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhh
Q 016555          331 ENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       331 ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++.++|+.|+..||++|..+
T Consensus        75 ~~~e~Lq~E~erLr~~v~~l   94 (100)
T 1go4_E           75 EDHSQLQAECERLRGLLRAM   94 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666554

>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=94.81  E-value=0.028  Score=38.54  Aligned_cols=31  Identities=23%  Similarity=0.400  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSE  334 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~  334 (387)
                      ++.+|+.+|+.|..+|..|..++.+|++.+.
T Consensus         2 RMnQLE~kVEeLl~~~~~Le~EV~RL~~ll~   32 (36)
T 1kd8_A            2 EVKQLEAEVEEIESEVWHLENEVARLEKENA   32 (36)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence            5678999999999999999999988876543

>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=94.72  E-value=0.037  Score=37.49  Aligned_cols=29  Identities=7%  Similarity=0.271  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +++.+||.+|+.|-.+|..|..++.+|+.
T Consensus         1 eRMnQLEdKVEeLl~~~~~Le~EV~RLk~   29 (34)
T 3c3f_A            1 XRMXQIEXKLEXILSXLYHXENEXARIXK   29 (34)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            35788999999999999999999988875

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

Probab=94.54  E-value=0.14  Score=40.39  Aligned_cols=52  Identities=13%  Similarity=0.155  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      .++..+++.++.+|+.|..+|..|+..++.-+.+-..++.+|+.+...+...
T Consensus         3 ~~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~~Elk~~~e~Ld~K   54 (72)
T 3cve_A            3 HNSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSNLKTLLEILDGK   54 (72)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            4677888888888888888888888888888877777777777765544433

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

Probab=94.42  E-value=0.11  Score=39.51  Aligned_cols=41  Identities=20%  Similarity=0.172  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..+.+.|+.+...|..+...|+.++..|+.|+..|+.-|.+
T Consensus        22 k~~~~~le~~~~~L~~~N~~L~~~i~~L~~E~~~Lk~ll~e   62 (63)
T 1ci6_A           22 RAEQEALTGECKELEKKNEALKERADSLAKEIQYLKDLIEE   62 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34577777777777777777777777777777777766654

>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=94.26  E-value=0.24  Score=50.59  Aligned_cols=45  Identities=22%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVC  346 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~  346 (387)
                      ++.+..++.+.+.++.+++.++++++.++++++.|+.|...|+.+
T Consensus       508 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~  552 (597)
T 3oja_B          508 NKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQ  552 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHH
Confidence            344445555555555555555555555544444444444444443

>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=94.23  E-value=0.21  Score=42.67  Aligned_cols=40  Identities=33%  Similarity=0.449  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .+|+.|+.|+..|.++++.+..+.++|+.+|..|..+|..
T Consensus        71 ~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~  110 (121)
T 3mq7_A           71 KKVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIAD  110 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhhh
Confidence            3466777777777777777777777777777777766643

>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=94.22  E-value=0.057  Score=36.41  Aligned_cols=27  Identities=4%  Similarity=0.244  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +.+||.+|+.|-.+|..|..++.+|+.
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            678999999999999999999888865

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

Probab=94.18  E-value=0.27  Score=36.76  Aligned_cols=36  Identities=33%  Similarity=0.239  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      ++.|+.+...|..+...|..++..|+.|+..|+..|
T Consensus        24 ~~~Le~~~~~L~~~n~~L~~~i~~L~~e~~~Lk~~l   59 (61)
T 1t2k_D           24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQLL   59 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555555555555555555555555555555555544

>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=94.11  E-value=0.056  Score=36.70  Aligned_cols=29  Identities=7%  Similarity=0.368  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +++.+||.+|+.|-.+|..|..++.+|++
T Consensus         1 eRMnQLEdKvEeLl~~~~~L~~EV~RLk~   29 (34)
T 2bni_A            1 XRMKQIEDKLEEILSKGHHICNELARIKK   29 (34)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            35778999999999999999999988865

>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=93.96  E-value=0.062  Score=36.47  Aligned_cols=28  Identities=7%  Similarity=0.318  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      ++.+||.+|+.|-.+|..|..++.+|++
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            4678999999999999999999988865

>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=93.92  E-value=0.45  Score=35.88  Aligned_cols=36  Identities=25%  Similarity=0.275  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +..|+.+...|..+...|+.++..|+.|...|+..|
T Consensus        25 ~~~Le~~v~~L~~~n~~L~~ei~~L~~e~~~Lk~~l   60 (63)
T 2wt7_A           25 TDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFIL   60 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444443

>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=93.78  E-value=0.07  Score=36.18  Aligned_cols=28  Identities=21%  Similarity=0.419  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      ++.+|+.+|+.|-.+|..|..++.+|++
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            5678999999999999999999988875

>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=93.77  E-value=0.23  Score=36.57  Aligned_cols=40  Identities=25%  Similarity=0.395  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      .+.+|+.++..|.+.|..|..-+...++++..|..|.+.|
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            3345666666666666666666666665555555554443

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

Probab=93.68  E-value=0.054  Score=51.74  Aligned_cols=42  Identities=24%  Similarity=0.336  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      ..+.+|+.++..|..+|..|..+++.|++++.+|+.|++.|+
T Consensus        54 ~~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~   95 (251)
T 3m9b_A           54 RDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLG   95 (251)
T ss_dssp             HHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345566666666666666666666666555555555544443

>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=93.68  E-value=0.26  Score=36.36  Aligned_cols=42  Identities=24%  Similarity=0.173  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +.++..|+.++..|..++..|.+-+...+.|...|+++|..+
T Consensus         8 ~~r~~~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lkeele~L   49 (51)
T 3m91_A            8 ARDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRL   49 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            567777888888888888888888888888888888888765

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

Probab=93.65  E-value=0.22  Score=35.33  Aligned_cols=37  Identities=22%  Similarity=0.228  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      +..|+.+-..|..++.+|.+.+..|..||..||+-|+
T Consensus         5 l~eLE~r~k~le~~naeLEervstLq~EN~mLRqvl~   41 (42)
T 2oqq_A            5 LSELENRVKDLENKNSELEERLSTLQNENQMLRHILK   41 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhc
Confidence            4556666666666666666666666666666665543

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

Probab=93.63  E-value=0.56  Score=38.00  Aligned_cols=28  Identities=14%  Similarity=0.190  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          321 SLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      ++..++..|++++..|+.++..|+.+|.
T Consensus        40 e~~~r~~~Le~EN~~Lr~~v~~L~~E~~   67 (87)
T 1hjb_A           40 ETQHKVLELTAENERLQKKVEQLSRELS   67 (87)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444433333

>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=93.53  E-value=0.091  Score=35.42  Aligned_cols=27  Identities=15%  Similarity=0.183  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +.+||.+|+.|..+|..|..++.+|++
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            678999999999999999988888765

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

Probab=93.43  E-value=0.19  Score=39.82  Aligned_cols=50  Identities=14%  Similarity=-0.007  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++++||.++..++.-..+|...|.+.+.+++.|+.+...|.++|+.+..
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            57888999999999999999999998888999999999888888887654

>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=93.42  E-value=0.47  Score=38.79  Aligned_cols=57  Identities=21%  Similarity=0.242  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          295 RRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       295 RRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      +|-|++-+-|...=  +...+ .+...|..++..|..+.+.|+.|+..+..++..+....
T Consensus        29 ~RRtlKNRgyAq~C--R~Kr~-~q~~~LE~e~~~L~~e~~~L~~e~~~~~~e~d~~k~k~   85 (90)
T 2wt7_B           29 KRRTLKNRGYAQSC--RYKRV-QQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKS   85 (90)
T ss_dssp             HHHHHHHHHHHHHH--HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhHHHHHH--HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444332  22222 34466667777777777778888888888887776544

>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=93.32  E-value=0.14  Score=37.82  Aligned_cols=28  Identities=25%  Similarity=0.364  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      ..|+.|+.||.+|+.++..|+++++.|.
T Consensus        19 ~d~eaLk~E~~eLk~k~~~L~~~~~el~   46 (53)
T 2yy0_A           19 PEIELLRLELAEMKEKYEAIVEENKKLK   46 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666655555544443333

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

Probab=92.83  E-value=0.3  Score=36.66  Aligned_cols=30  Identities=17%  Similarity=0.195  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          320 ASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       320 ~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ..|..++..|..++..|..++..|+.++..
T Consensus        25 ~~Le~~v~~L~~~n~~L~~~v~~L~~e~~~   54 (62)
T 1jnm_A           25 ARLEEKVKTLKAQNSELASTANMLREQVAQ   54 (62)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444433

