Citrus Sinensis ID: 023255

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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-----
Protein Sequence
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHEEEEEEc
Coil and Loop (DISEMBL)
mniygnslhttlhnhsqftmsgrrvlrepplstralppqhspslhhleDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECekknrasnHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAvnpstsyaasygnpdpgfggslyadpysmhqvSALTCLSTVLELQFVI
Flexible Loop (DISEMBL)
mniygnslhttlhnhsqftMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEkslkldaelRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIeterqeihkgraaiecekknrasnheqrEIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
Low Complexity Region (SEG)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQaelanaekraraaaaaaavnpstsyaaSYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
Disordered region (IsUnstruct)
*******************************************************************LAATHVAL******************************ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN****************************************************************************************************GFGGSLYADPYSMHQVSALTCLSTVLELQFV*
Disordered Region (DISOPRED)
***********************************************************************************************************************************************************************************************************************************************************************YSMHQVSALTCLSTVLELQFVI
Disordered Region (DISEMBL)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA********************YAASYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
Disordered Region (DISPRO)
MNIYGNSLHTTLHNHS****************TRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA**************SYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIHKGRAAIECEKKNRASNHEQxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQFVI
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

No hits with e-value below 0.001 by BLAST

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	285
255560349	274	conserved hypothetical protein [Ricinus	0.891	0.927	0.550	5e-64
224103867	288	predicted protein [Populus trichocarpa]	0.796	0.788	0.573	1e-61
449454989	305	PREDICTED: uncharacterized protein LOC10	0.807	0.754	0.587	8e-61
449531685	270	PREDICTED: uncharacterized LOC101204259,	0.771	0.814	0.605	2e-59
359478523	314	PREDICTED: uncharacterized protein LOC10	0.884	0.802	0.526	2e-59
224059867	284	predicted protein [Populus trichocarpa]	0.870	0.873	0.544	7e-58
357491069	286	hypothetical protein MTR_5g072760 [Medic	0.778	0.776	0.539	8e-55
255580849	315	conserved hypothetical protein [Ricinus	0.824	0.746	0.464	2e-53
116782366	309	unknown [Picea sitchensis] gi|116787652|	0.824	0.760	0.466	1e-49
359386140	302	structural maintenance of chromosomes do	0.764	0.721	0.470	8e-49

>gi|255560349|ref|XP_002521190.1| conserved hypothetical protein [Ricinus communis] gi|223539604|gb|EEF41190.1| conserved hypothetical protein [Ricinus communis]

 Score =  250 bits (638), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 146/265 (55%), Positives = 192/265 (72%), Gaps = 11/265 (4%)

Query: 20  MSGRRVLREPPLSTRALP---PQ---HSPSLHH----LEDRIAIQHSDIQSLLQDNQRLA 69
           M+GR  L    L  R +P   P+     P LHH    LEDRIAIQH +IQ+LL DNQ+L 
Sbjct: 1   MAGRNNLPPNTLKHRQVPVDDPRLHNRVPRLHHPSTILEDRIAIQHREIQTLLLDNQQLT 60

Query: 70  ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELD 129
           ATH+ALKQ+L+L + ELRHLS+ AA VKA+RD +VRE+YE+SLKLDAE+R I+++ AEL 
Sbjct: 61  ATHLALKQDLALVDDELRHLSAAAADVKAQRDDQVREVYERSLKLDAEVRSIDALRAELV 120

Query: 130 RVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC 189
           +V AD+EKL V +QE+  +L  IN D+AKAR E++ +AAI+A+I+T ++EI +GRAAIE 
Sbjct: 121 QVTADVEKLSVHRQELTAELRAINSDVAKARTEAQQVAAIEADIQTMQKEIQRGRAAIEN 180

Query: 190 EKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK-RARAAAAAAAVNPSTSYAASY 248
           EKK  ASN E  + ME+N+I+VA++IE+L AELAN EK     AAAA A NPS  YA SY
Sbjct: 181 EKKLYASNLEHGQTMEQNMIAVAREIEKLHAELANLEKRERAEAAAAIAANPSPGYAGSY 240

Query: 249 GNPDPGFGGSLYADPYSMHQVSALT 273
            NP+  +GG+L  D Y++HQV   T
Sbjct: 241 SNPEVSYGGNLGPDLYAIHQVQGGT 265

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103867|ref|XP_002313225.1| predicted protein [Populus trichocarpa] gi|222849633|gb|EEE87180.1| predicted protein [Populus trichocarpa]

 Score =  242 bits (618), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 132/230 (57%), Positives = 177/230 (76%), Gaps = 3/230 (1%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LEDRI+ QH +IQSLL DNQR AATHVALKQE+SL++Q+LRHLS++AA VKAERD ++RE
Sbjct: 61  LEDRISTQHREIQSLLLDNQRHAATHVALKQEVSLSQQDLRHLSTLAADVKAERDNQIRE 120

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
            Y++SLKLDAELR I++M AEL RVR D++KL V +Q+M   L E+N ++ KA+ E++ +
Sbjct: 121 FYQRSLKLDAELRSIDAMSAELVRVRTDVQKLTVQRQDMTAQLKEMNSEIVKAKTETQQV 180

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE 226
             IK EIET +QEI +GR+AIE EKK RA N EQ +++EKN I + ++IE+L+ ELAN+E
Sbjct: 181 GVIKEEIETVQQEIQRGRSAIEYEKKTRAFNLEQEKVLEKNRILLVREIEKLRTELANSE 240

Query: 227 KRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVS-ALTCL 275
           KRARAAAAA   NPS  Y  +YG+ +  +GGS Y DP  + Q + + TC+
Sbjct: 241 KRARAAAAAG--NPSPGYGRNYGSAEVRYGGSSYPDPIGLQQCAISDTCI 288

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454989|ref|XP_004145236.1| PREDICTED: uncharacterized protein LOC101204475 [Cucumis sativus] gi|449471289|ref|XP_004153266.1| PREDICTED: uncharacterized protein LOC101204259 [Cucumis sativus]

 Score =  239 bits (611), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 137/233 (58%), Positives = 177/233 (75%), Gaps = 3/233 (1%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LEDRI+ Q  +IQ+LL DNQ LAATHVALKQEL+ AEQELRHLS+ AA VKAERDAEVRE
Sbjct: 50  LEDRISAQRREIQTLLSDNQHLAATHVALKQELASAEQELRHLSATAAKVKAERDAEVRE 109

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
           +YEKSLK+DAE+R +++M AEL ++RADI++L  +K+E+  +L  I  DL KA  ES+ +
Sbjct: 110 VYEKSLKMDAEVRAMDAMMAELVQIRADIQRLSAVKKELNSELQAIRDDLTKASSESQPL 169

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE 226
            +IKAEI+    EI +GRAAIE EK+  ASN EQ E MEK ++S++Q++E+L+AELANAE
Sbjct: 170 PSIKAEIDRMHHEIQRGRAAIEYEKRTHASNLEQAEAMEKGMVSMSQEVEKLRAELANAE 229

Query: 227 KRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLY-ADPYSMHQVSALTCLSTV 278
           K  RA AAAA  +P + Y A+YG+PD  +GGS Y  DPY MHQV   + +  V
Sbjct: 230 K--RARAAAAVTSPFSGYTAAYGHPDIRYGGSSYPPDPYGMHQVQGGSGIDIV 280

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449531685|ref|XP_004172816.1| PREDICTED: uncharacterized LOC101204259, partial [Cucumis sativus]

 Score =  235 bits (600), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 135/223 (60%), Positives = 173/223 (77%), Gaps = 3/223 (1%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LEDRI+ Q  +IQ+LL DNQ LAATHVALKQEL+ AEQELRHLS+ AA VKAERDAEVRE
Sbjct: 50  LEDRISAQRREIQTLLSDNQHLAATHVALKQELASAEQELRHLSATAAKVKAERDAEVRE 109

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
           +YEKSLK+DAE+R +++M AEL ++RADI++L  +K+E+  +L  I  DL KA  ES+ +
Sbjct: 110 VYEKSLKMDAEVRAMDAMMAELVQIRADIQRLSAVKKELNSELQAIRDDLTKASSESQPL 169

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE 226
            +IKAEI+    EI +GRAAIE EK+  ASN EQ E MEK ++S++Q++E+L+AELANAE
Sbjct: 170 PSIKAEIDRMHHEIQRGRAAIEYEKRTHASNLEQAEAMEKGMVSMSQEVEKLRAELANAE 229

Query: 227 KRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLY-ADPYSMHQ 268
           K  RA AAAA  +P + Y A+YG+PD  +GGS Y  DPY MHQ
Sbjct: 230 K--RARAAAAVTSPFSGYTAAYGHPDIRYGGSSYPPDPYGMHQ 270

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478523|ref|XP_002278199.2| PREDICTED: uncharacterized protein LOC100258756 [Vitis vinifera] gi|297745841|emb|CBI15897.3| unnamed protein product [Vitis vinifera]

 Score =  235 bits (599), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 137/260 (52%), Positives = 189/260 (72%), Gaps = 8/260 (3%)

Query: 13  HNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATH 72
           HNH       R   R  P+   A   ++ P++  +++RI IQH +IQ+LL DNQRLAATH
Sbjct: 29  HNHHALIEEDRYRHRSGPIPVSA--GRYHPAV--IDERIVIQHREIQTLLGDNQRLAATH 84

Query: 73  VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVR 132
           VALKQEL+ A+QE+ HLS+ AASVKAERDA+VRE+YE+SLK++AE+R I++++AEL +VR
Sbjct: 85  VALKQELAAAQQEISHLSAAAASVKAERDAQVREVYERSLKMEAEVRSIDALNAELAQVR 144

Query: 133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK 192
           AD++KL   +QE+   L  IN DL+ +R E K++ A+K  IE  R+E+ +GRAAIE EKK
Sbjct: 145 ADVQKLSASRQELAAQLQTINTDLSVSRSELKEVQAVKDGIENMRKELQRGRAAIEYEKK 204

Query: 193 NRASNHEQREIMEKNIISVAQQIERLQAEL-ANAEKRARAAAAAAAVNPST---SYAASY 248
             ++N EQ E M KN++++A ++E+L+AEL    ++   AAAAAAA NPS    +YAASY
Sbjct: 205 THSNNLEQSEAMGKNMMAMAHEVEKLRAELANAEKRARAAAAAAAAANPSPVVHAYAASY 264

Query: 249 GNPDPGFGGSLYADPYSMHQ 268
           GN D G+GGS Y DPY+MHQ
Sbjct: 265 GNSDMGYGGSFYHDPYAMHQ 284

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059867|ref|XP_002300004.1| predicted protein [Populus trichocarpa] gi|222847262|gb|EEE84809.1| predicted protein [Populus trichocarpa]

 Score =  230 bits (586), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 142/261 (54%), Positives = 185/261 (70%), Gaps = 13/261 (4%)

Query: 20  MSGRRV--LREPPLSTRALPPQHSPSLHH---------LEDRIAIQHSDIQSLLQDNQRL 68
           M+GR    LRE PLS  AL P  +   H          LEDRI IQH +IQSLL +N+RL
Sbjct: 1   MAGRNHLQLREIPLSRAALLPHPTTDPHRLHARPHHLLLEDRITIQHREIQSLLLENERL 60

Query: 69  AATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAEL 128
           AA H ALKQELSL++Q+LRHLS++AA VKAERD +VRE+YE+SLK DAELR I++M AEL
Sbjct: 61  AAAHFALKQELSLSQQDLRHLSTLAADVKAERDNQVREVYERSLKSDAELRSIDAMSAEL 120

Query: 129 DRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE 188
            +VR +++KL   +Q+M   L  +N ++ KA+ E++ +  +KAEIET +QEI +GRAAI 
Sbjct: 121 VQVRTNVQKLTAQRQDMTAQLKGMNNEIVKAKTETQQVGVLKAEIETVQQEIQRGRAAIA 180

Query: 189 CEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASY 248
            EKK RA N EQ +++EKN+  V ++IE+L+ E ANAEKRARAAAAAA   PS  Y  +Y
Sbjct: 181 YEKKTRAINLEQEKVLEKNMNLVIREIEKLRGEFANAEKRARAAAAAAN--PSPGYGGNY 238

Query: 249 GNPDPGFGGSLYADPYSMHQV 269
           G+ + G GGS Y DPY + QV
Sbjct: 239 GSAEVGCGGSSYPDPYGLQQV 259

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357491069|ref|XP_003615822.1| hypothetical protein MTR_5g072760 [Medicago truncatula] gi|355517157|gb|AES98780.1| hypothetical protein MTR_5g072760 [Medicago truncatula]

 Score =  219 bits (559), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 122/226 (53%), Positives = 168/226 (74%), Gaps = 4/226 (1%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LEDRI  +H +IQ+LL DNQRLA TH+ALKQ+L+  +QELR LS+ AA VKAERDAEVR 
Sbjct: 37  LEDRITTRHREIQTLLHDNQRLATTHLALKQDLTATQQELRQLSAAAADVKAERDAEVRR 96

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
           +YEKSLK+DAE+R + +M ++LD+VRAD+ +L  +++E+++ L  +  +LA AR++ K +
Sbjct: 97  IYEKSLKMDAEVRAVAAMKSDLDQVRADVRELAEVRKELVEHLQSVQSELALAREDLKPL 156

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE 226
             IK +IE  R EI +GR+AIE EKK  A+N E   +M+ N+I + +++E+L+AELANAE
Sbjct: 157 PIIKVDIEALRHEIQRGRSAIEFEKKTHANNLEHNRVMDTNMIIMTREVEKLRAELANAE 216

Query: 227 KRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYA-DPYSMHQVSA 271
           KRARAA  AAA+ PS  Y A+  NP+ GFGG  Y  D YSMHQ+  
Sbjct: 217 KRARAAMVAAAI-PSPGYHAN--NPEMGFGGITYPQDSYSMHQIQG 259

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580849|ref|XP_002531244.1| conserved hypothetical protein [Ricinus communis] gi|223529163|gb|EEF31141.1| conserved hypothetical protein [Ricinus communis]

 Score =  215 bits (547), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 112/241 (46%), Positives = 168/241 (69%), Gaps = 6/241 (2%)

Query: 31  LSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLS 90
           L  R LPP   P++  +E+R+A+QH DIQ LL DNQR +ATHVALKQEL  A  EL  ++
Sbjct: 54  LDPRRLPPH--PAV--MEERLAVQHQDIQGLLADNQRFSATHVALKQELEAAHHELERMA 109

Query: 91  SVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN 150
               S+  E+D ++REL+EKS++L+A+LR +E+M AEL  VRADI++L  ++QE+   + 
Sbjct: 110 HYGNSLHVEKDVQMRELHEKSMRLEADLREVEAMRAELHHVRADIKELSEVRQELTGRVQ 169

Query: 151 EINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS 210
            +  DLA+   + + + A+KA+IE+ +Q++   RAAI+ EKK  A N+E  ++MEK +I+
Sbjct: 170 MMTQDLARYNADLQQVPAVKADIESMKQQLQHARAAIDYEKKGYAENYEHGQVMEKKLIA 229

Query: 211 VAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVS 270
           +A+++E+L+AE+ANAEKRARAA A    NP  +Y A+YGN + G+ G+ Y   Y M+ V 
Sbjct: 230 MARELEKLRAEIANAEKRARAAVAVG--NPGATYNANYGNSEAGYAGNPYPIGYGMNPVQ 287

Query: 271 A 271
           A
Sbjct: 288 A 288

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116782366|gb|ABK22481.1| unknown [Picea sitchensis] gi|116787652|gb|ABK24593.1| unknown [Picea sitchensis] gi|116793930|gb|ABK26936.1| unknown [Picea sitchensis] gi|224286832|gb|ACN41119.1| unknown [Picea sitchensis]

 Score =  202 bits (515), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 113/242 (46%), Positives = 170/242 (70%), Gaps = 7/242 (2%)

Query: 26  LREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQE 85
           +R+ P      P    P+L  +E+++A QH +IQ LL +NQRLAATHVAL+QEL+ A+QE
Sbjct: 44  IRDGPFGRGPGPLPPHPAL--IEEKLAAQHQEIQGLLVENQRLAATHVALRQELASAQQE 101

Query: 86  LRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEM 145
           L+H++ +AA+++A+++  +RELY+KS+KL+A+LR  E M AEL ++RAD +K+  I+QEM
Sbjct: 102 LQHMNHMAANMQADKEHHLRELYDKSMKLEADLRANEPMKAELMQLRADNQKMGAIRQEM 161