>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=92.81  E-value=0.16  Score=37.55  Aligned_cols=32  Identities=25%  Similarity=0.258  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          317 DENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       317 ~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .+...|+.++..|+.+++.|..++..|+.+|.
T Consensus        19 ~d~eaLk~E~~eLk~k~~~L~~~~~el~~~l~   50 (53)
T 2yy0_A           19 PEIELLRLELAEMKEKYEAIVEENKKLKAKLA   50 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            56677888888888888888888887777775

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

Probab=92.72  E-value=0.75  Score=51.75  Aligned_cols=19  Identities=16%  Similarity=0.184  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 016555          333 SEKLRQENAALLVCHINVI  351 (387)
Q Consensus       333 ~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +..|+.||..|++++.++.
T Consensus      1025 v~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A         1025 VSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3345555555555555544

>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=92.53  E-value=0.94  Score=35.96  Aligned_cols=27  Identities=22%  Similarity=0.314  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      .+++|+.+-..|+.+...|..++..|+
T Consensus        44 r~~~L~~eN~~L~~~v~~L~~E~~~Lr   70 (78)
T 1gu4_A           44 KVLELTAENERLQKKVEQLSRELSTLR   70 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444443

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

Probab=92.30  E-value=0.55  Score=39.28  Aligned_cols=49  Identities=12%  Similarity=0.110  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      ++-|..+++.++....+|+.++....++++.++..+..|+.++..+...
T Consensus        32 VdlLKD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk~~   80 (103)
T 4h22_A           32 VDTLKDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVKEA   80 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444433

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

Probab=92.24  E-value=0.011  Score=48.25  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Q 016555          279 RELKRERRKQSNRESARRSRLRKQA  303 (387)
Q Consensus       279 ~e~KR~RRk~rNRESARRSR~RKq~  303 (387)
                      ...+..||+-+||+||++||.||.+
T Consensus        63 ~lIrdiRRRgKNKvAAqnCRKRKld   87 (91)
T 2kz5_A           63 ALVRDIRRRGKNKVAAQNYRKRKLE   87 (91)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCCCCCC
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4677889999999999999999864

>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=92.22  E-value=0.58  Score=36.49  Aligned_cols=7  Identities=14%  Similarity=0.306  Sum_probs=2.6

Q ss_pred             HHHHHHH
Q 016555          312 VDSLIDE  318 (387)
Q Consensus       312 V~~L~~E  318 (387)
                      +..|+.+
T Consensus        31 i~~LE~~   37 (70)
T 1gd2_E           31 LKALETQ   37 (70)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            3333333

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

Probab=91.96  E-value=0.24  Score=34.08  Aligned_cols=30  Identities=33%  Similarity=0.489  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          316 IDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       316 ~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      -.||..|..+|..-.+++..|+.||..|++
T Consensus         6 L~ENekLhk~ie~KdeeIa~Lk~eN~eL~E   35 (37)
T 1t6f_A            6 LKENEKLHKEIEQKDNEIARLKKENKELAE   35 (37)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHh
Confidence            468999999999999999999999998874

>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=91.64  E-value=0.22  Score=32.85  Aligned_cols=30  Identities=30%  Similarity=0.424  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      ++..|+.+|.+.++||-+|.+++..|..+|
T Consensus         2 evaqlekevaqaeaenyqleqevaqlehec   31 (33)
T 1fmh_A            2 EVAQLEKEVAQAEAENYQLEQEVAQLEHEC   31 (33)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHhHHHHHHHHHHHhc
Confidence            356778888888888888888887776654

>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=91.57  E-value=0.75  Score=34.93  Aligned_cols=32  Identities=19%  Similarity=0.221  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          316 IDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       316 ~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +.....|..++..|+.++..|+.|+..|+++|
T Consensus        29 ~~~~~~Le~~v~~L~~eN~~L~~ev~~Lr~~l   60 (63)
T 2dgc_A           29 LQRMKQLEDKVEELLSKNYHLENEVARLKKLV   60 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555566666555555555555555554

>1gmj_A ATPase inhibitor; coiled-coil structure, P dependent oligomerization, ATP hydrolysis; 2.2A {Bos taurus} SCOP: h.4.8.1 PDB: 1ohh_H* 1hf9_A

Probab=91.47  E-value=1.5  Score=35.44  Aligned_cols=54  Identities=20%  Similarity=0.181  Sum_probs=23.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          290 NRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       290 NRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      -||+|+.-+-=++.+.+.|+.-.+.|..|...-+.+|..       |+.++..++..|..+
T Consensus        24 KrEaA~Ee~YfrqkekEqL~~LKkkl~~el~~h~~ei~~-------le~~i~rhk~~i~~l   77 (84)
T 1gmj_A           24 KREQAEEERYFRARAKEQLAALKKHKENEISHHAKEIER-------LQKEIERHKQSIKKL   77 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             cHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHh
Confidence            456666654334444444444333333333333333333       344444444444444

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

Probab=91.05  E-value=0.62  Score=42.75  Aligned_cols=30  Identities=23%  Similarity=0.259  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKL  336 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L  336 (387)
                      .|..++..|..++.....|++.|+++++.|
T Consensus        24 ~L~~En~~L~~ql~~k~~ei~~L~~ql~sl   53 (190)
T 4emc_A           24 NLVNENFVLSEKLDTKATEIKQLQKQIDSL   53 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=90.79  E-value=0.66  Score=46.61  Aligned_cols=58  Identities=14%  Similarity=0.010  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      -.++++++|+++++.|+.++..|..++.+|++++.+.+.+.+.|..+|+++.+...+.
T Consensus         7 ~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~rr~l~n~~~elkgnIrV~   64 (403)
T 4etp_A            7 ALKEKIAALKEKIAALKEKIKDTELGMKELNEILIKEETVRRTLHNELQELRGNIRVY   64 (403)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence            3457778888888888888888888888888888888888888888888886644443

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

Probab=90.35  E-value=6.5  Score=33.14  Aligned_cols=48  Identities=13%  Similarity=0.162  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +..|+.++..|+.++..|+..|..|.+.++.|+...+..-.-|..+..
T Consensus        37 ~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~   84 (111)
T 2v66_B           37 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQ   84 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHH
Confidence            556777777777777777777777777777777666666666655544

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

Probab=90.29  E-value=0.36  Score=32.76  Aligned_cols=28  Identities=7%  Similarity=0.239  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      ++.+|+.+|+.|-.++..|..++.+|++
T Consensus         2 RMnQledKvEel~~~~~~l~nEv~Rl~~   29 (34)
T 2r2v_A            2 KLKQVADKLEEVASKLYHNANELARVAK   29 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            4678888999998888888888888765

>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus, protein transport, ER-golgi transport, ARF, GTPase, effector, myristate; HET: GTP; 1.93A {Homo sapiens}

Probab=90.02  E-value=0.48  Score=37.65  Aligned_cols=38  Identities=32%  Similarity=0.379  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      |-.||+.|..|+..|+.++..+++-..+++..+..|.+
T Consensus        35 LI~rvdELt~E~e~l~~El~s~~~~~~r~~~ri~elEe   72 (77)
T 2w83_C           35 LIAKVDELTCEKDVLQGELEAVKQAKLKLEEKNRELEE   72 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444443333333333333333

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=89.78  E-value=4.6  Score=32.12  Aligned_cols=53  Identities=19%  Similarity=0.225  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +.+++++.|.+--+.|..=-+.|..-|.+|.++...|......|+.+.+++..
T Consensus        22 q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL~~   74 (78)
T 3iv1_A           22 RAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEELSS   74 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666666777777788888888888888888888777654

>1uii_A Geminin; human, DNA replication, cell cycle; 2.00A {Homo sapiens} SCOP: h.1.28.1

Probab=89.60  E-value=1.8  Score=34.91  Aligned_cols=36  Identities=28%  Similarity=0.377  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          314 SLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       314 ~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .--.||..|..+|..|++++..|+.+|..|++-...
T Consensus        43 eaL~EN~~Lh~~ie~l~eEi~~lk~en~eL~elae~   78 (83)
T 1uii_A           43 EALKENEKLHKEIEQKDNEIARLKKENKELAEVAEH   78 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334588889999999999999999999888876554

>2zxx_A Geminin; coiled-coil, cell cycle, coiled coil, DNA replication inhibitor, phosphoprotein, DNA-binding, nucleus, proto-oncogene; HET: DNA; 2.80A {Mus musculus}

Probab=89.54  E-value=1.3  Score=35.34  Aligned_cols=36  Identities=33%  Similarity=0.416  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          315 LIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       315 L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      --.||..|..+|..+++++..|+.||..|++-+...
T Consensus        32 aL~EN~~Lh~~ie~~~eEi~~LkeEN~~L~el~~~~   67 (79)
T 2zxx_A           32 ALKENEKLHKEIEQKDSEIARLRKENKDLAEVAEHV   67 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345788888888888888888999988887766554

>3u06_A Protein claret segregational; motor domain, stalk rotation, power stroke, kinesin-14, MICR binding, NCD, transport, molecular motor; HET: ADP GOL; 2.35A {Drosophila melanogaster} PDB: 2ncd_A* 1n6m_A* 1cz7_A* 3l1c_A*

Probab=89.41  E-value=0.89  Score=45.89  Aligned_cols=55  Identities=16%  Similarity=0.123  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVS  357 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~  357 (387)
                      +++++|+++++.|+.++..+..++..+++++.+.+.+.+.|..+|.++.+...+.
T Consensus        10 ~el~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~rr~l~n~~~~l~gnIrV~   64 (412)
T 3u06_A           10 TEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERKELHNTVMDLRDNIRVF   64 (412)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEE
Confidence            5677777788888888888888888888888777788888888888876644333

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

Probab=89.41  E-value=0.59  Score=36.76  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEI  326 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el  326 (387)
                      +.+++|+.++..++.++..|+.++
T Consensus        40 ~~I~eLEk~L~ekd~eI~~LqseL   63 (72)
T 3nmd_A           40 ALIDELELELDQKDELIQMLQNEL   63 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444433333333

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=89.37  E-value=2  Score=35.10  Aligned_cols=26  Identities=15%  Similarity=0.348  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      ++.+|+.+-..|..+...|..+...|
T Consensus        26 eL~~lEke~~~l~~el~~le~E~~~L   51 (96)
T 3q8t_A           26 ELEDVEKNRKVVAENLEKVQAEAERL   51 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

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

Probab=89.37  E-value=2.4  Score=33.28  Aligned_cols=50  Identities=12%  Similarity=0.070  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .+++.++.++...+..+..+..+|..|+.++..|+.+...+.++|.....
T Consensus        20 ~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~   69 (81)
T 1ic2_A           20 DRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQE   69 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555555555554433

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

Probab=89.25  E-value=1.6  Score=34.32  Aligned_cols=35  Identities=23%  Similarity=0.159  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEK  335 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~  335 (387)
                      |.+++...+.+++.|+.+.+++..+|..|+.++++
T Consensus        31 K~eELr~kd~~I~eLEk~L~ekd~eI~~LqseLDK   65 (72)
T 3nmd_A           31 KIEELRQRDALIDELELELDQKDELIQMLQNELDK   65 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444445555554444444444444444433

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

Probab=89.06  E-value=0.36  Score=46.10  Aligned_cols=44  Identities=23%  Similarity=0.117  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +.+++.|+.++..|..++..|.+++..++.|+..|+++|+.+..
T Consensus        53 ~~~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~s   96 (251)
T 3m9b_A           53 ARDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQ   96 (251)
T ss_dssp             CHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            66889999999999999999999999999999999999999855

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=89.05  E-value=1.6  Score=35.06  Aligned_cols=60  Identities=13%  Similarity=0.177  Sum_probs=43.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          290 NRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       290 NRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      |=.||-.+-.|-|+   -+..++...+..|..+.+++.....++..|..|...|+.+|+++..
T Consensus        14 eLQSALeaEIqAKQ---~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq~   73 (81)
T 1wt6_A           14 ELQEALEEEVLTRQ---SLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQA   73 (81)
T ss_dssp             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            44444444333333   2344567778888888899999999999999999999999988643

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

Probab=89.00  E-value=1.7  Score=37.00  Aligned_cols=47  Identities=23%  Similarity=0.186  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          298 RLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       298 R~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      ...-+.++.+|+.+|..|+.|+..-+........+++.|+.|+..|+
T Consensus        35 ~~E~q~~v~ql~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~l~   81 (120)
T 3i00_A           35 KTESQRVVLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDELR   81 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777888888888888877777776666666666666666553

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

Probab=88.98  E-value=2.4  Score=35.08  Aligned_cols=20  Identities=10%  Similarity=-0.077  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 016555          330 SENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       330 ~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.+...++..|..|+++|.+
T Consensus        75 r~e~~~~e~kn~~L~~qL~d   94 (97)
T 2eqb_B           75 RKEKYAIEILNKRLTEQLRE   94 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            34455566666666666654

>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=88.97  E-value=1.3  Score=34.68  Aligned_cols=33  Identities=12%  Similarity=0.087  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          319 NASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       319 N~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ...|..++..|+.+.+.|+.+|..|+.+|..+.
T Consensus        49 I~~L~~~~~~l~~e~~~L~~~~~~L~~~l~~L~   81 (83)
T 1nkp_B           49 IQYMRRKNHTHQQDIDDLKRQNALLEQQVRALG   81 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345666667777777777778888888877653

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

Probab=88.85  E-value=2.1  Score=35.72  Aligned_cols=49  Identities=10%  Similarity=0.005  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      |..+++++..+.+|+.|+.+...++..++..+..|..+...|+++|.+-
T Consensus        36 KD~LEe~eE~~aql~Re~~eK~re~e~~Kr~~~~L~~~~~~lk~~L~qR   84 (103)
T 4h22_A           36 KDMLLELEEQLAESRRQYEEKNKEFEREKHAHSILQFQFAEVKEALKQR   84 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4778999999999999999999999999999999999999999998863

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

Probab=88.82  E-value=8  Score=31.58  Aligned_cols=35  Identities=11%  Similarity=0.156  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      .|+.++..++.++..+..+|..|+.++..|+.+..
T Consensus        27 ~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld   61 (101)
T 3u1c_A           27 QAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRD   61 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

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

Probab=88.80  E-value=1.5  Score=34.90  Aligned_cols=54  Identities=20%  Similarity=0.262  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhhhhhhh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQL------SENSEKLRQENAALLVCHINVIIFWT  355 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L------~ee~~~L~~EN~~Lr~~L~~l~~~~~  355 (387)
                      |.+++.|+.+++.|+.+...|..++..-      -.++..|..+...|..+|..+...+.
T Consensus        21 qrEle~le~~Ie~LE~~i~~le~~ladp~~y~~d~~~~~~l~~~l~~~e~eLe~~~erWe   80 (89)
T 2lw1_A           21 QRELEQLPQLLEDLEAKLEALQTQVADASFFSQPHEQTQKVLADMAAAEQELEQAFERWE   80 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4568899999999999999998888631      24566677777777777777666554

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

Probab=88.76  E-value=4.5  Score=37.72  Aligned_cols=9  Identities=22%  Similarity=0.597  Sum_probs=5.3

Q ss_pred             ccccccccc
Q 016555          372 ECFCCNLLI  380 (387)
Q Consensus       372 ~~f~~n~l~  380 (387)
                      -|..|...+
T Consensus       200 ~C~GC~~~l  208 (256)
T 3na7_A          200 ACGGCFIRL  208 (256)
T ss_dssp             BCTTTCCBC
T ss_pred             ccCCCCeee
Confidence            566666554

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

Probab=88.68  E-value=1.5  Score=34.73  Aligned_cols=53  Identities=15%  Similarity=0.028  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      ++|+.|+..|+....-+..-|+.|.+.+.+...++..|+.+|+.+........
T Consensus        10 ~~le~Ri~~LE~klAfqE~tIeeLn~~v~~Qq~~Id~L~~ql~~L~~rl~~~~   62 (78)
T 3efg_A           10 QELEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR   62 (78)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            46888888888888888888888888888888888888888888877655433

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=88.52  E-value=3.2  Score=30.37  Aligned_cols=48  Identities=25%  Similarity=0.222  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          301 KQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       301 Kq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      .+..++++..++..++.+...++.++..+.+.+...+.+...|+.++.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~qi~   57 (60)
T 3htk_A           10 LENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNE   57 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555555555555555555555555555543

>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=88.45  E-value=1.5  Score=45.85  Aligned_cols=38  Identities=16%  Similarity=0.154  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      +|++++..|+.+.+.-.+.|+.|+.-++.++.+..+|.
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLE  151 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLE  151 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444443333444444444444444444433

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

Probab=88.37  E-value=6  Score=35.63  Aligned_cols=43  Identities=26%  Similarity=0.341  Sum_probs=25.7

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQ  328 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~  328 (387)
                      .++.-=+.=|+.|.+-.+.+.+|+.++..|+.|...++..+..
T Consensus        73 ~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k  115 (168)
T 3o0z_A           73 QLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEK  115 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445556666666676677777666666665555554433