Query: 146 IKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME 205
              +  +  DL +AR + + + A++AEIE+  QE+ + R AIE EKK RA   EQ + ME
Sbjct: 162 TAQVQALTQDLVRARADMQQVGAMRAEIESMHQELQRARTAIEYEKKARADQLEQGQAME 221

Query: 206 KNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYS 265
           KN+IS+A+++E+L+AELANA+KR R AA     NP  +YA +YG  + G+ G  Y D Y 
Sbjct: 222 KNLISMAREVEKLRAELANADKRGRVAA-----NPGGAYAGNYGGAEMGYSGGAYGDGYG 276

Query: 266 MH 267
           +H
Sbjct: 277 VH 278

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359386140|gb|AEV43359.1| structural maintenance of chromosomes domain-containing protein [Citrus sinensis]

 Score =  199 bits (507), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 105/223 (47%), Positives = 160/223 (71%), Gaps = 5/223 (2%)

Query: 31  LSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLS 90
           +  R LPP H P++  +E+R+A QH DIQ LL DNQRLAATHVALKQEL +A+ EL+ + 
Sbjct: 53  MGPRPLPPTH-PAI--IEERLAAQHQDIQGLLADNQRLAATHVALKQELEVAQYELQRMV 109

Query: 91  SVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN 150
             A S + ++D ++RE+Y+KS++L+ +LR +E+M +EL +V+ADI++L  ++QE+     
Sbjct: 110 HYADSFRMDKDVQMREMYDKSVQLEVDLRGVEAMRSELLKVQADIKELTAVRQELTGQAQ 169

Query: 151 EINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS 210
            ++ DL +   + + + A+KAEIE  +QE+ + RAAIE +KK  A N+E  ++MEK +IS
Sbjct: 170 MMSQDLVRLTADLQQVPALKAEIENVKQELQRARAAIEFDKKGYAENYEHGQVMEKKLIS 229

Query: 211 VAQQIERLQAELANAEKRARAAAAAA-AVNPSTSYAASYG-NP 251
           +A+++E+L+AE+AN+EKRARAAAA   +  PS  Y  SY  NP
Sbjct: 230 MARELEKLRAEIANSEKRARAAAAVGNSGYPSNPYPVSYSMNP 272

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

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	285
TAIR|locus:2089616	331	AT3G14750 "AT3G14750" [Arabido	0.828	0.712	0.374	5.3e-40
TAIR|locus:2060848	288	AT2G30120 [Arabidopsis thalian	0.778	0.770	0.414	5.5e-38
TAIR|locus:2035751	283	AT1G55170 "AT1G55170" [Arabido	0.736	0.742	0.339	1.6e-29
TAIR|locus:2033681	359	AT1G67170 "AT1G67170" [Arabido	0.670	0.532	0.321	7.3e-27
TAIR|locus:2156146	238	AT5G61920 "AT5G61920" [Arabido	0.631	0.756	0.276	6.7e-17
FB|FBgn0264695	1962	Mhc "Myosin heavy chain" [Dros	0.585	0.085	0.251	5e-06
WB|WBGene00003515	1969	myo-3 [Caenorhabditis elegans	0.592	0.085	0.254	4.2e-05
UNIPROTKB|P12844	1969	myo-3 "Myosin-3" [Caenorhabdit	0.592	0.085	0.254	4.2e-05
UNIPROTKB|A7E2Y1	1941	MYH7B "Myosin-7B" [Homo sapien	0.592	0.087	0.269	5.3e-05
UNIPROTKB|G3V6P7	1960	Myh9 "Myosin-9" [Rattus norveg	0.666	0.096	0.220	5.4e-05

TAIR|locus:2089616 AT3G14750 "AT3G14750" [Arabidopsis thaliana (taxid:3702)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 91/243 (37%), Positives = 146/243 (60%)

Query:    27 REPP--LSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQ 84
             REP   +  R LPPQ S     LEDR+A Q+ D+Q LL DNQRLAATHVALKQEL +A+ 
Sbjct:    52 REPQFRVDARGLPPQFSI----LEDRLAAQNQDVQGLLADNQRLAATHVALKQELEVAQH 107

Query:    85 ELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQE 144
             EL+ +     S++AE +  +RE+Y+KS++ + ELR +++M AE+ ++RADI++    +QE
Sbjct:   108 ELQRIMHYIDSLRAEEEIMMREMYDKSMRSEMELREVDAMRAEIQKIRADIKEFTSGRQE 167

Query:   145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM 204
             +   ++ +  DLA+   + + +  + AEIE  +QE+ + RAAI+ EKK  A N+E  +IM
Sbjct:   168 LTSQVHLMTQDLARLTADLQQIPTLTAEIENTKQELQRARAAIDYEKKGYAENYEHGKIM 227

Query:   205 EKNIISVAQQIERLQXXXXXXXXXXXXXXXXXXXXXXXXXXXSYGNPDPGFGGSLYADPY 264
             E  ++++A+++E+L+                            YGNP+ G+  + Y   Y
Sbjct:   228 EHKLVAMARELEKLRAEIANSETSAYANGPVGNPGGVAYGG-GYGNPEAGYPVNPYQPNY 286

Query:   265 SMH 267
             +M+
Sbjct:   287 TMN 289

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048573 "photoperiodism, flowering" evidence=RCA

TAIR|locus:2060848 AT2G30120 [Arabidopsis thaliana (taxid:3702)]

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 95/229 (41%), Positives = 136/229 (59%)

Query:    47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
             LEDRIAIQH +IQSLL DNQRLA  H+ LK +L++A++EL  L   A  VKAE +A+VRE
Sbjct:    39 LEDRIAIQHREIQSLLNDNQRLAVAHIGLKDQLNVAKRELERLLETAVKVKAEGEAKVRE 98

Query:   107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
             +Y+ +L+++AE RVI+ + AEL +VR+D+++L   +QE+  +L   + ++AKA+  S   
Sbjct:    99 VYQNALRMEAEARVIDGLGAELGQVRSDVQRLGSDRQELATELAMFDDEMAKAKPNSDRA 158

Query:   167 AAIKAEIETERQEIHKGRAAIECEKKNRASN-HEQREIMEKNIISVAQQIERLQXXXXXX 225
               +K EIE  R EI KGRAA+E EKK RASN H +R  MEK I  + ++I +L+      
Sbjct:   159 IEVKLEIEILRGEIRKGRAALELEKKTRASNLHHERG-MEKTIDHLNREIVKLEEELVDL 217

Query:   226 XXXXXXXXXXXXXXXXXX--XXXSYGN-PDPGFGGS--LYADPYSMHQV 269
                                    SYGN  D  +GG    Y +    H++
Sbjct:   218 ETKAREANAAAEAAPTPSPGLAASYGNNTDDIYGGQGRQYPEANGTHEL 266

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2035751 AT1G55170 "AT1G55170" [Arabidopsis thaliana (taxid:3702)]

 Score = 327 (120.2 bits), Expect = 1.6e-29, P = 1.6e-29
 Identities = 72/212 (33%), Positives = 128/212 (60%)

Query:     8 LHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQR 67
             +  + H+H       R  LR PPL  +  PP     L   E  I  Q ++I+ LL DN  
Sbjct:    11 IRDSYHDHRDLPPE-RPFLRGPPL-LQPPPPSLLEDLQIQEGEIRRQDAEIRRLLSDNHG 68

Query:    68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAE 127
             LA   + L++EL  A++EL  ++ + + ++AE+D ++RE  EK  KL+ ++R +ES   E
Sbjct:    69 LADDRMVLERELVAAKEELHRMNLMISDLRAEQDLQLREFSEKRHKLEGDVRAMESYKKE 128

Query:   128 LDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI 187
               ++R +++KL  IK+E+  ++  +  DLAK + ++K +  ++AE++  ++E+   R AI
Sbjct:   129 ASQLRGEVQKLDEIKRELSGNVQLLRKDLAKLQSDNKQIPGMRAEVKDLQKELMHARDAI 188

Query:   188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQ 219
             E EKK +    EQR+ MEKN++S+A+++E+L+
Sbjct:   189 EYEKKEKFELMEQRQTMEKNMVSMAREVEKLR 220

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2033681 AT1G67170 "AT1G67170" [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 62/193 (32%), Positives = 117/193 (60%)

Query:    29 PPLSTRALPPQHS--PSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQEL 86
             PP + + + P  +  P    +E +   QH ++Q L  +NQRL  TH +L+QEL+ A+ E+
Sbjct:    38 PPSAAQGVYPSFNMLPPPEVMEQKFVAQHGELQRLAIENQRLGGTHGSLRQELAAAQHEI 97

Query:    87 RHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMI 146
             + L +   S+K+ER+  +  L EK  K++ EL+  E++  E+ + RA+   L V ++E++
Sbjct:    98 QMLHAQIGSMKSEREQRMMGLAEKVAKMETELQKSEAVKLEMQQARAEARSLVVAREELM 157

Query:   147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK 206
               ++++  +L K+R + + + A+ +E+E  RQE  + RA  + EKK    + E  + MEK
Sbjct:   158 SKVHQLTQELQKSRSDVQQIPALMSELENLRQEYQQCRATYDYEKKFYNDHLESLQAMEK 217

Query:   207 NIISVAQQIERLQ 219
             N +++A+++E+LQ
Sbjct:   218 NYMTMAREVEKLQ 230

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2156146 AT5G61920 "AT5G61920" [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 50/181 (27%), Positives = 99/181 (54%)

Query:    40 HSPSLHH-LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA 98
             H  SL   LE++IA+Q ++I  L  DN++LA+++VALK++L++A++E++ L +     + 
Sbjct:    45 HQISLSDILENKIAVQAAEIDRLSNDNRKLASSYVALKEDLTVADREVQGLRAHIRKTET 104

Query:    99 ERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK 158
             + + ++R   EK  K++  ++  E++  E+     +  +L   ++E+   +     DL K
Sbjct:   105 DHEIQIRSTLEKIAKMEGMVKNRENIRREVQSAHIEAHRLAREREELASKVKLGMKDLKK 164

Query:   159 ARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL 218
                E++ + A   E+E  ++E  + R   E EK        Q + ME+ II   + IE+L
Sbjct:   165 VCLEAESLEASSQELERLKEEHQRLRKEFEEEKSGNVEKLAQLKGMERKIIGAVKAIEKL 224

Query:   219 Q 219
             +
Sbjct:   225 R 225

GO:0008150 "biological_process" evidence=ND

FB|FBgn0264695 Mhc "Myosin heavy chain" [Drosophila melanogaster (taxid:7227)]

 Score = 139 (54.0 bits), Expect = 5.0e-06, P = 5.0e-06
 Identities = 46/183 (25%), Positives = 91/183 (49%)

Query:    44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA----- 98
             + +L D IA Q   I  L ++ +    T+    +EL  AE ++ HL+ V A ++      
Sbjct:   974 IRNLNDEIAHQDELINKLNKEKKMQGETNQKTGEELQAAEDKINHLNKVKAKLEQTLDEL 1033

Query:    99 ----ERDAEVRELYEKSL-KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN 153
                 ER+ +VR   EKS  K++ +L++ +   A+L+R + ++E+     Q   K+L+ I 
Sbjct:  1034 EDSLEREKKVRGDVEKSKRKVEGDLKLTQEAVADLERNKKELEQTI---QRKDKELSSIT 1090

Query:   154 GDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ 213
                AK  DE   +   + +I+  +  I +    +E E++ RA   +QR  + + +  + +
Sbjct:  1091 ---AKLEDEQVVVLKHQRQIKELQARIEELEEEVEAERQARAKAEKQRADLARELEELGE 1147

Query:   214 QIE 216
             ++E
Sbjct:  1148 RLE 1150

GO:0006941 "striated muscle contraction" evidence=TAS

GO:0005863 "striated muscle myosin thick filament" evidence=IDA

GO:0008307 "structural constituent of muscle" evidence=IMP;TAS

GO:0005859 "muscle myosin complex" evidence=ISS;IDA

GO:0030017 "sarcomere" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0006936 "muscle contraction" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0000146 "microfilament motor activity" evidence=ISS

GO:0005703 "polytene chromosome puff" evidence=IDA

GO:0007517 "muscle organ development" evidence=IMP

GO:0042623 "ATPase activity, coupled" evidence=ISS

GO:0016459 "myosin complex" evidence=ISS

GO:0030241 "skeletal muscle myosin thick filament assembly" evidence=IMP

GO:0005524 "ATP binding" evidence=IEA

GO:0030239 "myofibril assembly" evidence=IMP

GO:0007527 "adult somatic muscle development" evidence=IMP

GO:0030898 "actin-dependent ATPase activity" evidence=IDA

GO:0042692 "muscle cell differentiation" evidence=IMP

GO:0007298 "border follicle cell migration" evidence=IMP

GO:0060361 "flight" evidence=IMP

GO:0007427 "epithelial cell migration, open tracheal system" evidence=IMP

GO:0031672 "A band" evidence=IDA

GO:0050821 "protein stabilization" evidence=IMP

GO:0045214 "sarcomere organization" evidence=IMP

GO:0031033 "myosin filament organization" evidence=IMP

WB|WBGene00003515 myo-3 [Caenorhabditis elegans (taxid:6239)]

 Score = 131 (51.2 bits), Expect = 4.2e-05, P = 4.2e-05
 Identities = 46/181 (25%), Positives = 92/181 (50%)

Query:    44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAE 103
             LHH   ++A  +S I  L +  + L A +  L++EL  AE+  R  S  + S +AER+ E
Sbjct:  1100 LHHTNAKLAENNSIIAKLQRLIKELTARNAELEEELE-AERNSRQKSDRSRS-EAERELE 1157

Query:   104 --VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD-LAKAR 160
                  L ++     A+L   +   AE+ ++R + E+  +  +  I  L + +GD +A+  
Sbjct:  1158 ELTERLEQQGGATAAQLEANKKREAEIAKLRREKEEDSLNHETAISSLRKRHGDSVAELT 1217

Query:   161 DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE--QREIMEKNIISVAQQIERL 218
             ++ + +  +KA+ E E+ ++ +     + E+   A++ E   R+ +EK + ++  Q   L
Sbjct:  1218 EQLETLQKLKAKSEAEKSKLQR-----DLEESQHATDSEVRSRQDLEKALKTIEVQYSEL 1272

Query:   219 Q 219
             Q
Sbjct:  1273 Q 1273

GO:0003774 "motor activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016459 "myosin complex" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040017 "positive regulation of locomotion" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0005863 "striated muscle myosin thick filament" evidence=IDA

GO:0031672 "A band" evidence=IDA

UNIPROTKB|P12844 myo-3 "Myosin-3" [Caenorhabditis elegans (taxid:6239)]

 Score = 131 (51.2 bits), Expect = 4.2e-05, P = 4.2e-05
 Identities = 46/181 (25%), Positives = 92/181 (50%)

Query:    44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAE 103
             LHH   ++A  +S I  L +  + L A +  L++EL  AE+  R  S  + S +AER+ E
Sbjct:  1100 LHHTNAKLAENNSIIAKLQRLIKELTARNAELEEELE-AERNSRQKSDRSRS-EAERELE 1157

Query:   104 --VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD-LAKAR 160
                  L ++     A+L   +   AE+ ++R + E+  +  +  I  L + +GD +A+  
Sbjct:  1158 ELTERLEQQGGATAAQLEANKKREAEIAKLRREKEEDSLNHETAISSLRKRHGDSVAELT 1217

Query:   161 DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE--QREIMEKNIISVAQQIERL 218
             ++ + +  +KA+ E E+ ++ +     + E+   A++ E   R+ +EK + ++  Q   L
Sbjct:  1218 EQLETLQKLKAKSEAEKSKLQR-----DLEESQHATDSEVRSRQDLEKALKTIEVQYSEL 1272

Query:   219 Q 219
             Q
Sbjct:  1273 Q 1273

GO:0031672 "A band" evidence=IDA

GO:0007626 "locomotory behavior" evidence=IMP

GO:0003774 "motor activity" evidence=IMP

UNIPROTKB|A7E2Y1 MYH7B "Myosin-7B" [Homo sapiens (taxid:9606)]

 Score = 130 (50.8 bits), Expect = 5.3e-05, P = 5.3e-05
 Identities = 49/182 (26%), Positives = 88/182 (48%)

Query:    47 LEDRIAIQHSDIQSLLQDNQRL----AATHVALKQE---LSLAEQELRHLSSVAASVKAE 99
             L D++++    IQ L +  + L    +    AL++    L L E +   +    + VKAE
Sbjct:  1519 LTDQVSLSGKSIQELEKTKKALEGEKSEIQAALEEAEGALELEETKTLRIQLELSQVKAE 1578

Query:   100 RDAEVRELYEKSLKLDAE-LRVIESMHAELD-RVRADIEKLCVIKQEMIKDLNEINGDLA 157
              D ++ E  E+   L     R +ES+ A LD   RA  E L  +K++M  DLN++   L 
Sbjct:  1579 VDRKLAEKDEECANLRRNHQRAVESLQASLDAETRARNEALR-LKKKMEGDLNDLELQLG 1637

Query:   158 KARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIER 217
              A  ++ +  A    ++ + +E   GR   + E++  A  HEQ + +E+    +A ++E 
Sbjct:  1638 HATRQATEAQAATRLMQAQLKEEQAGR---DEEQRLAAELHEQAQALERRASLLAAELEE 1694

Query:   218 LQ 219
             L+
Sbjct:  1695 LR 1696

GO:0003774 "motor activity" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0032982 "myosin filament" evidence=IEA

GO:0016020 "membrane" evidence=IEA

UNIPROTKB|G3V6P7 Myh9 "Myosin-9" [Rattus norvegicus (taxid:10116)]

 Score = 130 (50.8 bits), Expect = 5.4e-05, P = 5.4e-05
 Identities = 43/195 (22%), Positives = 90/195 (46%)

Query:    28 EPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELR 87
             E   S   L  +H   +  LE+R+  +    Q L +  ++L      L  +++  + ++ 
Sbjct:  1013 EKSKSLAKLKNKHEAMITDLEERLRREEKQRQELEKTRRKLEGDSTDLSDQIAELQAQIA 1072

Query:    88 HLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIE--KLCVIKQEM 145
              L    A  + E  A +  + E++ + +  L+ I  +  ++  ++ D+E  + C  K E 
Sbjct:  1073 ELKMQLAKKEEELQAALARVEEEAAQKNMALKKIRELETQISELQEDLESERACRNKAEK 1132

Query:   146 IK-DLNEINGDLAKARDESKDMAAIKAEIETER-QEIHKGRAAIECEKK-NRASNHEQRE 202
              K DL E    L    +++ D  A + E+ ++R QE+   +  +E E K + A   E R+
Sbjct:  1133 QKRDLGEELEALKTELEDTLDSTAAQQELRSKREQEVSILKKTLEDEAKTHEAQIQEMRQ 1192

Query:   203 IMEKNIISVAQQIER 217
                + +  +A+Q+E+
Sbjct:  1193 KHSQAVEELAEQLEQ 1207

GO:0003774 "motor activity" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016459 "myosin complex" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_IX000847 hypothetical protein (288 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	285
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	9e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	2e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	2e-04
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	3e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	6e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-04
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	8e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.003
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.004
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.004

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

 Score = 53.9 bits (130), Expect = 4e-08
 Identities = 48/215 (22%), Positives = 89/215 (41%), Gaps = 17/215 (7%)

Query: 37  PPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASV 96
                  L  L +R+     ++ SL  + +R+      L QELS A +++  +      +
Sbjct: 669 SRSEPAELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQL 728

Query: 97  KAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN------ 150
           + E +     L E    L +  + IE++ +EL  + A IE+L     ++ + LN      
Sbjct: 729 EQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARL 788

Query: 151 ------EINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM 204
                 EI  +L+K  +E   + A   EIE +   +   +  +E E +      EQR  +
Sbjct: 789 SHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQEL---QEQRIDL 845

Query: 205 EKNIISVAQQIERLQAELANAEKRARAAAAAAAVN 239
           ++ I S+ ++IE L  +    E         AA+ 
Sbjct: 846 KEQIKSIEKEIENLNGKK--EELEEELEELEAALR 878

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

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

 Score = 51.3 bits (123), Expect = 3e-07
 Identities = 34/160 (21%), Positives = 75/160 (46%), Gaps = 3/160 (1%)

Query: 75  LKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRAD 134
           L++EL   + ELR L  +   ++ + +   R+L E   +L A    +E + + L+ +  +
Sbjct: 686 LEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEE 745

Query: 135 IEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR 194
           +E+L    +E+ + L E+  +L    +    +     E+E +RQ + +    +E E +  
Sbjct: 746 LEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELE-- 803

Query: 195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAA 234
                + + +E+ + S+ Q+ ERL+ E+   E+       
Sbjct: 804 -EAERRLDALERELESLEQRRERLEQEIEELEEEIEELEE 842

Length = 1163

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

 Score = 49.7 bits (119), Expect = 9e-07
 Identities = 38/189 (20%), Positives = 84/189 (44%), Gaps = 3/189 (1%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LE  I    ++I+ L ++ +        L +E +  ++EL  L +    V  E      E
Sbjct: 327 LEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDE 386

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
           L +   KL+   R I  +  ELDR++ ++++L     ++   +  I   + +  +E +D 
Sbjct: 387 LKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDK 446

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE 226
           A    + E + +++    +  E E  +     E+ + +EK +  + +++   +A+   +E
Sbjct: 447 ALEIKKQEWKLEQLAADLSKYEQELYDL---KEEYDRVEKELSKLQRELAEAEAQARASE 503

Query: 227 KRARAAAAA 235
           +R R   A 
Sbjct: 504 ERVRGGRAV 512

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

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

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 41/201 (20%), Positives = 89/201 (44%), Gaps = 8/201 (3%)

Query: 46  HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA------- 98
            L +R+    ++++ L +  + L     ALK+EL   E  L  L  + A ++        
Sbjct: 306 LLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEE 365

Query: 99  ERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK 158
           +  A + EL E    L  EL  +E+  AE+     ++++     +E ++ L+E   DL +
Sbjct: 366 KLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKE 425

Query: 159 ARDESK-DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIER 217
              E + ++  ++ E+E   +E+ +    +E  +        +   +++ +  + +++  
Sbjct: 426 ELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSS 485

Query: 218 LQAELANAEKRARAAAAAAAV 238
           L+A L   E   RA+    AV
Sbjct: 486 LEARLDRLEAEQRASQGVRAV 506

Length = 1163

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

 Score = 47.4 bits (113), Expect = 6e-06
 Identities = 36/200 (18%), Positives = 85/200 (42%), Gaps = 12/200 (6%)

Query: 41  SPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELR-------HLSSVA 93
              L  LE+ +A   + ++ L ++ + L     +L+  L    ++L         L    
Sbjct: 666 KRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKREL 725

Query: 94  ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN 153
           A+++ E +     L E   +L+     +E +   L+ +  ++E L    +E +  L E  
Sbjct: 726 AALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESL----EEALAKLKEEI 781

Query: 154 GDLAKARDESKD-MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA 212
            +L + R   ++ +  ++ E+E   + +      +E  ++ R    ++ E +E+ I  + 
Sbjct: 782 EELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELE 841

Query: 213 QQIERLQAELANAEKRARAA 232
           ++++ L+ EL   EK     
Sbjct: 842 EKLDELEEELEELEKELEEL 861

Length = 1163

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

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 32/194 (16%), Positives = 73/194 (37%), Gaps = 4/194 (2%)

Query: 44  LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAE 103
           +  LE  IA     I    ++ +        L+ E+     E+  L       +  RD  
Sbjct: 296 IGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKL 355

Query: 104 VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDES 163
             E  E   +L+     +E +  E    R +++      +++ +++NE+  +L + ++E 
Sbjct: 356 TEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEEL 415

Query: 164 K----DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ 219
           +    ++A + A I     +I++     E +         + E +  ++    Q++  L+
Sbjct: 416 QRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLK 475

Query: 220 AELANAEKRARAAA 233
            E    EK      
Sbjct: 476 EEYDRVEKELSKLQ 489

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

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

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 33/183 (18%), Positives = 81/183 (44%), Gaps = 4/183 (2%)

Query: 56  SDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLD 115
           S ++ L ++ + L      L++ L   E+EL  L    A +K E +    +      +L+
Sbjct: 737 SRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELE 796

Query: 116 AELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIET 175
                +E     LD +  ++E L   ++ + +++ E+  ++ +  ++  ++     E+E 
Sbjct: 797 ELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEK 856

Query: 176 ERQEIHKGRAAIECEKKNRASNH----EQREIMEKNIISVAQQIERLQAELANAEKRARA 231
           E +E+ +    +E EK+          E++E +E+ +  +  ++  L+ E+    +R   
Sbjct: 857 ELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEE 916

Query: 232 AAA 234
             A
Sbjct: 917 LEA 919

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 36/208 (17%), Positives = 85/208 (40%), Gaps = 4/208 (1%)

Query: 34  RALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVA 93
           R    + S  +  L   +A   ++++ L +   +L+     L+ E+   E+ L       
Sbjct: 718 RKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEEL 777

Query: 94  ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEM---IKDLN 150
           A  +AE +    ++ +   +L A    ++ + AEL  +  +   L    + +   I    
Sbjct: 778 AEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATE 837

Query: 151 EINGDLAK-ARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII 209
               DL +   + S+D+ ++ AEIE   + I +  + +E     RAS  E   ++   + 
Sbjct: 838 RRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELE 897

Query: 210 SVAQQIERLQAELANAEKRARAAAAAAA 237
            +++++  L+++ +   +         A
Sbjct: 898 ELSEELRELESKRSELRRELEELREKLA 925

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

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

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 42/192 (21%), Positives = 87/192 (45%), Gaps = 5/192 (2%)

Query: 39  QHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVK- 97
           +    L   E  I    S+++ L ++ + L    + LK+E+   E E+  L      ++ 
Sbjct: 257 ELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRERLEELEN 316

Query: 98  --AERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD 155
              E +  + EL EK   L  EL   E++  EL+++ A++E+     +E +  L E    
Sbjct: 317 ELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLE--EL 374

Query: 156 LAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQI 215
                   +++A ++AE+   R E+ + +  IE  ++      E+ E +++ +  +  ++
Sbjct: 375 EELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAEL 434

Query: 216 ERLQAELANAEK 227
           E LQ EL    +
Sbjct: 435 EELQTELEELNE 446

Length = 1163

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

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 32/132 (24%), Positives = 56/132 (42%), Gaps = 5/132 (3%)

Query: 105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESK 164
            E YE   + +A  R  E++  +L  +  ++EKL     E+ K L EI   L +   + K
Sbjct: 223 YEGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIK 282

Query: 165 DM-----AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ 219
           D+       +K +I     EI     +I  +++      E+   +E  I  +  +IE L+
Sbjct: 283 DLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELE 342

Query: 220 AELANAEKRARA 231
            E+    KR   
Sbjct: 343 REIEEERKRRDK 354

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

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

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 36/165 (21%), Positives = 81/165 (49%), Gaps = 3/165 (1%)

Query: 73  VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVR 132
             L++EL+  E +L  L     S+K E  +    L E   +L+   R +E +  EL  + 
Sbjct: 670 KELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALE 729

Query: 133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK 192
            ++E+L    +E+ ++L E+  +L + ++    +  ++ E+E+  + + K +  IE  ++
Sbjct: 730 EELEQLQSRLEELEEELEELEEELEELQER---LEELEEELESLEEALAKLKEEIEELEE 786

Query: 193 NRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAA 237
            R +  E+ E +E+ +    ++++ L+ EL + E+R         
Sbjct: 787 KRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIE 831

Length = 1163

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

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 40/199 (20%), Positives = 89/199 (44%), Gaps = 11/199 (5%)

Query: 39  QHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA 98
           Q    L  LE+ +     +++ L +  + L     +L++ L+  ++E+  L     +++ 
Sbjct: 734 QLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQE 793

Query: 99  ERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK 158
           E +    EL E   +LDA  R +ES+    +R+  +IE+L    +E+ + L+E+  +L +
Sbjct: 794 ELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEE 853

Query: 159 ARDE-----------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKN 207
              E             +   ++ E++   +E  +    +   +   A   E+ E + + 
Sbjct: 854 LEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRER 913

Query: 208 IISVAQQIERLQAELANAE 226
           +  +  ++ERL+ EL   E
Sbjct: 914 LEELEAKLERLEVELPELE 932

Length = 1163

>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 23/111 (20%), Positives = 49/111 (44%), Gaps = 1/111 (0%)

Query: 118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAI-KAEIETE 176
              +E M  + + +  D+  +  IK ++ K L  +  ++A  R  + ++      E+E  
Sbjct: 153 EENLEGMKRDEELLNKDLNLINSIKPKLRKKLQALKEEIASLRQLADELNLCDPLELEKA 212

Query: 177 RQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK 227
           RQE+      I  ++K      ++ + +   I ++  +   L  E+A AEK
Sbjct: 213 RQELRSLSVKISEKRKQLEELQQELQELTIAIEALTNKKSELLEEIAEAEK 263

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 321

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 42.3 bits (99), Expect = 2e-04
 Identities = 26/164 (15%), Positives = 62/164 (37%)

Query: 74  ALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRA 133
           AL+ EL  A+ E R   +   + ++E     +E      +L A  + +     EL R+  
Sbjct: 85  ALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTK 144

Query: 134 DIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN 193
             + L    + + +   ++       +   K + A   +++++  ++    A IE E +N
Sbjct: 145 QAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIEQEAQN 204

Query: 194 RASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAA 237
            A+     +   + +   A   ++    +   + +    A   A
Sbjct: 205 LATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIA 248

Length = 499

>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 34/156 (21%), Positives = 67/156 (42%), Gaps = 16/156 (10%)

Query: 66  QRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMH 125
           + L      LK++  L  +EL  L+S+   ++  +DA   EL  +  +L+ EL   +   
Sbjct: 147 EGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEEL-RQLKQLEDELEDCDP-- 203

Query: 126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA 185
            ELDR +  ++KL       +K L E+           +++  ++++IE    +  +   
Sbjct: 204 TELDRAKEKLKKLLQEIMIKVKKLEELE----------EELQELESKIEDLTNKKSELNT 253

Query: 186 AIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE 221
            I   +K        R    K I  + +Q++ LQ+ 
Sbjct: 254 EIAEAEKKLEQC---RGFTFKEIEKLKEQLKLLQSL 286

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 312

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 32/183 (17%), Positives = 70/183 (38%), Gaps = 13/183 (7%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           L   + + + +  +L +  + L     A ++ L   E+++  LS    S+ AE +     
Sbjct: 808 LRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEEL 867

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
           + E   +L+A L    S+   L  +R++        +E+ ++L E+    ++ R E +++
Sbjct: 868 IEELESELEALLNERASLEEALALLRSE-------LEELSEELRELESKRSELRRELEEL 920

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR--EIMEKNIISVAQQIERLQAELAN 224
               A++E   + +           + R S       E  E     +    E  +  L  
Sbjct: 921 REKLAQLELRLEGLEVRID----NLQERLSEEYSLTLEEAEALENKIEDDEEEARRRLKR 976

Query: 225 AEK 227
            E 
Sbjct: 977 LEN 979

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

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

 Score = 40.9 bits (96), Expect = 7e-04
 Identities = 37/183 (20%), Positives = 79/183 (43%), Gaps = 10/183 (5%)

Query: 55  HSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD---AEVRELYEKS 111
             +++ L ++  RL      L++EL  AE+E+  L S    ++ E +    E+ EL E+ 
Sbjct: 238 RKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEI 297

Query: 112 LKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN----EINGDLAKARDESKDMA 167
            +L+ E+ ++     EL+    ++E+     +E I+ L     E    L +      ++ 
Sbjct: 298 EELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELE 357

Query: 168 AIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKN--IISVAQQIERLQAELANA 225
             K E+E +   + +    +    +   +  E  E+ E    +  + ++IE L+  L   
Sbjct: 358 EAKEELEEKLSALLEELEELFEALREELAELE-AELAEIRNELEELKREIESLEERLERL 416

Query: 226 EKR 228
            +R
Sbjct: 417 SER 419

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 34/193 (17%), Positives = 82/193 (42%), Gaps = 16/193 (8%)

Query: 47  LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           LE +  I    + +L +  + L A    L+ +L    +EL  L      +K E ++   E
Sbjct: 300 LEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAE 359

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADI----EKLCVIK---QEMIKDLNEINGDLAKA 159
           L E   +L+     +E +  +L+ +R+ +     ++  +    + +   L  +     + 
Sbjct: 360 LEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERL 419