>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=88.31  E-value=0.55  Score=36.90  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEI  326 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el  326 (387)
                      ||..|+.+++.|+.+...|+.++
T Consensus        48 YI~~L~~~~~~l~~e~~~L~~~~   70 (83)
T 1nkp_B           48 YIQYMRRKNHTHQQDIDDLKRQN   70 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344433333333333333333

>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} PDB: 2zxx_A*

Probab=88.25  E-value=2.2  Score=34.42  Aligned_cols=34  Identities=32%  Similarity=0.395  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          315 LIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       315 L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      --.||..|..+|..+++++..|+.||..|++-..
T Consensus        36 aL~EN~~Lh~~ie~~~eEi~~Lk~en~~L~elA~   69 (83)
T 1wlq_A           36 ALKENEKLHKEIEQKDSEIARLRKENKDLAEVAE   69 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457778888888888888888888888776544

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=88.25  E-value=6.5  Score=30.08  Aligned_cols=56  Identities=20%  Similarity=0.119  Sum_probs=35.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      -..+||+-|-.-=.   ..+++|...+..-..+....+.+|.+|+..+..|+.|...||
T Consensus        21 ia~knr~EaE~~y~---~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~slk   76 (77)
T 3trt_A           21 VAAKNLQEAEEWYK---SKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDALK   76 (77)
T ss_dssp             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHH---HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34456655544222   235567777776666666677777777777777777776665

>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=88.22  E-value=1.3  Score=31.88  Aligned_cols=32  Identities=22%  Similarity=0.320  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          308 LSRKVDSLIDENASLKSEINQLSENSEKLRQE  339 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L~ee~~~L~~E  339 (387)
                      |...--+|+..-+.|.+-|..|+.++.+|+.|
T Consensus        15 lkkdnlqlerdeqnlekiianlrdeiarlene   46 (52)
T 3he5_B           15 LKKDNLQLERDEQNLEKIIANLRDEIARLENE   46 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444444333

>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=88.12  E-value=2.8  Score=34.89  Aligned_cols=27  Identities=33%  Similarity=0.319  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L  329 (387)
                      ..+.+|+.+|+.|+.||+.|+.+.+..
T Consensus        65 ~~v~eLe~everL~~ENq~L~~e~~~~   91 (104)
T 3s9g_A           65 ARVRELELELDRLRAENLQLLTENELH   91 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            445555555555555555555544433

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=88.11  E-value=3.1  Score=35.23  Aligned_cols=46  Identities=15%  Similarity=0.264  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      +++-..|.+++.|+.++.+|+.+++....-...|-.+|..|..++.
T Consensus        11 ~~~~~~e~e~~~l~~~~~el~~~l~~~~~~~~e~g~~~~~lq~~~~   56 (125)
T 1joc_A           11 ERCLKGEGEIEKLQTKVLELQRKLDNTTAAVQELGRENQSLQIKHT   56 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccc
Confidence            3444445566666666666766666655555556566666654443

>2oa5_A Hypothetical protein BQLF2; MHR28B, NESG, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: PE5; 2.10A {Murid herpesvirus 4} SCOP: d.362.1.1 PDB: 2h3r_A*

Probab=87.91  E-value=0.79  Score=38.72  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQ  328 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~  328 (387)
                      .-+|+|+.++..|+-||..|++++..
T Consensus         8 ~t~EeLaaeL~kLqmENK~LKkkl~~   33 (110)
T 2oa5_A            8 KTYEEMVKEVERLKLENKTLKQKVKS   33 (110)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHTC--
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34799999999999999999999974

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=87.86  E-value=2.9  Score=30.86  Aligned_cols=37  Identities=8%  Similarity=0.198  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQEN  340 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN  340 (387)
                      .+++|..+|..|..+...|..++..|+.+......|-
T Consensus         5 ki~~Lss~V~~L~~kVdqLssdV~al~~~v~~ak~eA   41 (52)
T 1jcd_A            5 KADQASSDAQTANAKADQASNDANAARSDAQAAKDDA   41 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555555555555555555555555554444443333

>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=87.81  E-value=1.2  Score=46.59  Aligned_cols=38  Identities=16%  Similarity=-0.023  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Q 016555          321 SLKSEINQLSENSEKLRQENAALLVCHINVIIFWTVSL  358 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~~~~  358 (387)
                      +|+.+|..|+++++.-...++.|+..|++++.+-....
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLE  151 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLE  151 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666666666665555555666666666554433333

>3he5_B Synzip2; heterodimeric coiled-coil, de novo protein; 1.75A {Artificial gene}

Probab=87.79  E-value=2.2  Score=30.62  Aligned_cols=41  Identities=27%  Similarity=0.259  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      -|..++..|+..|-+|...-+.|.+-+..|+.|...|..++
T Consensus         7 ylrkkiarlkkdnlqlerdeqnlekiianlrdeiarlenev   47 (52)
T 3he5_B            7 YLRKKIARLKKDNLQLERDEQNLEKIIANLRDEIARLENEV   47 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHH
Confidence            35556777777777777777777766666666666666554

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

Probab=87.78  E-value=3  Score=35.25  Aligned_cols=34  Identities=26%  Similarity=0.246  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      +..|+.|...|+.....|+..+..|+..|+.|-.
T Consensus        37 ~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER   70 (111)
T 2v66_B           37 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLER   70 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHH
Confidence            3444444444444444444444444444444443

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

Probab=87.77  E-value=8.4  Score=30.07  Aligned_cols=61  Identities=13%  Similarity=0.094  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          291 RESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       291 RESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+.|..--..-...+.+.+.+...++.+...|..+|..|..+++.+.........+|....
T Consensus        15 ~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLeeae   75 (81)
T 1ic2_A           15 KENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLELAD   75 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444455556677777788888888888888888888888888887777777777653

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

Probab=87.69  E-value=5.7  Score=31.75  Aligned_cols=46  Identities=11%  Similarity=0.172  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +-+|..+++.|+.|...|+-+++.+.-++..|......+-..|...
T Consensus        22 ~~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~Y~dLD~R   67 (83)
T 2xdj_A           22 LTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQILLQIDSL   67 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4557777777777777777777777766666666665555555443

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

Probab=87.68  E-value=2.1  Score=33.59  Aligned_cols=49  Identities=14%  Similarity=0.054  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      ++..-+.++..|+....--.+..++|..++-.|--||..|.++|..+..
T Consensus        26 eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~l~~   74 (75)
T 3a7o_A           26 ELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSDLKK   74 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHHHhc
Confidence            3334445555555555555556678888888889999999999887643

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.68  E-value=5.9  Score=39.48  Aligned_cols=48  Identities=15%  Similarity=0.109  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      .++|.+.+.++++....+.+++.|+++.++|+.++..|..++.+....
T Consensus       424 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  471 (487)
T 3oja_A          424 VEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANAT  471 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccH
Confidence            334444444445555555555555555555555555555555544443

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

Probab=87.58  E-value=3  Score=33.97  Aligned_cols=35  Identities=17%  Similarity=0.143  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQEN  340 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN  340 (387)
                      +.|+.++..++.++..+..+|..|+.++..|..+.
T Consensus        26 e~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~el   60 (101)
T 3u59_A           26 EQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEV   60 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333

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

Probab=87.45  E-value=8.1  Score=32.58  Aligned_cols=64  Identities=16%  Similarity=0.101  Sum_probs=42.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhhh
Q 016555          289 SNRESARRSRLRKQAEAEELSRKVDSLID---ENASLKSEINQLSENS-------EKLRQENAALLVCHINVII  352 (387)
Q Consensus       289 rNRESARRSR~RKq~~~eeLe~rV~~L~~---EN~~L~~el~~L~ee~-------~~L~~EN~~Lr~~L~~l~~  352 (387)
                      .|=.+|.+.=..|+..|++|++++..++.   +..-|++++...+...       ++|-.|...|.++|..+..
T Consensus        31 ~~L~~AEeaL~~Kq~~idelk~ei~q~~~~lE~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~  104 (110)
T 2v4h_A           31 QQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQR  104 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHH
Confidence            34556666667788888888888877777   5666777777665443       4455666666666665544

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

Probab=86.96  E-value=3.6  Score=37.04  Aligned_cols=54  Identities=22%  Similarity=0.267  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          292 ESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       292 ESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      |++.|  +||++  .+|...+..++..+.+|...+..|......|..|+..|..+|..
T Consensus        27 E~~~r--lkK~~--tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~q   80 (168)
T 3o0z_A           27 DTAVR--LRKSH--TEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEA   80 (168)
T ss_dssp             HHHHH--HHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH--HHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444  55554  45555555555555555555555555555555555555555444