Query: 160 RDE---------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS 210
           + E           ++  ++AE+E   +E+ + +  +E  ++      E+ E  E+ + +
Sbjct: 420 QQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQALDA 479

Query: 211 VAQQIERLQAELA 223
             +++ +LQA L 
Sbjct: 480 AERELAQLQARLD 492

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional

 Score = 40.7 bits (96), Expect = 8e-04
 Identities = 38/178 (21%), Positives = 62/178 (34%), Gaps = 18/178 (10%)

Query: 48  EDRIAIQH-SDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
           ED++  Q      +LL    R       LKQ+L+ A  +LR   +   ++K + D E RE
Sbjct: 57  EDKLVQQDLEQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRE 116

Query: 107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM 166
                      LR +ES    L +    +       Q    DL E N  L   + + +  
Sbjct: 117 TLST-----LSLRQLESR---LAQTLDQL-------QNAQNDLAEYNSQLVSLQTQPERA 161

Query: 167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN 224
            A         Q+I       +   K  A    QR +++     +  Q +  +  L  
Sbjct: 162 QAALYANSQRLQQIRNLLKGGKVGGK--ALRPSQRVLLQAEQALLNAQNDLQRKSLEG 217

Length = 1113

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

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 45/225 (20%), Positives = 90/225 (40%), Gaps = 30/225 (13%)

Query: 44  LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD-- 101
           L  L   ++     I  + ++ ++L      LK+ L   E++L  L     +VK+E    
Sbjct: 704 LDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKEL 763

Query: 102 -AEVRELYEKSLKLDAELRVIESM--HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK 158
            A + EL E   KL+  L  +E+   H+ +  ++A++ KL      +   L EI   L +
Sbjct: 764 EARIEELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNR 823

Query: 159 -------ARDESKD----MAAIKAEIETERQEIH--------------KGRAAIECEKKN 193
                     E ++       +K +I++  +EI               +  AA+   +  
Sbjct: 824 LTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESR 883

Query: 194 RASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAV 238
                ++R+ +E  +  + ++IE L+A++    KR     A    
Sbjct: 884 LGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEA 928

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

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 26/161 (16%), Positives = 68/161 (42%), Gaps = 10/161 (6%)

Query: 73  VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVR 132
           +  ++E+   E+++  L    A ++       +EL E   +L+   + +E +  ++  +R
Sbjct: 673 LERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALR 732

Query: 133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK 192
            D+ +L            E+     +    SK++  ++AEIE   + + +    +   + 
Sbjct: 733 KDLARL----------EAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEA 782

Query: 193 NRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA 233
                  Q E +++ + ++ + ++ L+AEL    + A    
Sbjct: 783 EIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLR 823

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 34/192 (17%), Positives = 76/192 (39%), Gaps = 24/192 (12%)

Query: 58  IQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE 117
           I+ L +  + L      L++ L+   +EL  L      ++ E +   R++      L   
Sbjct: 679 IEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARL 738

Query: 118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETER 177
              +E +   + ++  ++ +L    +E+ + L E   +LA            +AEIE   
Sbjct: 739 EAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELA----------EAEAEIEELE 788

Query: 178 QEIHKG--------------RAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA 223
            +I +               RA +    +  A+  E+ E +E+ I +  +++E L+ ++ 
Sbjct: 789 AQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIE 848

Query: 224 NAEKRARAAAAA 235
              +   + AA 
Sbjct: 849 ELSEDIESLAAE 860

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 33/140 (23%), Positives = 68/140 (48%), Gaps = 6/140 (4%)

Query: 90  SSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL 149
           S+   S   ER  E+ EL EK  +L+ +   I  +   L  +R ++E+L    +++ K+L
Sbjct: 665 SAKTNSSILERRREIEELEEKIEELEEK---IAELEKALAELRKELEELEEELEQLRKEL 721

Query: 150 NEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII 209
            E++  ++  R   KD+A ++AE+E   + I +    +   +       E+ E  E+ + 
Sbjct: 722 EELSRQISALR---KDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELA 778

Query: 210 SVAQQIERLQAELANAEKRA 229
               +IE L+A++   ++  
Sbjct: 779 EAEAEIEELEAQIEQLKEEL 798

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein

 Score = 37.7 bits (88), Expect = 0.004
 Identities = 19/111 (17%), Positives = 48/111 (43%), Gaps = 1/111 (0%)

Query: 119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIK-AEIETER 177
             +E +  +   +  ++E L  IK ++    + +  +L + +    ++      E++  +
Sbjct: 151 ENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAK 210

Query: 178 QEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR 228
           +++ K    I  + K      E+ + +E  I  +  +   L  E+A AEK+
Sbjct: 211 EKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKK 261

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 312

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 35/169 (20%), Positives = 65/169 (38%), Gaps = 16/169 (9%)

Query: 70  ATHVALKQELSLAEQELRHLSSVAASVKAERDA---EVRELYEKSLKLDAELRVIESMHA 126
             H   ++EL   E E+  L    A  + ER+    EVR+L E+  +L+ E    + + A
Sbjct: 244 EEHEERREELETLEAEIEDLRETIAETEREREELAEEVRDLRERLEELEEE---RDDLLA 300

Query: 127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA 186
           E     AD E +   ++E+     E+   L + R       A   E E+ R++       
Sbjct: 301 EAGLDDADAEAVEARREELEDRDEELRDRLEECR---VAAQAHNEEAESLREDA----DD 353

Query: 187 IECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAA 235
           +E   +      E+   +E  +    + +E  + E+   E+        
Sbjct: 354 LEERAEEL---REEAAELESELEEAREAVEDRREEIEELEEEIEELRER 399

Length = 880

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	285
KOG0933	1174	consensus Structural maintenance of chromosome pro	99.95
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	99.45
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	99.36
KOG0996	1293	consensus Structural maintenance of chromosome pro	98.91
KOG0964	1200	consensus Structural maintenance of chromosome pro	98.8
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.67
KOG0018	1141	consensus Structural maintenance of chromosome pro	98.43
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.36
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.26
PRK11637	428	AmiB activator; Provisional	98.15
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	98.14
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.09
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.7
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.7
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.65
PRK09039	343	hypothetical protein; Validated	97.62
PRK11637	428	AmiB activator; Provisional	97.6
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.55
PRK03918	880	chromosome segregation protein; Provisional	97.55
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.52
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.52
PRK03918	880	chromosome segregation protein; Provisional	97.48
PRK02224	880	chromosome segregation protein; Provisional	97.47
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.35
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.25
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.2
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.19
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.16
PRK02224	880	chromosome segregation protein; Provisional	97.15
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	97.13
PHA02562	562	46 endonuclease subunit; Provisional	97.12
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.07
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.07
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.06
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.06
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.01
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.97
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.94
COG4372	499	Uncharacterized protein conserved in bacteria with	96.93
PRK04778	569	septation ring formation regulator EzrA; Provision	96.92
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.88
PF14662	193	CCDC155: Coiled-coil region of CCDC155	96.87
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	96.87
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.86
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.85
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.82
PHA02562	562	46 endonuclease subunit; Provisional	96.74
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.71
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.66
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.65
PRK09039	343	hypothetical protein; Validated	96.63
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.62
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	96.59
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.59
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.58
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.57
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.52
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.5
KOG0996	1293	consensus Structural maintenance of chromosome pro	96.47
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.45
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.43
PRK04863	1486	mukB cell division protein MukB; Provisional	96.42
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.41
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	96.3
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.29
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.29
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	96.27
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.26
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.26
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.25
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	96.23
PF13514	1111	AAA_27: AAA domain	96.19
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.17
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	96.16
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.15
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	96.12
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	96.12
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.09
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	96.09
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.08
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	96.02
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.02
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.01
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.95
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	95.94
PRK01156	895	chromosome segregation protein; Provisional	95.93
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.87
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.83
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	95.74
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.72
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.69
PRK04863	1486	mukB cell division protein MukB; Provisional	95.68
KOG0979	1072	consensus Structural maintenance of chromosome pro	95.66
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.56
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	95.54
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.52
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.46
KOG0964	1200	consensus Structural maintenance of chromosome pro	95.42
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	95.41
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.4
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.39
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.34
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.33
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.27
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.25
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	95.24
PRK04778	569	septation ring formation regulator EzrA; Provision	95.22
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.15
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.13
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.11
COG4942	420	Membrane-bound metallopeptidase [Cell division and	95.1
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.08
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	95.04
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.03
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.02
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	94.97
KOG0963	629	consensus Transcription factor/CCAAT displacement	94.97
COG2433	652	Uncharacterized conserved protein [Function unknow	94.96
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	94.91
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	94.9
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	94.9
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	94.83
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	94.81
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.77
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	94.71
COG5185	622	HEC1 Protein involved in chromosome segregation, i	94.67
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.54
PF15294	278	Leu_zip: Leucine zipper	94.5
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	94.48
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.48
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	94.47
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	94.43
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	94.38
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	94.32
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	94.22
KOG0018	1141	consensus Structural maintenance of chromosome pro	94.18
PF13514	1111	AAA_27: AAA domain	94.17
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	94.15
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	94.14
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	94.13
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	94.07
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	94.05
KOG4807	593	consensus F-actin binding protein, regulates actin	94.03
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.02
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	93.99
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	93.98
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	93.98
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	93.97
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	93.88
COG4477	570	EzrA Negative regulator of septation ring formatio	93.79
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	93.79
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	93.76
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	93.72
PRK10884	206	SH3 domain-containing protein; Provisional	93.64
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.47
PRK10884	206	SH3 domain-containing protein; Provisional	93.46
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	93.29
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	93.29
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	93.28
PF04626	132	DEC-1_C: Dec-1 protein, C terminal region; InterPr	93.26
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	93.2
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	93.16
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	93.14
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	93.06
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	93.05
PRK03947	140	prefoldin subunit alpha; Reviewed	93.05
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	93.03
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	92.96
PRK11519	719	tyrosine kinase; Provisional	92.91
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	92.89
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.88
KOG0963	629	consensus Transcription factor/CCAAT displacement	92.86
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	92.79
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	92.78
PF10186	302	Atg14: UV radiation resistance protein and autopha	92.77
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	92.77
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	92.72
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	92.71
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	92.71
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	92.64
PF07246	264	Phlebovirus_NSM: Phlebovirus nonstructural protein	92.57
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	92.57
PRK10361	475	DNA recombination protein RmuC; Provisional	92.37
COG4913	1104	Uncharacterized protein conserved in bacteria [Fun	92.34
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	92.23
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	92.17
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	92.13
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	92.12
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	92.11
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	92.1
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.09
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	92.09
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	92.01
PF15294	278	Leu_zip: Leucine zipper	91.97
COG4372	499	Uncharacterized protein conserved in bacteria with	91.96
PRK10361	475	DNA recombination protein RmuC; Provisional	91.88
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	91.87
KOG1937	521	consensus Uncharacterized conserved protein [Funct	91.76
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	91.74
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	91.73
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	91.64
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	91.45
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	91.4
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	91.33
PRK12704	520	phosphodiesterase; Provisional	91.09
PRK11546	143	zraP zinc resistance protein; Provisional	90.82
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	90.8
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	90.74
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	90.74
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	90.69
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	90.69
KOG4807	593	consensus F-actin binding protein, regulates actin	90.69
PF13094	160	CENP-Q: CENP-Q, a CENPA-CAD centromere complex sub	90.62
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	90.58
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	90.58
KOG0249	916	consensus LAR-interacting protein and related prot	90.57
KOG2991	330	consensus Splicing regulator [RNA processing and m	90.54
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	90.5
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	90.46
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	90.41
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	90.36
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	90.33
PRK03598	331	putative efflux pump membrane fusion protein; Prov	90.26
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	90.21
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	90.14
PRK00106	535	hypothetical protein; Provisional	90.04
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	89.9
PRK10869	553	recombination and repair protein; Provisional	89.89
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	89.84
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	89.84
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	89.76
PF14992	280	TMCO5: TMCO5 family	89.69
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	89.64
KOG0249	916	consensus LAR-interacting protein and related prot	89.62
PRK10698	222	phage shock protein PspA; Provisional	89.52
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	89.5
PF07794	790	DUF1633: Protein of unknown function (DUF1633); In	89.49
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.39
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	89.25
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	89.24
PRK10476	346	multidrug resistance protein MdtN; Provisional	89.23
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	89.14
KOG0288	459	consensus WD40 repeat protein TipD [General functi	89.14
PF01544	292	CorA: CorA-like Mg2+ transporter protein; InterPro	88.95
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	88.74
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	88.66
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	88.65
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	88.5
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	88.47
PF07139	302	DUF1387: Protein of unknown function (DUF1387); In	88.46
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	88.41
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	88.41
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	88.37
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	88.31
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.08
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	88.04
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	88.01
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	87.98
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	87.9
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	87.82
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	87.78
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	87.55
PRK10476	346	multidrug resistance protein MdtN; Provisional	87.54
KOG0971	1243	consensus Microtubule-associated protein dynactin	87.5
PF14992	280	TMCO5: TMCO5 family	87.43
PRK00409	782	recombination and DNA strand exchange inhibitor pr	87.42
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	87.38
smart00503	117	SynN Syntaxin N-terminal domain. Three-helix domai	87.2
PRK10246	1047	exonuclease subunit SbcC; Provisional	87.18
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	87.16
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	87.14
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	87.12
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	87.1
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	87.03
PRK09343	121	prefoldin subunit beta; Provisional	87.0
cd07632	215	BAR_APPL2 The Bin/Amphiphysin/Rvs (BAR) domain of	86.91
KOG4687	389	consensus Uncharacterized coiled-coil protein [Fun	86.75
KOG3478	120	consensus Prefoldin subunit 6, KE2 family [Posttra	86.66
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	86.66
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	86.54
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	86.49
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	86.49
KOG3433	203	consensus Protein involved in meiotic recombinatio	86.36
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	86.29
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.22
COG5293	591	Predicted ATPase [General function prediction only	86.16
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	86.08
KOG4677	554	consensus Golgi integral membrane protein [Intrace	86.06
KOG4637	464	consensus Adaptor for phosphoinositide 3-kinase [S	85.94
PRK14001	189	potassium-transporting ATPase subunit C; Provision	85.88
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	85.71
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	85.68
PRK12704	520	phosphodiesterase; Provisional	85.49
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	85.45
PRK05431	425	seryl-tRNA synthetase; Provisional	85.37
KOG4572	1424	consensus Predicted DNA-binding transcription fact	85.31
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	85.27
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	85.13
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	85.06
cd07651	236	F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology	85.02
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	84.97
KOG4403	575	consensus Cell surface glycoprotein STIM, contains	84.77
COG3206	458	GumC Uncharacterized protein involved in exopolysa	84.76
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	84.62
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	84.55
KOG0993	542	consensus Rab5 GTPase effector Rabaptin-5 [Intrace	84.41
TIGR02231	525	conserved hypothetical protein. This family consis	84.4
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	84.28
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	84.23
PF14182	79	YgaB: YgaB-like protein	84.19
PF07439	112	DUF1515: Protein of unknown function (DUF1515); In	84.11
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	84.09
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	84.04
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	83.44
KOG2991	330	consensus Splicing regulator [RNA processing and m	83.36
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	83.27
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	83.27
PRK11281	1113	hypothetical protein; Provisional	83.26
TIGR02473	141	flagell_FliJ flagellar export protein FliJ. Member	83.21
KOG1962	216	consensus B-cell receptor-associated protein and r	82.96
PRK10929	1109	putative mechanosensitive channel protein; Provisi	82.84
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	82.76
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	82.61
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	82.55
PRK10929	1109	putative mechanosensitive channel protein; Provisi	82.51
PF14817	632	HAUS5: HAUS augmin-like complex subunit 5	82.25
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	82.24
COG1322	448	Predicted nuclease of restriction endonuclease-lik	82.18
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	82.12
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	82.09
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	82.07
KOG1962	216	consensus B-cell receptor-associated protein and r	82.03
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	81.37
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	81.33
PRK13997	193	potassium-transporting ATPase subunit C; Provision	81.29
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	81.25
cd07657	237	F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin	81.1
TIGR00383	318	corA magnesium Mg(2+) and cobalt Co(2+) transport	80.86
COG0598	322	CorA Mg2+ and Co2+ transporters [Inorganic ion tra	80.78
PF05837	106	CENP-H: Centromere protein H (CENP-H); InterPro: I	80.73
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	80.62
PRK11519	719	tyrosine kinase; Provisional	80.39
PRK00315	193	potassium-transporting ATPase subunit C; Reviewed	80.11
PF04799	171	Fzo_mitofusin: fzo-like conserved region; InterPro	80.08