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

Probab=86.80  E-value=12  Score=30.62  Aligned_cols=35  Identities=9%  Similarity=0.267  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      .+..++.+...++.+...|..++..|..+++.+..
T Consensus        31 ~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee   65 (101)
T 3u1c_A           31 DKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLE   65 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444333333

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

Probab=86.71  E-value=1.2  Score=35.27  Aligned_cols=29  Identities=14%  Similarity=0.105  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          321 SLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .|+.+...|..+.+.|+.|+..|+.+|.+
T Consensus        51 ~L~~~~~~l~~e~~~L~~e~~~L~~~L~~   79 (80)
T 1nlw_A           51 KLEDSDRKAVHQIDQLQREQRHLKRQLEK   79 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34444444444445555555555555543

>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=86.13  E-value=15  Score=31.32  Aligned_cols=36  Identities=17%  Similarity=0.102  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          316 IDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       316 ~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      +.+.++|+.||..|.+++..+.+|...||.+.+.+.
T Consensus        70 q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~  105 (121)
T 3mq7_A           70 QKKVEELEGEITTLNHKLQDASAEVERLRRENQVLS  105 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhh
Confidence            334566666666666666666666666666655443

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

Probab=86.05  E-value=2.9  Score=38.78  Aligned_cols=28  Identities=36%  Similarity=0.484  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          318 ENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       318 EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      ||..|..+|..|++++..|+.||..|++
T Consensus       116 EN~~Lh~~ie~l~eEi~~LkeEn~eLke  143 (209)
T 2wvr_A          116 ENEKLHKEIEQKDNEIARLKKENKELAE  143 (209)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555555544

>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex, blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A {Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB: 1n73_C*

Probab=85.95  E-value=1.7  Score=42.82  Aligned_cols=47  Identities=13%  Similarity=-0.046  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +++..||..|...+.+...|+.++..++.++++|..+...|+.++..
T Consensus        12 ~~~~~~e~~i~~~~~~i~~L~~~l~~~~~~i~~l~~~i~~l~~~~~~   58 (323)
T 1lwu_C           12 EEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTCSR   58 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            45556666666666667777777777766666666666666665543

>4dzn_A Coiled-coil peptide CC-PIL; de novo protein; HET: PHI; 1.59A {Synthetic} PDB: 4dzm_A* 4dzl_A* 4dzk_A 1u0i_A 1u0i_B

Probab=85.95  E-value=1.5  Score=28.82  Aligned_cols=24  Identities=42%  Similarity=0.434  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          321 SLKSEINQLSENSEKLRQENAALL  344 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr  344 (387)
                      .|++++..|++++..|+-|...|+
T Consensus         6 alkqeiaalkkeiaalkfeiaalk   29 (33)
T 4dzn_A            6 ALKQEIAALKKEIAALKFEIAALK   29 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444443

>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1

Probab=85.93  E-value=3  Score=33.35  Aligned_cols=33  Identities=18%  Similarity=0.113  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          319 NASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       319 N~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ...|..+...|..+.+.|+.+|..|+.+|.++.
T Consensus        54 I~~L~~~~~~l~~~~~~L~~~n~~L~~rl~~L~   86 (88)
T 1nkp_A           54 ILSVQAEEQKLISEEDLLRKRREQLKHKLEQLG   86 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455666777777777778888888888888764

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

Probab=85.88  E-value=0.48  Score=30.18  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      ++.|+-||..|.+++..|++++..|+
T Consensus         2 idalefendaleqkiaalkqkiaslk   27 (28)
T 3ra3_A            2 IDALEFENDALEQKIAALKQKIASLK   27 (28)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHhccHHHHHHHHHHHHHHHHhc
Confidence            35677788888888877777666553

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

Probab=85.85  E-value=13  Score=34.08  Aligned_cols=45  Identities=11%  Similarity=0.192  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +..|+.++..|+..+..|+..|..|...++.|+...+.+..-|..
T Consensus        90 ~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD  134 (189)
T 2v71_A           90 VSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLED  134 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHH
Confidence            344444444444555555555544444444444444433333333

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

Probab=85.83  E-value=0.45  Score=37.68  Aligned_cols=30  Identities=33%  Similarity=0.412  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          318 ENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       318 EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      |...|+.+|.+|.+++.+|+.||..||.-.
T Consensus        16 EVevLKe~I~EL~e~~~qLE~EN~~Lk~~a   45 (78)
T 1dip_A           16 EVEILKEQIRELVEKNSQLERENTLLKTLA   45 (78)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            445566777777777777888888887543

>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell shape regulation; 2.5A {Listeria monocytogenes}

Probab=85.76  E-value=0.35  Score=45.69  Aligned_cols=35  Identities=26%  Similarity=0.305  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHh
Q 016555          315 LIDENASLKSEINQLSE---NSEKLRQENAALLVCHIN  349 (387)
Q Consensus       315 L~~EN~~L~~el~~L~e---e~~~L~~EN~~Lr~~L~~  349 (387)
                      |.+||++|++|+.+|+.   +++.|+.||.+|++.|..
T Consensus        24 l~~eN~~Lk~e~~~l~~~~~~~~~l~~En~rLr~lL~~   61 (255)
T 2j5u_A           24 TYTENQHLKERLEELAQLESEVADLKKENKDLKESLDI   61 (255)
T ss_dssp             --CTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            44455555555544443   345678899999887764

>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=85.52  E-value=1.1  Score=42.36  Aligned_cols=73  Identities=14%  Similarity=0.034  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEELS-------RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeLe-------~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +.||-||.++-=.==.|.|+-|...++++.       .++++|+.||++|+.+|+.|+++..+.+.+..-.+..+.++..
T Consensus       118 ~~~Rt~~iLSalINF~~FRE~~~~~~~e~~~~~e~~~~~i~ql~~En~~le~~Ie~Lk~e~~e~~te~~p~~k~~~qly~  197 (250)
T 2ve7_C          118 KAKRTSRFLSGIINFIHFREACRETYMEFLWQYKSSADKMQQLNAAHQEALMKLERLEKEVDEDTTVTIPSAVYVAQLYH  197 (250)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHSCC-------------CTTTHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            356777776655445555555555555544       4455555555555555555554444444333322333344433

>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C

Probab=85.49  E-value=3  Score=32.83  Aligned_cols=65  Identities=23%  Similarity=0.298  Sum_probs=35.7

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSL---IDENASLKSE---INQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L---~~EN~~L~~e---l~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      |+..-..+-|+-|.+=...+.+|..-|-..   ......|..-   |..|+.+...|..|+..|+.++++.
T Consensus         6 rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L~~~~~~~   76 (82)
T 1am9_A            6 KRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSLRTAVHKS   76 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333344555555555566777777544321   1111222222   3456777777777888888777654

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

Probab=85.39  E-value=5.7  Score=44.67  Aligned_cols=44  Identities=18%  Similarity=0.180  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      +.++.++..|+.|+..|+.+++.+.++.+.|+.++..|+++|++
T Consensus       980 ~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~ 1023 (1080)
T 2dfs_A          980 KNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQ 1023 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555555555555555444443

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

Probab=85.38  E-value=9.6  Score=30.81  Aligned_cols=31  Identities=19%  Similarity=0.331  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          318 ENASLKSEINQLSENSEKLRQENAALLVCHI  348 (387)
Q Consensus       318 EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~  348 (387)
                      +...|+.+|..+..+...|..|...|.+.+.
T Consensus        57 ~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~   87 (93)
T 3s4r_A           57 EMRELRRQVDQLTNDKARVEVERDNLAEDIM   87 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333

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

Probab=85.38  E-value=0.66  Score=39.41  Aligned_cols=26  Identities=4%  Similarity=-0.068  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          329 LSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       329 L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      ++..+..|+.+...+|.++..+..+.
T Consensus        80 ~q~~i~~lE~eL~~~r~e~~~ql~EY  105 (129)
T 3tnu_B           80 ARNKLAELEEALQKAKQDMARLLREY  105 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            33444455556666666555554443

>1a93_B MAX protein, coiled coil, LZ; leucine zipper, 2D solution structure, H-bonds, buried salt bridge, proto-oncogene, nuclear protein; NMR {Mus musculus} SCOP: h.1.3.1 PDB: 2a93_B

Probab=85.32  E-value=1.4  Score=29.95  Aligned_cols=18  Identities=22%  Similarity=0.292  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 016555          330 SENSEKLRQENAALLVCH  347 (387)
Q Consensus       330 ~ee~~~L~~EN~~Lr~~L  347 (387)
                      +++++.|+.+|..|.+++
T Consensus        13 qqDIddlkrQN~~Le~Qi   30 (34)
T 1a93_B           13 QQDIDDLKRQNALLEQQV   30 (34)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHH
Confidence            333333334444444444

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=85.18  E-value=5.7  Score=31.84  Aligned_cols=54  Identities=20%  Similarity=0.288  Sum_probs=36.0

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          286 RKQSNRESARRSRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQE  339 (387)
Q Consensus       286 Rk~rNRESARRSR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~E  339 (387)
                      .-++.+.+-++-=.+=+.....++.++...+..|..|..++..|+++.+.|+.+
T Consensus        21 aEIqAKQ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq~~   74 (81)
T 1wt6_A           21 EEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQAE   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            334444444444444456666777888888888888888888888877776544

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=84.86  E-value=9.5  Score=30.31  Aligned_cols=59  Identities=20%  Similarity=0.113  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 016555          297 SRLRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFWT  355 (387)
Q Consensus       297 SR~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~~  355 (387)
                      -|+|=++.+..-+.+++.|+.-.++|+.--..|..-+.+|..|-..|...|.-+.....
T Consensus        12 LRrrl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~   70 (78)
T 3iv1_A           12 LRWRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDE   70 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566688888888899999888888888888888888888888888888877765443

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

Probab=84.80  E-value=1.2  Score=28.94  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 016555          308 LSRKVDSLIDENASLKSEINQL  329 (387)
Q Consensus       308 Le~rV~~L~~EN~~L~~el~~L  329 (387)
                      |..-+..|++||.+|+.++++|
T Consensus         4 lnallasleaenkqlkakveel   25 (31)
T 1p9i_A            4 LNALLASLEAENKQLKAKVEEL   25 (31)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444554444444443

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

Probab=84.79  E-value=8.8  Score=30.63  Aligned_cols=42  Identities=10%  Similarity=0.135  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          313 DSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       313 ~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      -.|..++..|+.+|..|+-+++.+.-++..|+++.++++..+
T Consensus        23 ~~Lq~Ql~~Lq~Ev~~LRGqiE~~~~~l~ql~~rQrd~Y~dL   64 (83)
T 2xdj_A           23 TQLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQILLQI   64 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555555555554433

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

Probab=84.75  E-value=6  Score=39.23  Aligned_cols=24  Identities=17%  Similarity=-0.003  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          330 SENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       330 ~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      +.++++|+.|...|..+|+.+..+
T Consensus       442 ~~~~~~~~~~~~~~~~~~~~~~~~  465 (471)
T 3mq9_A          442 QKKVEELEGEITTLNHKLQDASAE  465 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555443

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

Probab=84.66  E-value=2.9  Score=30.83  Aligned_cols=28  Identities=14%  Similarity=0.102  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          325 EINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       325 el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      -+..|..++..|+.||..|+.+|..+..
T Consensus        23 ~~~~LE~~v~~L~~eN~~L~~~~~~L~~   50 (55)
T 1dh3_A           23 YVKSLENRVAVLENQNKTLIEELKALKD   50 (55)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555566666666666665543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=84.59  E-value=8.1  Score=38.47  Aligned_cols=35  Identities=20%  Similarity=0.125  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSE  334 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~  334 (387)
                      |.+++++..+.+++.|++||+.|+.++.++..+.+
T Consensus       432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (487)
T 3oja_A          432 NAIRDWDMYQHKETQLAEENARLKKLNGEADLALA  466 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhH
Confidence            34444444455555555555555555554444433

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.53  E-value=1.4  Score=44.61  Aligned_cols=46  Identities=13%  Similarity=0.109  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          306 EELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       306 eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+|..+++.|+.+...|..+.+.|+.+...|+.|...++++++.+.
T Consensus        45 ~dl~~~lk~le~~~~~L~~e~e~l~~~~~~~~~e~~~~~ee~~~l~   90 (428)
T 4b4t_K           45 SDIYFKLKKLEKEYELLTLQEDYIKDEQRHLKRELKRAQEEVKRIQ   90 (428)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            4555555566666666666666666666666666666666666553

>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1

Probab=84.47  E-value=1.5  Score=35.20  Aligned_cols=32  Identities=28%  Similarity=0.324  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          312 VDSLIDENASLKSEINQLSENSEKLRQENAAL  343 (387)
Q Consensus       312 V~~L~~EN~~L~~el~~L~ee~~~L~~EN~~L  343 (387)
                      +..|+.++..|..++..|+.++..|+.+...|
T Consensus        54 I~~L~~~~~~l~~~~~~L~~~n~~L~~rl~~L   85 (88)
T 1nkp_A           54 ILSVQAEEQKLISEEDLLRKRREQLKHKLEQL   85 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444444444555555555555444

>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor homology domain, karyog mitosis, microtubules; HET: ADP EBC; 2.30A {Saccharomyces cerevisiae}

Probab=84.42  E-value=1.7  Score=43.52  Aligned_cols=48  Identities=13%  Similarity=-0.016  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          302 QAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       302 q~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      ++++++|+++++.|+.++.+|.+++...+.+..+|-.+...|+..|+-
T Consensus        16 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~rr~l~n~~~elkgnIrV   63 (403)
T 4etp_A           16 KEKIAALKEKIKDTELGMKELNEILIKEETVRRTLHNELQELRGNIRV   63 (403)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEE
Confidence            345566666666666666666666666666666666666666655544

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

Probab=84.35  E-value=16  Score=30.11  Aligned_cols=47  Identities=21%  Similarity=0.208  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++..|+.++...+.+...|..++..-+......+.++..|..+|+.|
T Consensus        13 ~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeL   59 (97)
T 2eqb_B           13 DYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDL   59 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444445555555444444444444444444444444444

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=84.20  E-value=6.1  Score=28.80  Aligned_cols=48  Identities=13%  Similarity=0.114  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          304 EAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       304 ~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      .+..|+..+..+..+...++.++..++.++.++..+....++.|..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k   53 (60)
T 3htk_A            6 TKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKK   53 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666666666666666666666666666666666666553

>3jsv_C NF-kappa-B essential modulator; ubiquitin, coiled-coil, cellular signaling, cytoplasm, isopeptide bond, nucleus, phosphoprotein, UBL conjugation; 2.70A {Mus musculus} PDB: 3f89_A 2zvo_B 2zvn_B

Probab=84.20  E-value=8.3  Score=31.68  Aligned_cols=51  Identities=14%  Similarity=0.194  Sum_probs=37.2

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 016555          288 QSNRESARRSRLRKQAEAEELSRKVDSLI---DENASLKSEINQLSENSEKLRQ  338 (387)
Q Consensus       288 ~rNRESARRSR~RKq~~~eeLe~rV~~L~---~EN~~L~~el~~L~ee~~~L~~  338 (387)
                      ..|-.+|-..=..|+..|++|...+..++   ..+..|+.++...++.+..=|+
T Consensus         8 ~~~L~~aEeaL~~kq~~id~lke~~~q~~~~~E~i~vLk~Qv~IY~~DF~aERa   61 (94)
T 3jsv_C            8 RQQLQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERH   61 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566777777789999999998888877   5667788888877665544333

>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=84.04  E-value=0.54  Score=44.51  Aligned_cols=43  Identities=9%  Similarity=-0.064  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      ..++.+..+.+++..+++.|++++..++++++.|+.++.+...
T Consensus       141 ~~~~e~~~~~e~~~~~i~ql~~En~~le~~Ie~Lk~e~~e~~t  183 (250)
T 2ve7_C          141 ETYMEFLWQYKSSADKMQQLNAAHQEALMKLERLEKEVDEDTT  183 (250)
T ss_dssp             HHHHHHHHHTTHHHHHHHHHHHHHHHHHHSCC-----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            3455666666677777777777766666666666666655443

>1g6u_A Domain swapped dimer; designed three helix bundle, de novo protein; 1.48A {Synthetic} SCOP: k.9.1.1

Probab=83.87  E-value=3.8  Score=28.97  Aligned_cols=26  Identities=23%  Similarity=0.196  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          325 EINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       325 el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      ++..|..+++.|+.....|+.+|+.+
T Consensus        21 elaaleselqalekklaalksklqal   46 (48)
T 1g6u_A           21 ELAALESELQALEKKLAALKSKLQAL   46 (48)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455555555555556666666554

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=83.76  E-value=5  Score=29.55  Aligned_cols=41  Identities=15%  Similarity=0.150  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          310 RKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       310 ~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      .+++.|..+.+.|..++..|+.+...|+.+...-+++..+.
T Consensus         4 aki~~Lss~V~~L~~kVdqLssdV~al~~~v~~ak~eA~RA   44 (52)
T 1jcd_A            4 AKADQASSDAQTANAKADQASNDANAARSDAQAAKDDAARA   44 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46777777777777777777777777777666666655543