>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=99.95  E-value=1.8e-26  Score=237.96  Aligned_cols=210  Identities=18%  Similarity=0.239  Sum_probs=193.0

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCCCCCCch-----HHHHHHHHHHHHH---HHHHH
Q 023255            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALPPQHSPS-----LHHLEDRIAIQHS---DIQSL   61 (285)
Q Consensus         2 ~ifG~tli---------vtf~p~---rsvTleGD~ydpeG~LsGGs~p~~~~~l-----~n~Lee~L~~q~~---EIq~l   61 (285)
                      +|||||||         |||||.   |||||+||+|||+|||||||++.+..+|     ++.++.++..++.   .+++.
T Consensus       620 fvFG~tlVc~~~d~AKkVaf~~~i~~rsVTl~GDV~dP~GtlTGGs~~~~a~~L~~l~~l~~~~~~~~~~q~el~~le~e  699 (1174)
T KOG0933|consen  620 FVFGSTLVCDSLDVAKKVAFDPKIRTRSVTLEGDVYDPSGTLTGGSRSKGADLLRQLQKLKQAQKELRAIQKELEALERE  699 (1174)
T ss_pred             HHhCceEEecCHHHHHHhhcccccccceeeecCceeCCCCcccCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            59999999         999999   8899999999999999999999888887     8888888888888   67888


Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           62 LQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI  141 (285)
Q Consensus        62 L~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~  141 (285)
                      |...+..+..+..|+++|++..|+|.++..++..++..+      +          +..++.++.++..++++|.+....
T Consensus       700 L~~le~~~~kf~~l~~ql~l~~~~l~l~~~r~~~~e~~~------~----------~~~~~~~~e~v~e~~~~Ike~~~~  763 (1174)
T KOG0933|consen  700 LKSLEAQSQKFRDLKQQLELKLHELALLEKRLEQNEFHK------L----------LDDLKELLEEVEESEQQIKEKERA  763 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHhh------H----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999      8          899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhh--------------hhhhhhhhhchhhhHHHHHHHH
Q 023255          142 KQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGR--------------AAIECEKKNRASNHEQREIMEK  206 (285)
Q Consensus       142 rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~r--------------a~~e~ekk~~~e~~eq~q~mek  206 (285)
                      .+....+|..|+++|+++.++ ..++++|.++|+.+++.+...+              ..+|..++....+-.|+..|++
T Consensus       764 ~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~  843 (1174)
T KOG0933|consen  764 LKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEK  843 (1174)
T ss_pred             HHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999 9999999999988877665544              4456667777778889999999


Q ss_pred             hHHHHHHHHHHHHHHHHhHHh
Q 023255          207 NIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       207 nli~ma~e~ekLrael~n~e~  227 (285)
                      ++-++.+|+..|++.+.+++.
T Consensus       844 ~~~~l~~e~~~l~~kv~~~~~  864 (1174)
T KOG0933|consen  844 QISSLKSELGNLEAKVDKVEK  864 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHhHHh
Confidence            999999999999999998873

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=99.45  E-value=6.2e-11  Score=126.64  Aligned_cols=33  Identities=12%  Similarity=0.275  Sum_probs=27.9

Q ss_pred             cccCceEEE---------eecCCCcccccCCccCCCCCCCCCC
Q 023255            2 NIYGNSLHT---------TLHNHSQFTMSGRRVLREPPLSTRA   35 (285)
Q Consensus         2 ~ifG~tliv---------tf~p~rsvTleGD~ydpeG~LsGGs   35 (285)
                      .+||++|||         + ++-++||++||+++|.|+++||+
T Consensus       618 ~~lg~~~v~~~l~~a~~~~-~~~~~vTldG~~~~~~G~~tgG~  659 (1164)
T TIGR02169       618 YVFGDTLVVEDIEAARRLM-GKYRMVTLEGELFEKSGAMTGGS  659 (1164)
T ss_pred             HHCCCeEEEcCHHHHHHHh-cCCcEEEeCceeEcCCcCccCCC
Confidence            489999982         2 23399999999999999999997

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

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

Probab=99.36  E-value=2.8e-10  Score=123.92  Aligned_cols=55  Identities=18%  Similarity=0.209  Sum_probs=39.1

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCCCCCCch----HHHHHHHHHHHHH
Q 023255            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALPPQHSPS----LHHLEDRIAIQHS   56 (285)
Q Consensus         2 ~ifG~tli---------vtf~p~---rsvTleGD~ydpeG~LsGGs~p~~~~~l----~n~Lee~L~~q~~   56 (285)
                      ++||+|+|         +++...   |.|||+||+++|+|+++||++...+++.    +..|+.++.....
T Consensus       611 ~~l~~t~Iv~~l~~A~~l~~~~~~~~riVTl~G~~~~~~G~~tGG~~~~~~~~~~~~~l~~l~~~l~~~~~  681 (1163)
T COG1196         611 FVLGDTLVVDDLEQARRLARKLRIKYRIVTLDGDLVEPSGSITGGSRNKRSSLAQKRELKELEEELAELEA  681 (1163)
T ss_pred             HHhCCeEEecCHHHHHHHHHhcCCCceEEecCCcEEeCCeeeecCCccccchhhHHHHHHHHHHHHHHHHH
Confidence            58999999         455552   9999999999999999999765544422    2234455544444

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=98.91  E-value=2e-07  Score=99.59  Aligned_cols=34  Identities=9%  Similarity=0.143  Sum_probs=29.5

Q ss_pred             ccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCC
Q 023255            3 IYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRAL   36 (285)
Q Consensus         3 ifG~tli---------vtf~p~---rsvTleGD~ydpeG~LsGGs~   36 (285)
                      +.+||||         |+|-+.   |-|||+|-..+++||||||..
T Consensus       714 aLrdtLV~d~LeQAtRiaygk~rr~RVvTL~G~lIe~SGtmtGGG~  759 (1293)
T KOG0996|consen  714 ALRDTLVADNLEQATRIAYGKDRRWRVVTLDGSLIEKSGTMTGGGK  759 (1293)
T ss_pred             HHhhhhhhcCHHHHHHHhhcCCCceEEEEecceeecccccccCCCC
Confidence            4578888         888887   799999999999999999843

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.80  E-value=1.6e-06  Score=91.43  Aligned_cols=155  Identities=17%  Similarity=0.270  Sum_probs=90.6

Q ss_pred             cccCceEEE---------eecCC-CcccccCCccCCCCCCCCCCCCCCCCch-------------------HHHHHHHHH
Q 023255            2 NIYGNSLHT---------TLHNH-SQFTMSGRRVLREPPLSTRALPPQHSPS-------------------LHHLEDRIA   52 (285)
Q Consensus         2 ~ifG~tliv---------tf~p~-rsvTleGD~ydpeG~LsGGs~p~~~~~l-------------------~n~Lee~L~   52 (285)
                      .|||+|+||         +=.-. .||||+||..+..|+|+||-.....+-|                   ++.++.++.
T Consensus       616 ~Vfgktivcrdl~qa~~~ak~~~ln~ITl~GDqvskkG~lTgGy~D~krsrLe~~k~~~~~~~~~~~l~~~L~~~r~~i~  695 (1200)
T KOG0964|consen  616 HVFGKTIVCRDLEQALRLAKKHELNCITLSGDQVSKKGVLTGGYEDQKRSRLELLKNVNESRSELKELQESLDEVRNEIE  695 (1200)
T ss_pred             HHhCceEEeccHHHHHHHHHhcCCCeEEeccceecccCCccccchhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            489999992         11111 8999999999999999999653222222                   444455555


Q ss_pred             HHHHHHHHHHHHhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhHHH-----
Q 023255           53 IQHSDIQSLLQDNQR-------LAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLDAE-----  117 (285)
Q Consensus        53 ~q~~EIq~lL~dnqr-------la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kleae-----  117 (285)
                      ...++|..+..+.|+       .-..|..|+++++..+.+.+.++..+.-..-.   -....+.+-+..--+|++     
T Consensus       696 ~~~~~i~q~~~~~qk~e~~~~~~~~~~~~l~~e~~~~k~e~~~v~~s~~~k~~~Le~i~~~l~~~~~~~~~~e~el~sel  775 (1200)
T KOG0964|consen  696 DIDQKIDQLNNNMQKVENDRNAFKREHEKLKRELNTIKGEKSRVQESLEPKGKELEEIKTSLHKLESQSNYFESELGSEL  775 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHhHHH
Confidence            554455555555444       44556666666666666666555444322111   011122233333333444     


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 --------LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (285)
Q Consensus       118 --------lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL  156 (285)
                              ..++..+..+|.+++.++..+...+.++...+..++..|
T Consensus       776 ~sqLt~ee~e~l~kLn~eI~~l~~kl~~~~~er~~~~~rk~~le~~l  822 (1200)
T KOG0964|consen  776 FSQLTPEELERLSKLNKEINKLSVKLRALREERIDIETRKTALEANL  822 (1200)
T ss_pred             HhhcCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    356677777888888877777777777666555555443

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.67  E-value=1.7e-05  Score=84.85  Aligned_cols=11  Identities=18%  Similarity=-0.100  Sum_probs=6.9

Q ss_pred             ccCCccCCCCC
Q 023255           20 MSGRRVLREPP   30 (285)
Q Consensus        20 leGD~ydpeG~   30 (285)
                      ++|+++.|+|.
T Consensus       643 ~~g~~v~~~G~  653 (1179)
T TIGR02168       643 PGYRIVTLDGD  653 (1179)
T ss_pred             CCceEEecCCE
Confidence            46666666663

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

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.43  E-value=6e-05  Score=80.52  Aligned_cols=36  Identities=14%  Similarity=0.142  Sum_probs=32.4

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCC
Q 023255            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALP   37 (285)
Q Consensus         2 ~ifG~tli---------vtf~p~---rsvTleGD~ydpeG~LsGGs~p   37 (285)
                      .+|||+||         ++|...   +.|||||-.|--+|.+||||..
T Consensus       599 ~a~gn~Lvcds~e~Ar~l~y~~~~r~k~valdGtl~~ksGlmsGG~s~  646 (1141)
T KOG0018|consen  599 FACGNALVCDSVEDARDLAYGGEIRFKVVALDGTLIHKSGLMSGGSSG  646 (1141)
T ss_pred             HHhccceecCCHHHHHHhhhcccccceEEEeeeeEEeccceecCCccC
Confidence            37999999         888777   8999999999999999999965

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.36  E-value=0.00015  Score=77.73  Aligned_cols=56  Identities=14%  Similarity=0.079  Sum_probs=33.0

Q ss_pred             ccCceEEEee------------cCCCcccccCCccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHH
Q 023255            3 IYGNSLHTTL------------HNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQS   60 (285)
Q Consensus         3 ifG~tlivtf------------~p~rsvTleGD~ydpeG~LsGGs~p~~~~~l~n~Lee~L~~q~~EIq~   60 (285)
                      +||++.|||-            ..+..||.+|+...+.|..+||++.......  .++.++.....++..
T Consensus       621 ~~~~~~ivt~l~~a~~~~~~~~~~g~~v~~~G~~~~~gg~~~~~~~~~~~~~~--~l~~e~~~l~~~~~~  688 (1179)
T TIGR02168       621 LLGGVLVVDDLDNALELAKKLRPGYRIVTLDGDLVRPGGVITGGSAKTNSSIL--ERRREIEELEEKIEE  688 (1179)
T ss_pred             HhCCceEeCCHHHHHHHHHHcCCCceEEecCCEEEcCCceEecCccccccchh--hHHHHHHHHHHHHHH
Confidence            4777777761            1348899999988888888776532222222  444444444443333

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

>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=98.26  E-value=0.0012  Score=67.03  Aligned_cols=171  Identities=19%  Similarity=0.300  Sum_probs=97.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHA  126 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~  126 (285)
                      |+.++.....+...++..+..|-.....|+.++...+.+|.........+....    -++          ....+.++.
T Consensus       141 lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~----kel----------~~~~e~l~~  206 (546)
T PF07888_consen  141 LQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQ----KEL----------TESSEELKE  206 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH----------HHHHHHHHH
Confidence            556666666677777777777777777777777777777777666655554432    122          223444455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH----HHHHhh-------hhhhhhhhhhch
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETER----QEIHKG-------RAAIECEKKNRA  195 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~Lr----qEl~~~-------ra~~e~ekk~~~  195 (285)
                      |...+..+..++.....+|..+|..+++...+......+++.+..+.+.++    +.|+..       ......-+.-+.
T Consensus       207 E~~~L~~q~~e~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~~eLk~rLk~~~~~~~~~~~~~~~~~~e~e  286 (546)
T PF07888_consen  207 ERESLKEQLAEARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLEAELKQRLKETVVQLKQEETQAQQLQQENE  286 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            555555555555555555555555555544333333334444444443333    222221       111112223344


Q ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH-hhHHH
Q 023255          196 SNHEQREIMEKNIISVAQQIERLQAELANAE-KRARA  231 (285)
Q Consensus       196 e~~eq~q~meknli~ma~e~ekLrael~n~e-~r~~a  231 (285)
                      .+.+|++.++.-+-+-=++++.|+.||..+- .|.|.
T Consensus       287 ~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt  323 (546)
T PF07888_consen  287 ALKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRT  323 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5778888888888888889999999987764 44444

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 [].

>PRK11637 AmiB activator; Provisional

Probab=98.15  E-value=0.0081  Score=59.23  Aligned_cols=75  Identities=15%  Similarity=0.188  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHH
Q 023255          135 IEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII  209 (285)
Q Consensus       135 iq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli  209 (285)
                      +..+...+.+|..+.+.++.++.+.......+..-+++++..+.+.+.....++-+++.....+.+++.-++.|-
T Consensus       172 l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~  246 (428)
T PRK11637        172 IAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLR  246 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444443344444444444444444444444444444444444444444444443

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

Probab=98.14  E-value=0.0022  Score=67.32  Aligned_cols=203  Identities=23%  Similarity=0.326  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhhhhhHh--HHHHHHHHHHHh---
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAAT-------HVALKQELSLAEQELRHLSSVAASVKAE--RDAEVRELYEKS---  111 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~-------h~~LqqEL~laqhEL~~l~~~i~~~~ae--~e~~~r~L~~k~---  111 (285)
                      ...||..++.+..||+..-.-.+.|-.+       ...++.+|...++|...|+.++..+...  +|.+-...+||-   
T Consensus       420 ~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~e  499 (697)
T PF09726_consen  420 ISRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAE  499 (697)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3467777777766655443333333222       4567777777777777777777666555  333333333333   


Q ss_pred             -----hhhHHHHHH--------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          112 -----LKLDAELRV--------------------------IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       112 -----~kleaelr~--------------------------~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                           ..+|+.|..                          .|..|....+++.|+++|..+.+....++..+++++.+++
T Consensus       500 E~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr  579 (697)
T PF09726_consen  500 ERRQRASLEKQLQEERKARKEEEEKAARALAQAQATRQECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELR  579 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 333443311                          1235556666777777777777777777777777776544


Q ss_pred             h---h-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH-------HHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023255          161 D---E-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE-------QREIMEKNIISVAQQIERLQAELANAEKRA  229 (285)
Q Consensus       161 ~---d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e-------q~q~meknli~ma~e~ekLrael~n~e~r~  229 (285)
                      .   + ..-...|...|..|+.+-.+++...-.|.+-+.|+.-       |+..-+.-+..==+||.-|++.|+-.-   
T Consensus       580 ~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtriKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~~~---  656 (697)
T PF09726_consen  580 KYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRIKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQLL---  656 (697)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence            3   2 3457888888899999999999999999998888764       556666666666779999999885432   


Q ss_pred             HHHHHhhhcCCCCcccCCCCCCCCCCC
Q 023255          230 RAAAAAAAVNPSTSYAASYGNPDPGFG  256 (285)
Q Consensus       230 ~a~~~a~~~~~~~~y~~~~gn~~~~~~  256 (285)
                       |.      -|+.+|+.+.+.|...|.
T Consensus       657 -av------~p~~~~~~~~~~~~~~~~  676 (697)
T PF09726_consen  657 -AV------MPSDSYCSAITPPTPHYS  676 (697)
T ss_pred             -hc------CCccccccCCCCCCccch
Confidence             22      355667655554444454

; GO: 0016021 integral to membrane

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.09  E-value=0.0022  Score=69.11  Aligned_cols=101  Identities=20%  Similarity=0.297  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHH
Q 023255          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~  201 (285)
                      .++..+..++..+......+..++..++.++.+++.+    .+++..++.+++.++.++..+...++.-.+...+.-.+.
T Consensus       392 ~~l~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l  471 (1164)
T TIGR02169       392 EKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQEL  471 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444444444444444444444433322    223344444444444444444444444433333444444


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          202 EIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       202 q~meknli~ma~e~ekLrael~n~e  226 (285)
                      ..+...+-.+..++.+++.++...+
T Consensus       472 ~~~~~~l~~l~~~l~~l~~~~~~l~  496 (1164)
T TIGR02169       472 YDLKEEYDRVEKELSKLQRELAEAE  496 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555554443

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

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

Probab=97.70  E-value=0.0098  Score=64.34  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=16.8

Q ss_pred             Eeec--CC---CcccccCCccCCCCC
Q 023255           10 TTLH--NH---SQFTMSGRRVLREPP   30 (285)
Q Consensus        10 vtf~--p~---rsvTleGD~ydpeG~   30 (285)
                      ++|+  |.   ...|++||.-.-.|+
T Consensus       612 m~s~~~p~n~~~aytldg~~~~~~g~  637 (1074)
T KOG0250|consen  612 MQSDKPPANVTKAYTLDGRQIFAGGP  637 (1074)
T ss_pred             HhcCCCCccceeeeccCccccccCCC
Confidence            7888  66   899999998776666

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

Probab=97.70  E-value=0.017  Score=54.18  Aligned_cols=104  Identities=17%  Similarity=0.315  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      ..+.....+|..+.+.|..+......+..+.+....++-+=-.|++.+......++.++..++.++......+.+|..+|
T Consensus        47 ~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i  126 (312)
T PF00038_consen   47 RIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQI  126 (312)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHH
Confidence            34455566666666666666666666666666656666666678888889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhh-hccHHHHHHHH
Q 023255          150 NEINGDLAKARDE-SKDMAAIKAEI  173 (285)
Q Consensus       150 q~LekDL~~~~~d-~qkl~aLkaEI  173 (285)
                      +.|..+|.-.... .+.+.+|+..+
T Consensus       127 ~~L~eEl~fl~~~heeEi~~L~~~~  151 (312)
T PF00038_consen  127 QSLKEELEFLKQNHEEEIEELREQI  151 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTSTT-
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhhcc
Confidence            9999988866644 44454444333

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 ....

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

Probab=97.65  E-value=0.049  Score=52.09  Aligned_cols=110  Identities=25%  Similarity=0.360  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHH-HHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMA-AIKAEIETERQEIHKGRAAIECEKKNRASN  197 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~-aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~  197 (285)
                      +..+.|+.+...+...++.+.....++...-+.|+.++..++.-...+. .-+.+|+.+|++|......|+.-|+.-.++
T Consensus       156 ~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el  235 (325)
T PF08317_consen  156 ENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAEL  235 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456677777777777777777777777777777777777665433222 345677888888888888888888888899


Q ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          198 HEQREIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       198 ~eq~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                      -.+++..+..+-.+..+..+|+++|+++++.
T Consensus       236 ~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~  266 (325)
T PF08317_consen  236 QEELEELEEKIEELEEQKQELLAEIAEAEKI  266 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999998844

>PRK09039 hypothetical protein; Validated

Probab=97.62  E-value=0.0052  Score=59.35  Aligned_cols=80  Identities=13%  Similarity=0.236  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHH----HHH
Q 023255          143 QEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV----AQQ  214 (285)
Q Consensus       143 qeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~m----a~e  214 (285)
                      .++..++..+..+|...+..    ..++..|+.+|+.||.++..+.++++.-+....+.-.+...+++.|-..    ..|
T Consensus       112 ~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~  191 (343)
T PRK09039        112 AAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQE  191 (343)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566666667777665543    5668999999999999999999999999999999999999999888766    447


Q ss_pred             HHHHHHHH
Q 023255          215 IERLQAEL  222 (285)
Q Consensus       215 ~ekLrael  222 (285)
                      ++++|.++
T Consensus       192 l~~~~~~~  199 (343)
T PRK09039        192 LNRYRSEF  199 (343)
T ss_pred             HHHhHHHH
Confidence            78888777

>PRK11637 AmiB activator; Provisional

Probab=97.60  E-value=0.089  Score=51.93  Aligned_cols=55  Identities=15%  Similarity=0.161  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHH----HHHhHHHHHHHHHHHHHHHH
Q 023255          169 IKAEIETERQEIHKGRAAIECEKKNRASNHEQREI----MEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       169 LkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~----meknli~ma~e~ekLrael~  223 (285)
                      -+++++.+..++....+.++-+++.+...+.+++.    -++-+..+.++..+|.+.|+
T Consensus       192 ~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~  250 (428)
T PRK11637        192 KQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIA  250 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444443333333322    22334444445555555554

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

Probab=97.55  E-value=0.011  Score=56.49  Aligned_cols=33  Identities=12%  Similarity=0.287  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        67 rla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      .|...+..|+++.......+..+......+...
T Consensus       153 ~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~  185 (325)
T PF08317_consen  153 GLEENLELLQEDYAKLDKQLEQLDELLPKLRER  185 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555544443

>PRK03918 chromosome segregation protein; Provisional

Probab=97.55  E-value=0.048  Score=57.93  Aligned_cols=97  Identities=21%  Similarity=0.276  Sum_probs=57.4

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhhccHHHHHHHHHHHHHHHHhhhh
Q 023255          108 YEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR--DESKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       108 ~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~--~d~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      +++..+++......+.+..++..++.++..+.....++..++..+...+.+..  -+...+..++.+++.++.++..++.
T Consensus       601 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~~~~l~~~l~~l~~  680 (880)
T PRK03918        601 YNEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRA  680 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555666667777777777777777777777777777777777777777665  2234445555555555555555544


Q ss_pred             hhhhhhhhchhhhHHHHHH
Q 023255          186 AIECEKKNRASNHEQREIM  204 (285)
Q Consensus       186 ~~e~ekk~~~e~~eq~q~m  204 (285)
                      .++.-++.--++.++.+..
T Consensus       681 ~~~~l~~~i~~l~~~i~~~  699 (880)
T PRK03918        681 ELEELEKRREEIKKTLEKL  699 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444333333333333

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=97.52  E-value=0.051  Score=55.28  Aligned_cols=116  Identities=22%  Similarity=0.321  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      .....|+.+|..+..++..|+..+....... +.-..  +...+....-..+..++.||.+++..+++.......|...+
T Consensus       235 ~~~k~Le~kL~~a~~~l~~Lq~El~~~~~~~-l~~~~--~~~~~~~~~~~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~v  311 (522)
T PF05701_consen  235 EAAKDLESKLAEASAELESLQAELEAAKESK-LEEEA--EAKEKSSELQSSLASAKKELEEAKKELEKAKEEASSLRASV  311 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhH--HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555666666666666665555444411 11000  00001111112255666666666666666666666666666


Q ss_pred             HHHHHHHHHHhhh-----------hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          150 NEINGDLAKARDE-----------SKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       150 q~LekDL~~~~~d-----------~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .+|..||.+.+.+           ...+..|..++..++.+|.-++..-.
T Consensus       312 esL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~  361 (522)
T PF05701_consen  312 ESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEE  361 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhc
Confidence            6666666665544           23345666666666666655554443

Several sequences in this family are described as being myosin heavy chain-like.

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

Probab=97.52  E-value=0.041  Score=59.70  Aligned_cols=101  Identities=15%  Similarity=0.274  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~  197 (285)
                      +....++.++..+...++++......|..+|..++++.   ..+ .+++++...+++.|++++.+++..+.-.+....+.
T Consensus       351 re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~---~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~  427 (1074)
T KOG0250|consen  351 REVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT---NNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEV  427 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444555555555555555555555554444   112 45556666666666666666666555555555555


Q ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          198 HEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       198 ~eq~q~meknli~ma~e~ekLrael  222 (285)
                      .+-...++.++-+.-.++-.||--+
T Consensus       428 ~~~~~~~~ee~~~i~~~i~~l~k~i  452 (1074)
T KOG0250|consen  428 KEKAKEEEEEKEHIEGEILQLRKKI  452 (1074)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            5555555555544444444444333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.48  E-value=0.073  Score=56.54  Aligned_cols=66  Identities=17%  Similarity=0.398  Sum_probs=33.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH
Q 023255          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQ  178 (285)
Q Consensus       113 kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~Lrq  178 (285)
                      .++.++...+..+.++..+..+++.+......+..+++.+++++.++.....++..+..+++.+..
T Consensus       225 ~~~~~l~~l~~~~~~~~~l~~~~~~l~~~~~~l~~~i~~l~~el~~l~~~l~~l~~~~~~~~~l~~  290 (880)
T PRK03918        225 KLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKE  290 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555555555555555555555555555555555555554444444444444444333

>PRK02224 chromosome segregation protein; Provisional

Probab=97.47  E-value=0.072  Score=56.77  Aligned_cols=25  Identities=16%  Similarity=0.223  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255           71 THVALKQELSLAEQELRHLSSVAAS   95 (285)
Q Consensus        71 ~h~~LqqEL~laqhEL~~l~~~i~~   95 (285)
                      ....+++++.....++..+...+..
T Consensus       207 ~l~~~~~~l~el~~~i~~~~~~~~~  231 (880)
T PRK02224        207 RLNGLESELAELDEEIERYEEQREQ  231 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444333

>TIGR00606 rad50 rad50

Probab=97.35  E-value=0.052  Score=60.74  Aligned_cols=106  Identities=8%  Similarity=0.119  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhh---hh-hhhhhhch
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRA---AI-ECEKKNRA  195 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra---~~-e~ekk~~~  195 (285)
                      ++.++.++.+++.+++++......|..++..+..+..++... ..+...+..++..++..+..+..   .| +|...+..
T Consensus       890 L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~y~~~~~~  969 (1311)
T TIGR00606       890 LVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIENKIQDGKD  969 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCH
Confidence            666667777777777777777777777777777777776666 66777777777776665554433   33 34444433


Q ss_pred             hhhH-----------HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          196 SNHE-----------QREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       196 e~~e-----------q~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      +.++           ++..++..+-.+..++..|+.+|.+..
T Consensus       970 ~qL~~~e~el~~~~~~ie~le~e~~~l~~~i~~l~kel~~~~ 1011 (1311)
T TIGR00606       970 DYLKQKETELNTVNAQLEECEKHQEKINEDMRLMRQDIDTQK 1011 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3222           233444444555555555555555554

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

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

Probab=97.25  E-value=0.16  Score=56.41  Aligned_cols=32  Identities=13%  Similarity=0.355  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGD  155 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekD  155 (285)
                      ++.++..+..++.........+..+++.++..
T Consensus       381 ~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~  412 (1163)
T COG1196         381 LREELAELEAELAEIRNELEELKREIESLEER  412 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333

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

Probab=97.20  E-value=0.34  Score=52.14  Aligned_cols=183  Identities=13%  Similarity=0.210  Sum_probs=112.7

Q ss_pred             HHHHHHHHHHHHH----------HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhh
Q 023255           44 LHHLEDRIAIQHS----------DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLK  113 (285)
Q Consensus        44 ~n~Lee~L~~q~~----------EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~k  113 (285)
                      +.-|.++|+....          |+.+---.++.+-.=...|.+.....+.+|.+...........+|...+++-|-.--
T Consensus       233 vrdLtEkLetlR~kR~EDk~Kl~ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~  312 (1243)
T KOG0971|consen  233 VRDLTEKLETLRLKRAEDKAKLKELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADA  312 (1243)
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666777766554          222222223333333333344444444445554444555555566666666555544


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----ccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDES-----KDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~-----qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      ||.--=.-|-.+...+.|+.|+..++....+|+.++.-|..||.+-.+|+     -+.+.|+..-..||.-+.|+|-.--
T Consensus       313 iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA  392 (1243)
T KOG0971|consen  313 IEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSA  392 (1243)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcch
Confidence            44321111222334455788888888899999999999999999877764     3467788888889999999998888


Q ss_pred             hhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          189 CEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       189 ~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      .||--+......+...-.-+--+-|--|+|..++.++|
T Consensus       393 ~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aE  430 (1243)
T KOG0971|consen  393 SEKQDHQKLQKELEKKNSELEELRRQKERLSRELDQAE  430 (1243)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            88876666555444433344445556677777777776

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

Probab=97.19  E-value=0.15  Score=48.41  Aligned_cols=125  Identities=18%  Similarity=0.245  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           81 LAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIE---SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (285)
Q Consensus        81 laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e---~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~  157 (285)
                      ..+.+++.|........-.- ..-+.+++++..|+.++....   ....++..+.+++..+.....++..+|+.|..+.+
T Consensus       111 ~ler~i~~Le~~~~T~~L~~-e~E~~lvq~I~~L~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaq  189 (294)
T COG1340         111 SLEREIERLEKKQQTSVLTP-EEERELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELANEAQ  189 (294)
T ss_pred             HHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555544444333222 122558888888888876554   45556667778888888888888888888888888


Q ss_pred             HHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHH
Q 023255          158 KARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (285)
Q Consensus       158 ~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mek  206 (285)
                      .++.+    -++...++.+.+.|+.++...+..++..............-.++
T Consensus       190 e~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elre~~k  242 (294)
T COG1340         190 EYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELRELEK  242 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            77765    56789999999999999999999999888877777666665554

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

Probab=97.16  E-value=0.24  Score=50.74  Aligned_cols=58  Identities=17%  Similarity=0.288  Sum_probs=48.5

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHH----HHHHHHHH
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ----QIERLQAE  221 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~----e~ekLrae  221 (285)
                      ..+..|++|+..|+.+|.++|+..+-|.-.+.++--+.|.+.+.|--|-+    ||.-+|.-
T Consensus       169 ~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~~~  230 (546)
T KOG0977|consen  169 DELKRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEEERRK  230 (546)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            34577888889999999999999999999999999999999999888874    66655543

>PRK02224 chromosome segregation protein; Provisional

Probab=97.15  E-value=0.15  Score=54.29  Aligned_cols=29  Identities=14%  Similarity=0.181  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           66 QRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        66 qrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      ..+-.....++.++...+.++..+...+.
T Consensus       209 ~~~~~~l~el~~~i~~~~~~~~~l~~~l~  237 (880)
T PRK02224        209 NGLESELAELDEEIERYEEQREQARETRD  237 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444433333

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

Probab=97.13  E-value=0.1  Score=47.10  Aligned_cols=100  Identities=23%  Similarity=0.389  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------hhh---------hccHHHHHHHHHHHHHHHH-
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA-----------RDE---------SKDMAAIKAEIETERQEIH-  181 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~-----------~~d---------~qkl~aLkaEIe~LrqEl~-  181 (285)
                      ....|+....+++.-+......|..++..|..++..+           ..|         ..-+..|+.+++.|+.||. 
T Consensus        70 ~ce~ELqr~~~Ea~lLrekl~~le~El~~Lr~~l~~~~~~~~~~~~l~~~deak~~~~~~~~~~~~l~~e~erL~aeL~~  149 (202)
T PF06818_consen   70 VCENELQRKKNEAELLREKLGQLEAELAELREELACAGRLKRQCQLLSESDEAKAQRQAGEDELGSLRREVERLRAELQR  149 (202)
T ss_pred             HhHHHHHHHhCHHHHhhhhhhhhHHHHHHHHHHHHhhccchhhhccccccchhHHhhccccccchhHHHHHHHHHHHHHH
Confidence            3344444444444444444444555555555555554           111         1124556666666666666 


Q ss_pred             ------hhhhhhhhhhhhchhhhHHH----HHHHHhHHHHHHHHHHHHHHH
Q 023255          182 ------KGRAAIECEKKNRASNHEQR----EIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       182 ------~~ra~~e~ekk~~~e~~eq~----q~meknli~ma~e~ekLrael  222 (285)
                            ..+..|+.|+..-.+--+.+    +-+-.|+|-|-+--..|-.+|
T Consensus       150 er~~~e~q~~~Fe~ER~~W~eEKekVi~YQkQLQ~nYvqMy~rn~~LE~~l  200 (202)
T PF06818_consen  150 ERQRREEQRSSFEQERRTWQEEKEKVIRYQKQLQQNYVQMYQRNQALEREL  200 (202)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                  45668999988876665543    556779999987555544443

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.12  E-value=0.23  Score=49.94  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhh
Q 023255          167 AAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       167 ~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      ..|...++.++.++..+...+.
T Consensus       302 ~~l~d~i~~l~~~l~~l~~~i~  323 (562)
T PHA02562        302 TKIKDKLKELQHSLEKLDTAID  323 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444433

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

Probab=97.07  E-value=0.24  Score=46.43  Aligned_cols=127  Identities=23%  Similarity=0.368  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH
Q 023255           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQEL--------SLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE  117 (285)
Q Consensus        46 ~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL--------~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleae  117 (285)
                      .|-++|+..-..++.+=..|+.|-.....++..-        .....+|.-+...+..+..++           .+|+.+
T Consensus         8 ~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~ek-----------a~l~~e   76 (312)
T PF00038_consen    8 SLNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEK-----------ARLELE   76 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHH-----------HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHh-----------hHHhhh
Confidence            4555666665566666666666666665555542        122333333333333333333           455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                         ++.++.++..++.........++.+..++..+.+++.....   .-..|..+|+.|+.+|.-++..++-
T Consensus        77 ---~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~---~r~~le~~i~~L~eEl~fl~~~hee  142 (312)
T PF00038_consen   77 ---IDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETL---ARVDLENQIQSLKEELEFLKQNHEE  142 (312)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhh---hHhHHHHHHHHHHHHHHHHHhhhhh
Confidence               67777888888888888888888888888888887776432   2233444444444444444443333

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 ....