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

Probab=83.75  E-value=15  Score=29.26  Aligned_cols=55  Identities=18%  Similarity=0.205  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 016555          300 RKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVIIFW  354 (387)
Q Consensus       300 RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~~~  354 (387)
                      +-.....+|+.+...|..+...|..++..+.+.+..|......|-.+|..+...+
T Consensus        32 k~e~~rkele~~~~~l~~ek~~L~~ql~eaEe~~~~L~~~K~eLE~~l~el~~rl   86 (89)
T 3bas_A           32 KTERIKKELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLV   86 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334556778888888888888888888888888888888888888888775543

>1a93_B MAX protein, coiled coil, LZ; leucine zipper, 2D solution structure, H-bonds, buried salt bridge, proto-oncogene, nuclear protein; NMR {Mus musculus} SCOP: h.1.3.1 PDB: 2a93_B

Probab=83.67  E-value=1.6  Score=29.72  Aligned_cols=26  Identities=23%  Similarity=0.359  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          317 DENASLKSEINQLSENSEKLRQENAA  342 (387)
Q Consensus       317 ~EN~~L~~el~~L~ee~~~L~~EN~~  342 (387)
                      .+|+...+.|+.|+.++..|+.+.+.
T Consensus         7 rKn~a~qqDIddlkrQN~~Le~Qir~   32 (34)
T 1a93_B            7 RKNDTHQQDIDDLKRQNALLEQQVRA   32 (34)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHhhHhhHHHHHHHHHHHHHHHHh
Confidence            34444445555555555555554443

>2ve7_A Kinetochore protein HEC1, kinetochore protein SPC; mitosis, centromere, cell cycle, microtubule, C division, calponin homology; 2.88A {Homo sapiens} PDB: 3iz0_C*

Probab=83.65  E-value=2.2  Score=41.44  Aligned_cols=44  Identities=23%  Similarity=0.223  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 016555          309 SRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINVII  352 (387)
Q Consensus       309 e~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~~  352 (387)
                      +++++.|+++|+.|+.++++|+++.+.+...|.+.+++|+....
T Consensus       184 ~~eie~L~~~~~~L~eEi~~Le~~~e~~~k~n~~rl~~Lqk~~~  227 (315)
T 2ve7_A          184 AFKLESLEAKNRALNEQIARLEQERSTANKANAERLKRLQKSAD  227 (315)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            45666777777777777777766666666655555555554443

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

Probab=83.61  E-value=20  Score=32.76  Aligned_cols=32  Identities=25%  Similarity=0.221  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          314 SLIDENASLKSEINQLSENSEKLRQENAALLV  345 (387)
Q Consensus       314 ~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~  345 (387)
                      .|+.++..|+.....|+..+..|+..|..|..
T Consensus        92 ~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr  123 (189)
T 2v71_A           92 VLEDDLSQTRAIKEQLHKYVRELEQANDDLER  123 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            33333333333333333333334444443333

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=83.54  E-value=15  Score=30.47  Aligned_cols=12  Identities=25%  Similarity=0.324  Sum_probs=7.7

Q ss_pred             HHHHHhHHHHHH
Q 016555          285 RRKQSNRESARR  296 (387)
Q Consensus       285 RRk~rNRESARR  296 (387)
                      +|.-+|+.|-+.
T Consensus        34 ~ri~~NtqaI~~   45 (114)
T 2xzr_A           34 GRVTRNTQSIEK   45 (114)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHh
Confidence            466677777663

>2xv5_A Lamin-A/C; structural protein, intermediate filaments, nuclear membrane LEFT-handed coiled coil, right-handed coiled coil; HET: MSE; 2.40A {Homo sapiens}

Probab=82.88  E-value=6.7  Score=30.70  Aligned_cols=49  Identities=14%  Similarity=-0.006  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          299 LRKQAEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       299 ~RKq~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      ...+..+..|+.++..++.+.+....+.+.|-.-...|..|+...+.-|
T Consensus         8 ~~~~~~i~~lE~eL~~~r~e~~~ql~EYq~LlniKl~Le~EIatYRkLL   56 (74)
T 2xv5_A            8 DTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLL   56 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555554444455544444445555555555443

>1fmh_B General control protein GCN4; coiled coil, leucine zipper, inter-helical ION pairing, transcription; NMR {Synthetic} SCOP: k.6.1.1 PDB: 1u2u_B

Probab=82.73  E-value=2.1  Score=28.18  Aligned_cols=29  Identities=21%  Similarity=0.386  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENS  333 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~  333 (387)
                      +..|..+|+.|++.|-.-+++++.|+.+|
T Consensus         3 vqalkkrvqalkarnyaakqkvqalrhkc   31 (33)
T 1fmh_B            3 VQALKKRVQALKARNYAAKQKVQALRHKC   31 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            45677777778877777777777776655

>2wuj_A Septum site-determining protein diviva; bacterial cell division, septation, cell cycle, sporulation; 1.40A {Bacillus subtilis} PDB: 2wuk_A

Probab=82.69  E-value=1.2  Score=33.09  Aligned_cols=29  Identities=14%  Similarity=0.375  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSE  331 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~e  331 (387)
                      +.++++...++.|..||..|+.++..|++
T Consensus        27 ~FLd~v~~~~~~l~~e~~~L~~~~~~l~~   55 (57)
T 2wuj_A           27 EFLAQVRKDYEIVLRKKTELEAKVNELDE   55 (57)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45556666666666666666666665544

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=82.47  E-value=18  Score=29.31  Aligned_cols=31  Identities=10%  Similarity=0.339  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLR  337 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~  337 (387)
                      .|..++..|+.+...|..+|..++.+...|.
T Consensus        22 ~L~~eL~~lEke~~~l~~el~~le~E~~~L~   52 (96)
T 3q8t_A           22 RLIQELEDVEKNRKVVAENLEKVQAEAERLD   52 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            3344444444444444444444444444443

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

Probab=82.30  E-value=9.2  Score=29.95  Aligned_cols=43  Identities=16%  Similarity=0.156  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          307 ELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       307 eLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .|+.+++.-+.+-..++.++..|.+.++.--.|...|+..|..
T Consensus        25 ~le~~Le~s~~~q~~~~~Elk~~~e~Ld~KI~eL~elrq~Lak   67 (72)
T 3cve_A           25 EMEQRLEKSQSEQDAFRSNLKTLLEILDGKIFELTELRDNLAK   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3333333333333334444444444433333444444444433

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A

Probab=82.27  E-value=10  Score=39.17  Aligned_cols=54  Identities=17%  Similarity=0.194  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          297 SRLRKQAEAEELSRKVDSLIDENAS----------LKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       297 SR~RKq~~~eeLe~rV~~L~~EN~~----------L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      -|+.-+.++++|+.+.+.+..+...          |..++..|++++..|+.+...|.++|..+
T Consensus        41 ~~r~~~~~~~~l~~~rn~~sk~i~~~k~~~~~~~~l~~~~~~l~~~i~~le~~~~~~~~~~~~~  104 (485)
T 3qne_A           41 EWVKLRFDLDEHNKKLNSVQKEIGKRFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRSK  104 (485)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455666666666666655433          44444555555555555555555555443

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=82.24  E-value=11  Score=33.94  Aligned_cols=26  Identities=23%  Similarity=0.159  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          324 SEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       324 ~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      .+|+.|.+++..|+.+...++.++..
T Consensus       113 akI~aL~~Ei~~Lr~qL~~~R~k~~~  138 (175)
T 3lay_A          113 AKINAVAKEMESLGQKLDEQRVKRDV  138 (175)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555544443

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

Probab=81.98  E-value=17  Score=30.63  Aligned_cols=48  Identities=15%  Similarity=0.108  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +.+.-|+++|+.++..-..=+.--+++..+.+.|..+++.|+.++..+
T Consensus        62 E~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~q~~~l  109 (110)
T 2v4h_A           62 ETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKL  109 (110)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHHHHHhc
Confidence            467777888888877777767777788888888888888888887654

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}

Probab=81.92  E-value=8.3  Score=39.87  Aligned_cols=28  Identities=14%  Similarity=0.065  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          322 LKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       322 L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      |+.++..|++++..|+.+...|.++|..
T Consensus       121 l~~~~~~l~~~i~~l~~~~~~~~~~l~~  148 (501)
T 1wle_A          121 LRARGREIRKQLTLLYPKEAQLEEQFYL  148 (501)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444433