>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=97.07  E-value=0.23  Score=50.93  Aligned_cols=158  Identities=20%  Similarity=0.303  Sum_probs=82.7

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhh--------HH--HH-----------
Q 023255           60 SLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKL--------DA--EL-----------  118 (285)
Q Consensus        60 ~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kl--------ea--el-----------  118 (285)
                      ++-.++..+-.....++..|++.+++...|..-+.++.+-+|--|.+|+.-....        ++  ++           
T Consensus       280 ~~~~e~e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt~aeLh~aRLe~aql~~qLad~~l~lke~~~q~~qEk  359 (546)
T PF07888_consen  280 QLQQENEALKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRTMAELHQARLEAAQLKLQLADASLELKEGRSQWAQEK  359 (546)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555666666666677777777777777777776766666665433211        00  11           


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-h-ccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          119 ----RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-S-KDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       119 ----r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~-qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                          ...+..+.+|.+|..+++.+...-++=..+-+.|+++|.+.+ | + -+|.+.+.+|..|+..+.-       -.|
T Consensus       360 ~~l~~~~e~~k~~ie~L~~el~~~e~~lqEer~E~qkL~~ql~ke~-D~n~vqlsE~~rel~Elks~lrv-------~qk  431 (546)
T PF07888_consen  360 QALQHSAEADKDEIEKLSRELQMLEEHLQEERMERQKLEKQLGKEK-DCNRVQLSENRRELQELKSSLRV-------AQK  431 (546)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHH-------HHH
Confidence                112334445555555555555555555555566666665533 3 2 2455555555444443333       233


Q ss_pred             hchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023255          193 NRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (285)
Q Consensus       193 ~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~  232 (285)
                      -.-.+.+..|.       +.+.|++|+..|.....--|..
T Consensus       432 EKEql~~EkQe-------L~~yi~~Le~r~~~~~~~~~~~  464 (546)
T PF07888_consen  432 EKEQLQEEKQE-------LLEYIERLEQRLDKVADEKWKE  464 (546)
T ss_pred             HHHHHHHHHHH-------HHHHHHHHHHHHHHhhhhhhhc
Confidence            33333333333       5667777887775554333443

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 [].

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

Probab=97.06  E-value=0.065  Score=49.57  Aligned_cols=37  Identities=27%  Similarity=0.344  Sum_probs=18.9

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           58 IQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        58 Iq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      |+.+-....|+.......+.+|..++-++..++..+.
T Consensus        12 iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~   48 (239)
T COG1579          12 IQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALE   48 (239)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555555555555555544444

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.06  E-value=0.21  Score=44.71  Aligned_cols=106  Identities=16%  Similarity=0.197  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHH----HHHHHHHHHHHHHhhhhhh-hhhh----
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAA----IKAEIETERQEIHKGRAAI-ECEK----  191 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~a----LkaEIe~LrqEl~~~ra~~-e~ek----  191 (285)
                      ++.+|..+..+..+-..|.+....+..+.+.|..+|..++..+.|+..    ++..++.|..+-..+...+ +||.    
T Consensus        69 ledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~  148 (193)
T PF14662_consen   69 LEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESLICQ  148 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            455555555555555566666666666666666666666655444422    2222222222222222222 4443    


Q ss_pred             --hhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          192 --KNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       192 --k~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                        ..-.+..-|.....+-+.....=.+-||+|+..-|
T Consensus       149 ~da~l~e~t~~i~eL~~~ieEy~~~teeLR~e~s~LE  185 (193)
T PF14662_consen  149 RDAILSERTQQIEELKKTIEEYRSITEELRLEKSRLE  185 (193)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              22234555666666666777777777888876655

>TIGR00606 rad50 rad50

Probab=97.01  E-value=0.31  Score=54.68  Aligned_cols=57  Identities=21%  Similarity=0.263  Sum_probs=41.8

Q ss_pred             HHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH
Q 023255          175 TERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA  233 (285)
Q Consensus       175 ~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~~  233 (285)
                      .++++..+++..+.--...++....+++.++..+-.+-.|++.  .+..|+++|.+-+.
T Consensus      1051 ~~~~e~~~l~~~~~~l~~~~a~l~g~~k~le~qi~~l~~eL~e--~~yk~a~~ryrka~ 1107 (1311)
T TIGR00606      1051 QMKQEHQKLEENIDLIKRNHVLALGRQKGYEKEIKHFKKELRE--PQFRDAEEKYREMM 1107 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--hHHHHHHHHHHHHH
Confidence            3445555555555556677888889999999999999999855  67788887766554

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.97  E-value=0.12  Score=49.51  Aligned_cols=33  Identities=24%  Similarity=0.395  Sum_probs=13.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255           61 LLQDNQRLAATHVALKQELSLAEQELRHLSSVA   93 (285)
Q Consensus        61 lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i   93 (285)
                      +..+.+.+-.-.-.|++..+..++++..+.+..
T Consensus       163 L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~  195 (312)
T smart00787      163 LMKELELLNSIKPKLRDRKDALEEELRQLKQLE  195 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            333333333333344444444444444443333

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.94  E-value=0.48  Score=54.95  Aligned_cols=37  Identities=22%  Similarity=0.359  Sum_probs=15.4

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           58 IQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        58 Iq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      +..+...-.-+-..+..|..+|+..+.++..+.....
T Consensus       980 ~~kL~kekk~lEe~~~~l~~~l~~~eek~~~l~k~~~ 1016 (1930)
T KOG0161|consen  980 ISKLSKEKKELEERIRELQDDLQAEEEKAKSLNKAKA 1016 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333344444444444444444444444333

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

Probab=96.93  E-value=0.49  Score=46.72  Aligned_cols=156  Identities=19%  Similarity=0.238  Sum_probs=95.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           59 QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKL  138 (285)
Q Consensus        59 q~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l  138 (285)
                      +.--.+.+..-.....+++++.-++++|.++..+..+.++.-    --|.+.-.+++++..+   +-++-.+|+..+..|
T Consensus       112 ~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl----~~l~~qr~ql~aq~qs---l~a~~k~LQ~s~~Ql  184 (499)
T COG4372         112 QKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRL----KTLAEQRRQLEAQAQS---LQASQKQLQASATQL  184 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            333344444555667778888888888888888877776652    2388888999999655   556666667677788


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH-------HHHhhhhhhhhh---hhhc----hhhhHHHHHH
Q 023255          139 CVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQ-------EIHKGRAAIECE---KKNR----ASNHEQREIM  204 (285)
Q Consensus       139 ~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~Lrq-------El~~~ra~~e~e---kk~~----~e~~eq~q~m  204 (285)
                      +....+|...-.+|+++-..+..-...+.....|+-...+       +++..-+-|..-   -.++    .+.-+++|..
T Consensus       185 k~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq~~q~i~qrd~~i~q~~q~iaar~e~I~~re~~lq~l  264 (499)
T COG4372         185 KSQVLDLKLRSAQIEQEAQNLATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRERERQLQRL  264 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            8888888877777777766655444444444444433332       222222222111   1111    2334566777


Q ss_pred             HHhHHHHHHHHHHHHHH
Q 023255          205 EKNIISVAQQIERLQAE  221 (285)
Q Consensus       205 eknli~ma~e~ekLrae  221 (285)
                      |.-...+-+||+.|.+=
T Consensus       265 Et~q~~leqeva~le~y  281 (499)
T COG4372         265 ETAQARLEQEVAQLEAY  281 (499)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777777776543

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.92  E-value=0.15  Score=52.32  Aligned_cols=154  Identities=12%  Similarity=0.217  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHhH-HHHHHHHHHHhhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           75 LKQELSLAEQELRHLSSVAASVKAER-DAEVRELYEKSLK----LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        75 LqqEL~laqhEL~~l~~~i~~~~ae~-e~~~r~L~~k~~k----leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      +..+|...+..|......+.+..-+. +..+..+-+++-.    ||.+..+...+.+....+...+..+....++|..++
T Consensus       254 i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei  333 (569)
T PRK04778        254 IEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEI  333 (569)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555554444444433331 1122222222222    355555556666666666666666666666666666


Q ss_pred             HHHHHH-------HHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          150 NEINGD-------LAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       150 q~LekD-------L~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ..+.+.       +..++.=..++..+...++.+...+......|..-++...++.+++..+++....+...+..||.+.
T Consensus       334 ~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E  413 (569)
T PRK04778        334 DRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDE  413 (569)
T ss_pred             HHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666554       2333333455666666666666677777777777778888888889999999999999999999888


Q ss_pred             HhHHhh
Q 023255          223 ANAEKR  228 (285)
Q Consensus       223 ~n~e~r  228 (285)
                      ..|.++
T Consensus       414 ~eAr~k  419 (569)
T PRK04778        414 LEAREK  419 (569)
T ss_pred             HHHHHH
Confidence            777643

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

Probab=96.88  E-value=0.081  Score=55.91  Aligned_cols=124  Identities=21%  Similarity=0.288  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      +-+....|++||......++.|..++.+++...--+--+|-.-.-..|-.+-.+..+.++|..++..+.+|.-++++|..
T Consensus       435 ~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~  514 (1118)
T KOG1029|consen  435 LNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNH  514 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            55667788899999999999999988888776433333331111222333333444555555555555555555555555


Q ss_pred             HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023255          148 DLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEK  191 (285)
Q Consensus       148 evq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ek  191 (285)
                      ++.....-...-....+.|.++..+-+.+++.|...--.++-|+
T Consensus       515 qlkq~q~a~~~~~~~~s~L~aa~~~ke~irq~ikdqldelskE~  558 (1118)
T KOG1029|consen  515 QLKQKQSAHKETTQRKSELEAARRKKELIRQAIKDQLDELSKET  558 (1118)
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55444332222111133455555555555555555544444443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=96.87  E-value=0.32  Score=43.64  Aligned_cols=155  Identities=19%  Similarity=0.236  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhhh---HhHHHHHHHHHHHhhhhHHHH--
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL---SSVAASVK---AERDAEVRELYEKSLKLDAEL--  118 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l---~~~i~~~~---ae~e~~~r~L~~k~~kleael--  118 (285)
                      |.++-..++..|...--.|.+|......|++.+...+|-++..   ..-+.+++   ..-|-+-|.|+..+..+|.+-  
T Consensus        20 L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~   99 (193)
T PF14662_consen   20 LADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAKALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQQS   99 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444555555556777777777777776666655554   22222222   234556677777777777773  


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          119 --RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       119 --r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                        ..++.+..|-..+..+...+....++|..+...|...+-.|.+=    ++-+.+--..|+.|..-|..-|+..+.-+-
T Consensus       100 L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~eL~~~ieEy~~~teeLR~  179 (193)
T PF14662_consen  100 LVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESLICQRDAILSERTQQIEELKKTIEEYRSITEELRL  179 (193)
T ss_pred             HHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence              23444555555555566666666666666666666666555432    333344444456666555555555555554


Q ss_pred             hchhhhHHH
Q 023255          193 NRASNHEQR  201 (285)
Q Consensus       193 ~~~e~~eq~  201 (285)
                      ....+-+|+
T Consensus       180 e~s~LEeql  188 (193)
T PF14662_consen  180 EKSRLEEQL  188 (193)
T ss_pred             HHHHHHHHH
Confidence            444555555

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

Probab=96.87  E-value=0.27  Score=43.08  Aligned_cols=61  Identities=15%  Similarity=0.375  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHh
Q 023255          122 ESMHAELDRVRADIE-KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHK  182 (285)
Q Consensus       122 e~lk~El~qlr~eiq-~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~  182 (285)
                      ..++.|+.+++++++ .+.-.+.+...+...++..+.+.+.. ...+..|+.+|+++|-++-+
T Consensus        94 ~~L~~ei~~l~a~~klD~n~eK~~~r~e~~~~~~ki~e~~~ki~~ei~~lr~~iE~~K~~~lr  156 (177)
T PF07798_consen   94 QELREEINKLRAEVKLDLNLEKGRIREEQAKQELKIQELNNKIDTEIANLRTEIESLKWDTLR  156 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446666666666665 33444556777777777777777777 66777777777777766554

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.86  E-value=0.41  Score=48.81  Aligned_cols=44  Identities=25%  Similarity=0.508  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      ..++.++.||...+.++..+..........|..|+.+|.+.+.+
T Consensus       309 ~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~e  352 (522)
T PF05701_consen  309 ASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSE  352 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHH
Confidence            34677777888888887777777777777777777777776654

Several sequences in this family are described as being myosin heavy chain-like.

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.85  E-value=0.32  Score=56.33  Aligned_cols=63  Identities=19%  Similarity=0.288  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                      ...|..++.....|+.++.+-++.|+..-..+..+.+.++.-+--...++|..|+-.+.+++.
T Consensus      1064 ~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~ 1126 (1930)
T KOG0161|consen 1064 KEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQ 1126 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444555555555555555555555555555555555555555666666666555543

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

Probab=96.82  E-value=0.65  Score=49.67  Aligned_cols=167  Identities=20%  Similarity=0.319  Sum_probs=87.3

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh---HhHHHHHHHHHHHhh-------------hhHHHHHHHH
Q 023255           59 QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVK---AERDAEVRELYEKSL-------------KLDAELRVIE  122 (285)
Q Consensus        59 q~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~---ae~e~~~r~L~~k~~-------------kleaelr~~e  122 (285)
                      ..+-.+-.++......|+..+..+..++..|...|.++.   .++|-++.++-++..             +||--+...+
T Consensus       367 ~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~~eke  446 (775)
T PF10174_consen  367 EKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEALREKE  446 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHH
Confidence            333344444555555566666777777777777755444   456666666666655             2222222222


Q ss_pred             HHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------------hh----hccHHHHHHHHHHH
Q 023255          123 SMHAELDR--------VRADIEKLCVIKQEMIKDLNEINGDLAKAR--------------DE----SKDMAAIKAEIETE  176 (285)
Q Consensus       123 ~lk~El~q--------lr~eiq~l~~~rqeL~aevq~LekDL~~~~--------------~d----~qkl~aLkaEIe~L  176 (285)
                      -+...|..        ...++.......+++..++..|+++|.+..              +.    .+.|.-|.-+++..
T Consensus       447 r~~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~~~kee~s~l~s~~~K~~s~i~~l~I~lEk~  526 (775)
T PF10174_consen  447 RLQERLEEQRERAEKERQEELETYQKELKELKAKLESLQKELSEKELQLEDAKEEASKLASSQEKKDSEIERLEIELEKK  526 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHhhccchhhhHHHHHHHHHHHh
Confidence            22222111        123344444455555555555555555543              11    34455555566666


Q ss_pred             HHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHH-------HHHHHHHHHHHhHH
Q 023255          177 RQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA-------QQIERLQAELANAE  226 (285)
Q Consensus       177 rqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma-------~e~ekLrael~n~e  226 (285)
                      +.++.++.+.++-. ..+++.....+.+|+-.....       .|||+|+.-|-+++
T Consensus       527 rek~~kl~~ql~k~-~~~~e~~~r~~~Le~ev~~~~ee~~kaq~EVERLl~~L~~~E  582 (775)
T PF10174_consen  527 REKHEKLEKQLEKL-RANAELRDRIQQLEQEVTRYREESEKAQAEVERLLDILREAE  582 (775)
T ss_pred             hhHHHHHHHHHHHH-HhCHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666665555441 222444555555666544443       28888888777776