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

Probab=81.52  E-value=1.2  Score=28.42  Aligned_cols=16  Identities=50%  Similarity=0.598  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q 016555          315 LIDENASLKSEINQLS  330 (387)
Q Consensus       315 L~~EN~~L~~el~~L~  330 (387)
                      |++.|..|++++..|.
T Consensus         5 lkqknarlkqeiaale   20 (28)
T 3ra3_B            5 LKQKNARLKQEIAALE   20 (28)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHH
Confidence            4444444444444443

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=81.30  E-value=15  Score=36.82  Aligned_cols=52  Identities=10%  Similarity=0.100  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          299 LRKQAEAEELSRKVDSLIDE--------NASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       299 ~RKq~~~eeLe~rV~~L~~E--------N~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +.-+.++++|+.+.+.+..+        ..+|+.++..|++++..|+.+...|.++|..+
T Consensus        38 r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (421)
T 1ses_A           38 QELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEAL   97 (421)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555444432        23455555566666666666666666665544

>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C

Probab=81.14  E-value=2.2  Score=33.60  Aligned_cols=28  Identities=21%  Similarity=0.235  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLKSEINQLS  330 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~~el~~L~  330 (387)
                      +||..|+.+++.|+.++..|+.+++..+
T Consensus        50 ~YI~~Lq~~~~~L~~e~~~L~~~~~~~~   77 (82)
T 1am9_A           50 DYIRFLQHSNQKLKQENLSLRTAVHKSK   77 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            6778888888888888877777776543

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

Probab=81.03  E-value=7.4  Score=31.17  Aligned_cols=45  Identities=27%  Similarity=0.244  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          303 AEAEELSRKVDSLIDENASLK-------SEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       303 ~~~eeLe~rV~~L~~EN~~L~-------~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +++.+|.-+|..|+.|-.+..       .++..|+++++.-.+|...|+.+|
T Consensus        26 qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~l   77 (81)
T 3qh9_A           26 QELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQL   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            344444444444444443333       333344444444444444444443

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

Probab=81.02  E-value=14  Score=31.23  Aligned_cols=16  Identities=25%  Similarity=0.100  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHHHh
Q 016555          334 EKLRQENAALLVCHIN  349 (387)
Q Consensus       334 ~~L~~EN~~Lr~~L~~  349 (387)
                      ..|..++..|+.+|..
T Consensus       107 kkle~e~~~Lk~~led  122 (129)
T 2fxo_A          107 RKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333344444444433

>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=80.90  E-value=3.1  Score=28.17  Aligned_cols=27  Identities=19%  Similarity=0.250  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          321 SLKSEINQLSENSEKLRQENAALLVCH  347 (387)
Q Consensus       321 ~L~~el~~L~ee~~~L~~EN~~Lr~~L  347 (387)
                      +|..+++.|-.++..|+.|+..|++-|
T Consensus         5 QLE~kVEeLl~~n~~Le~eV~rLk~ll   31 (34)
T 2oxj_A            5 QLEXKVXELLXKNXHLEXEVXRLKXLV   31 (34)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            455555666566666666666666544

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

Probab=80.75  E-value=1.8  Score=28.20  Aligned_cols=25  Identities=20%  Similarity=0.093  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhh
Q 016555          329 LSENSEKLRQENAALLVCHINVIIF  353 (387)
Q Consensus       329 L~ee~~~L~~EN~~Lr~~L~~l~~~  353 (387)
                      |..-+..|++||.+|+.+++++...
T Consensus         4 lnallasleaenkqlkakveellak   28 (31)
T 1p9i_A            4 LNALLASLEAENKQLKAKVEELLAK   28 (31)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445667888888888888887653

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

Probab=80.64  E-value=11  Score=30.03  Aligned_cols=46  Identities=11%  Similarity=0.091  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 016555          305 AEELSRKVDSLIDENASLKSEINQLSENSEKLRQENAALLVCHINV  350 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l  350 (387)
                      +..|+.+++.-+.+-..++.++..|.+.++.---|...|+..|..+
T Consensus        29 v~~le~~Le~s~~~q~~~~~Elk~l~e~Ld~KI~eL~elRqgLakL   74 (79)
T 3cvf_A           29 LRAMERSLEEARAERERARAEVGRAAQLLDVSLFELSELREGLARL   74 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHh
Confidence            3344444444444444444555555444444445555555555443

---

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	387
d1sknp_	74	Skn-1 {Caenorhabditis elegans [TaxId: 6239]}	95.09
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	88.34
d2oa5a1	96	Uncharacterized protein BQLF2 {Murid herpesvirus 4	87.15
d1nkpa_	88	Myc proto-oncogene protein {Human (Homo sapiens) [	86.72
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	83.43
d1nkpb_	83	Max protein {Human (Homo sapiens) [TaxId: 9606]}	82.47

>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=95.09  E-value=0.0047  Score=46.84  Aligned_cols=29  Identities=24%  Similarity=0.496  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 016555          280 ELKRERRKQSNRESARRSRLRKQAEAEEL  308 (387)
Q Consensus       280 e~KR~RRk~rNRESARRSR~RKq~~~eeL  308 (387)
                      -.+-.||+=+||.||++||.||.+..++|
T Consensus        46 lirDIRRRGKNKvAAqnCRKRKld~~d~l   74 (74)
T d1sknp_          46 LIRKIRRRGKNKVAARTCRQRRTDRHDKM   74 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHhcccHHHHHHHHHhhhhhhccC
Confidence            45667899999999999999999876653

>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myc proto-oncogene protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.34  E-value=3.5  Score=30.53  Aligned_cols=33  Identities=18%  Similarity=0.113  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          319 NASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       319 N~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ...|+.++..|..+.+.|+.++..|+.+|..+.
T Consensus        54 I~~L~~~~~~l~~~~~~l~~~~~~L~~~l~~L~   86 (88)
T d1nkpa_          54 ILSVQAEEQKLISEEDLLRKRREQLKHKLEQLG   86 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            455666677777777777777777777776653

>d2oa5a1 d.362.1.1 (A:7-102) Uncharacterized protein BQLF2 {Murid herpesvirus 4 [TaxId: 33708]}

class: Alpha and beta proteins (a+b)
fold: BLRF2-like
superfamily: BLRF2-like
family: BLRF2-like
domain: Uncharacterized protein BQLF2
species: Murid herpesvirus 4 [TaxId: 33708]

Probab=87.15  E-value=0.45  Score=37.36  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          305 AEELSRKVDSLIDENASLKSEINQ  328 (387)
Q Consensus       305 ~eeLe~rV~~L~~EN~~L~~el~~  328 (387)
                      +|+|+.++..|+-||..|++++.+
T Consensus         4 ~EeLaaeL~rL~~ENk~LKkkl~~   27 (96)
T d2oa5a1           4 YEEMVKEVERLKLENKTLKQKVKS   27 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc
Confidence            689999999999999999999886

>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Myc proto-oncogene protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.72  E-value=0.59  Score=35.11  Aligned_cols=26  Identities=27%  Similarity=0.311  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016555          316 IDENASLKSEINQLSENSEKLRQENA  341 (387)
Q Consensus       316 ~~EN~~L~~el~~L~ee~~~L~~EN~  341 (387)
                      +.++..|..++..|+.+++.|..+..
T Consensus        58 ~~~~~~l~~~~~~l~~~~~~L~~~l~   83 (88)
T d1nkpa_          58 QAEEQKLISEEDLLRKRREQLKHKLE   83 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=83.43  E-value=4.2  Score=31.16  Aligned_cols=28  Identities=14%  Similarity=0.050  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 016555          322 LKSEINQLSENSEKLRQENAALLVCHIN  349 (387)
Q Consensus       322 L~~el~~L~ee~~~L~~EN~~Lr~~L~~  349 (387)
                      |..++..|++++..|+.+...+.++|..
T Consensus        69 l~~~~k~lk~~i~~le~~~~~~~~~l~~   96 (110)
T d1seta1          69 LIARGKALGEEAKRLEEALREKEARLEA   96 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444433

>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: Max protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.47  E-value=6.7  Score=28.57  Aligned_cols=32  Identities=13%  Similarity=0.119  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 016555          320 ASLKSEINQLSENSEKLRQENAALLVCHINVI  351 (387)
Q Consensus       320 ~~L~~el~~L~ee~~~L~~EN~~Lr~~L~~l~  351 (387)
                      ..|..++..|.++.+.|+.+|..|+.+|..+.
T Consensus        50 ~~L~~~~~~l~~~~~~l~~~~~~L~~~l~~L~   81 (83)
T d1nkpb_          50 QYMRRKNHTHQQDIDDLKRQNALLEQQVRALG   81 (83)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            34566666677777777777777877776653