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

>PHA02562 46 endonuclease subunit; Provisional

Probab=96.74  E-value=0.39  Score=48.32  Aligned_cols=48  Identities=19%  Similarity=0.167  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHH
Q 023255          170 KAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIER  217 (285)
Q Consensus       170 kaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ek  217 (285)
                      +..|+.+..++..+++.++.-.....+..+.++..+..|..+-.++..
T Consensus       350 ~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~  397 (562)
T PHA02562        350 KQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSE  397 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444455544444444443333

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

Probab=96.71  E-value=0.39  Score=49.25  Aligned_cols=131  Identities=18%  Similarity=0.221  Sum_probs=73.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHH----HHHHHHHHHHHHHH
Q 023255           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAEL----RVIESMHAELDRVR  132 (285)
Q Consensus        57 EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleael----r~~e~lk~El~qlr  132 (285)
                      +|.++-.+..-+-..+....+++..+..++.....++..++++...    +--++.+||-|+    +.+.-+..+|..++
T Consensus       114 ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~----~krr~~~le~e~~~Lk~en~rl~~~l~~~r  189 (546)
T KOG0977|consen  114 EITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINT----LKRRIKALEDELKRLKAENSRLREELARAR  189 (546)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHH----HHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            3333333333333333333344444444444445555555555322    334445666663    22455566666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHH-------------HHHHHHHHhhhhhhhhhh
Q 023255          133 ADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEI-------------ETERQEIHKGRAAIECEK  191 (285)
Q Consensus       133 ~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEI-------------e~LrqEl~~~ra~~e~ek  191 (285)
                      ..+......+.++..+++.|.++|.=.... .+-|.+++.-.             ..|+..|...|+.||---
T Consensus       190 ~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiRaqye~~~  262 (546)
T KOG0977|consen  190 KQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEEERRKARRDTTADNREYFKNELALAIREIRAQYEAIS  262 (546)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666778888888888888888877766 55555554433             456666666666665433

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

Probab=96.66  E-value=0.95  Score=48.64  Aligned_cols=113  Identities=17%  Similarity=0.232  Sum_probs=78.4

Q ss_pred             HHHHHHHHHhhhhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHH
Q 023255          102 AEVRELYEKSLKLDAE----LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEI  173 (285)
Q Consensus       102 ~~~r~L~~k~~kleae----lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEI  173 (285)
                      .++-.+-++..++..+    ++.++.+-+.+.-.+..+.++.....+|..++..+.....++...    ...+..++.|+
T Consensus       424 ~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El  503 (980)
T KOG0980|consen  424 NRYEKLKEKYTELRQEHADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQEL  503 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3444455555555443    455566666666666666677777777777777777777775432    66678888888


Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHH
Q 023255          174 ETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQ  214 (285)
Q Consensus       174 e~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e  214 (285)
                      ..+..++.++.-.+..---.++..+.|.-..+++=++.+.+
T Consensus       504 ~~l~~e~~~lq~~~~~~~qs~~~~~~~l~~~l~~KD~~~~~  544 (980)
T KOG0980|consen  504 ALLLIELEELQRTLSNLAQSHNNQLAQLEDLLKQKDRLAAE  544 (980)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            88888888888888777777888888888777776666553

>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=96.65  E-value=0.46  Score=51.66  Aligned_cols=30  Identities=13%  Similarity=0.439  Sum_probs=17.4

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      ++++.|++.|.+...+...+.+.+..+|+.
T Consensus       850 ~e~~~l~~kv~~~~~~~~~~~~el~~~k~k  879 (1174)
T KOG0933|consen  850 SELGNLEAKVDKVEKDVKKAQAELKDQKAK  879 (1174)
T ss_pred             HHHHHHHHHHHhHHhHHHHHHHHHHHHHHH
Confidence            445555555566666666666666666544

>PRK09039 hypothetical protein; Validated

Probab=96.63  E-value=0.49  Score=45.79  Aligned_cols=40  Identities=18%  Similarity=0.212  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      ....+.+....+.++..|+.....|..++..|+..|...+
T Consensus       125 L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae  164 (343)
T PRK09039        125 LDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASE  164 (343)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444555555555555555555555555554443

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

Probab=96.62  E-value=0.46  Score=43.99  Aligned_cols=82  Identities=18%  Similarity=0.313  Sum_probs=44.2

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023255          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       105 r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      +++-+|..+.+-.+.++... .++.+|..+++.+......|..++..+...+.+..   .++..++..+..+...+...+
T Consensus        69 ~~~r~r~~~~e~kl~~v~~~-~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~---~~i~~l~~~~~~~e~~~~e~~  144 (239)
T COG1579          69 QEIRERIKRAEEKLSAVKDE-RELRALNIEIQIAKERINSLEDELAELMEEIEKLE---KEIEDLKERLERLEKNLAEAE  144 (239)
T ss_pred             HHHHHHHHHHHHHHhccccH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555333333 35666666666666666666666665555544422   234445555555555555555


Q ss_pred             hhhhhh
Q 023255          185 AAIECE  190 (285)
Q Consensus       185 a~~e~e  190 (285)
                      ..++.+
T Consensus       145 ~~~e~e  150 (239)
T COG1579         145 ARLEEE  150 (239)
T ss_pred             HHHHHH
Confidence            555544

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

Probab=96.59  E-value=0.56  Score=49.77  Aligned_cols=62  Identities=21%  Similarity=0.362  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhh----hhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEK----KNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ek----k~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~  227 (285)
                      +..|+.-|+.++..+.+.+..++..+    +...=--.|++.+...|-.++.+|..|.-++-+-.+
T Consensus       648 l~~l~~si~~lk~k~~~Q~~~i~~~~~~~~~s~~L~~~Q~~~I~~iL~~~~~~I~~~v~~ik~i~~  713 (717)
T PF10168_consen  648 LQDLKASIEQLKKKLDYQQRQIESQKSPKKKSIVLSESQKRTIKEILKQQGEEIDELVKQIKNIKK  713 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccccccCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666666655555444222    222223468999999999999999999998876654

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

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=96.59  E-value=1.6  Score=48.90  Aligned_cols=128  Identities=17%  Similarity=0.216  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELR-VIESMHAELDRVRADIEKLCVIKQEMI  146 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr-~~e~lk~El~qlr~eiq~l~~~rqeL~  146 (285)
                      ...+...+.++|....+.+......+.......+.....+-....+++.+.. ....+..++..+.+++.........+.
T Consensus       254 ~~~~l~~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~l~~~~~~L~~i~  333 (1201)
T PF12128_consen  254 QYRQLQALEQQLCHLHAELNADEQQLEQEQPELKEELNELNEELEKLEDEIKELRDELNKELSALNADLARIKSELDEIE  333 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555554444444444443333334333333333321 123333444444444444444444444


Q ss_pred             HHHHHHHH-HHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhch
Q 023255          147 KDLNEING-DLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRA  195 (285)
Q Consensus       147 aevq~Lek-DL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~  195 (285)
                      .+-..-++ ||..+..+..++|.++.+++.++.++.-+.+++..-...+.
T Consensus       334 ~~~~~ye~~~i~~~~~~~~~l~~~~~~~~~l~~~~~~Lt~~~~di~~ky~  383 (1201)
T PF12128_consen  334 QQKKDYEDADIEQLIARVDQLPEWRNELENLQEQLDLLTSKHQDIESKYN  383 (1201)
T ss_pred             HHHHHHHHCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444433 45555666777788888888777777777766654443333

>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=96.58  E-value=0.55  Score=44.96  Aligned_cols=163  Identities=21%  Similarity=0.278  Sum_probs=94.8

Q ss_pred             HH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hhhHhHHH--------------HHHHHHHHhhhh
Q 023255           57 DI-QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-------SVKAERDA--------------EVRELYEKSLKL  114 (285)
Q Consensus        57 EI-q~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~-------~~~ae~e~--------------~~r~L~~k~~kl  114 (285)
                      .| +.++..|+.|......|.++|..+...+..|++.+.       -.....|.              .......+...+
T Consensus        83 ~iGqsLl~~N~~L~~~~~~le~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~l  162 (306)
T PF04849_consen   83 RIGQSLLEQNQDLSERNEALEEQLGAALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQL  162 (306)
T ss_pred             HHhHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhH
Confidence            45 888888999988888888888877766666655443       11100000              000001122233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       115 eaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      ++=-+++..++.|-.++|.++..|......+..+-+.|..|..+--++ ++++..|..||..-..+..+....|      
T Consensus       163 e~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEI------  236 (306)
T PF04849_consen  163 EALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEI------  236 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHH------
Confidence            444566666777777777777777777777777777777666554444 6666666666644443333333333      


Q ss_pred             chhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          194 RASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                       ..++.|+-.+++.+=..+.|-|+|+.-|..+.
T Consensus       237 -t~LlsqivdlQ~r~k~~~~EnEeL~q~L~~sk  268 (306)
T PF04849_consen  237 -TSLLSQIVDLQQRCKQLAAENEELQQHLQASK  268 (306)
T ss_pred             -HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence             34555555566666666666666666665553

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 [].

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

Probab=96.57  E-value=0.94  Score=45.14  Aligned_cols=47  Identities=17%  Similarity=0.224  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVA   93 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i   93 (285)
                      +..+|+.++.+|...-...+.|-++...++.+++...|+|......+
T Consensus        43 ~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l   89 (420)
T COG4942          43 IQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDL   89 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            33444444444444434444444455555555554444444443333

>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=96.52  E-value=0.37  Score=40.22  Aligned_cols=76  Identities=17%  Similarity=0.222  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e  199 (285)
                      ....-+.|..++.++..+.....+|..++......+...... ..+-..|..+|+.++.       -|+.-..-|.=+..
T Consensus        54 Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~-------r~~dL~~QN~lLh~  126 (132)
T PF07926_consen   54 HAEDIKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQ-------RIEDLNEQNKLLHD  126 (132)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
Confidence            333345677777777777777777777777777777665544 4444555555544444       44444444555555


Q ss_pred             HHHH
Q 023255          200 QREI  203 (285)
Q Consensus       200 q~q~  203 (285)
                      |++.
T Consensus       127 QlE~  130 (132)
T PF07926_consen  127 QLES  130 (132)
T ss_pred             HHhh
Confidence            5543

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

>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=96.50  E-value=0.26  Score=42.15  Aligned_cols=43  Identities=21%  Similarity=0.261  Sum_probs=29.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        57 EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      ++.+.=.....+-+....|.++|...+.+...+.....+.+++
T Consensus        11 kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~e   53 (140)
T PF10473_consen   11 KLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAE   53 (140)
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3444445556667777788888888888888877777666666

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

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=96.47  E-value=0.97  Score=49.92  Aligned_cols=33  Identities=15%  Similarity=0.328  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL  156 (285)
                      +++|+..++.++..+.....+..++++..+.+|
T Consensus       477 ~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel  509 (1293)
T KOG0996|consen  477 IREEIEKLEKELMPLLKQVNEARSELDVAESEL  509 (1293)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334443333333444444444443333

>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=96.45  E-value=0.49  Score=40.45  Aligned_cols=63  Identities=14%  Similarity=0.236  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH  181 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~  181 (285)
                      ...+.-++++..+..++..+...++.|..++..+.++-..+....++...--.+++.....+.
T Consensus        45 ~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~  107 (140)
T PF10473_consen   45 LDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLNSSLE  107 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            335566666666666666666666666666666666655554443333333333333333333

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

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

Probab=96.43  E-value=0.57  Score=48.12  Aligned_cols=147  Identities=18%  Similarity=0.251  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           72 HVALKQELSLAEQELRH-LSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (285)
Q Consensus        72 h~~LqqEL~laqhEL~~-l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq  150 (285)
                      ...+-+||...-.+.-. ....+.+.+..    -|+|++++.-.|++=.+.+.+++....++.|+.+..+....+..+-+
T Consensus       215 ~~~~~~Elk~~l~~~~~~i~~~ie~l~~~----n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~  290 (581)
T KOG0995|consen  215 SSELEDELKHRLEKYFTSIANEIEDLKKT----NRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQ  290 (581)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhH
Confidence            33444555443333222 34444444443    36688887766777777888888888899999999999999999999


Q ss_pred             HHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH----HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          151 EINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ----REIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       151 ~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq----~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      .+++.|...+.+   +.+-..|++.++++...++.-|+.- +-..+-+++    ++..++++..|..+.++|+-++=+.+
T Consensus       291 ~~~~~l~~l~~E---ie~kEeE~e~lq~~~d~Lk~~Ie~Q-~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~  366 (581)
T KOG0995|consen  291 HMEKKLEMLKSE---IEEKEEEIEKLQKENDELKKQIELQ-GISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELK  366 (581)
T ss_pred             HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            999999887766   2333445555555555555555443 334444443    35677778888888888887775554

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.42  E-value=1.3  Score=50.53  Aligned_cols=106  Identities=10%  Similarity=0.136  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhh---h------
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAA---I------  187 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~---~------  187 (285)
                      .+.+..++......+..+.....++..++..+++++..++..    .+.+..++.++..+++.+.++..+   |      
T Consensus       357 LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~~~~~~~~~~S  436 (1486)
T PRK04863        357 LEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERAKQLCGLPDLT  436 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence            344444444444444444444444444444444444444322    234444555554444444433333   3      


Q ss_pred             -hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          188 -ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       188 -e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                       +.-+......-++++.++..+-.+-+++.++.+++...+
T Consensus       437 dEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql~  476 (1486)
T PRK04863        437 ADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFE  476 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             222233333334555555555555555555555554443

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

Probab=96.41  E-value=0.41  Score=45.93  Aligned_cols=27  Identities=4%  Similarity=0.140  Sum_probs=16.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          200 QREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       200 q~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      +....+..+..+..+++.++..+.+..
T Consensus       247 ~l~~~~~~l~~~~~~l~~~~~~l~~~~  273 (423)
T TIGR01843       247 ELTEAQARLAELRERLNKARDRLQRLI  273 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcE
Confidence            445555666666666777777776544

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

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=96.30  E-value=0.35  Score=51.17  Aligned_cols=79  Identities=23%  Similarity=0.381  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHH------HHHHHHH
Q 023255          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV------AQQIERL  218 (285)
Q Consensus       145 L~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~m------a~e~ekL  218 (285)
                      +..+|..|++++++--.+.-..+.|+..++.|+.|+.++-.+=+-|-|.++|-++|-  ..+.|...      --=-|.|
T Consensus       647 ~k~KIe~L~~eIkkkIe~av~ss~LK~k~E~Lk~Evaka~~~pd~~~k~kieal~~q--ik~~~~~a~~~~~lkek~e~l  724 (762)
T PLN03229        647 LQEKIESLNEEINKKIERVIRSSDLKSKIELLKLEVAKASKTPDVTEKEKIEALEQQ--IKQKIAEALNSSELKEKFEEL  724 (762)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHH--HHHHHHHHhccHhHHHHHHHH
Confidence            356777777777776666555788999999999999988888888888888888763  23333221      2245788


Q ss_pred             HHHHHhH
Q 023255          219 QAELANA  225 (285)
Q Consensus       219 rael~n~  225 (285)
                      ++||+.+
T Consensus       725 ~~e~~~~  731 (762)
T PLN03229        725 EAELAAA  731 (762)
T ss_pred             HHHHHHh
Confidence            8888543

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=96.29  E-value=1.8  Score=48.37  Aligned_cols=65  Identities=26%  Similarity=0.303  Sum_probs=35.9

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH---HHHH-HHhHHHHHHHHHHHHHHHHhHHhhH
Q 023255          165 DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ---REIM-EKNIISVAQQIERLQAELANAEKRA  229 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq---~q~m-eknli~ma~e~ekLrael~n~e~r~  229 (285)
                      ....+...|+.+++++...++.++-+++..-..+.+   .+.. +.-+....++|+.|..+|...+.+.
T Consensus       726 ~~~~~d~~i~~i~~~i~~~~~~~~~~~~~le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie~~r  794 (1201)
T PF12128_consen  726 LEAELDEQIEQIKQEIAAAKQEAKEQLKELEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIEERR  794 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            345555556666666666666666555443332221   0111 2245556678888888887777543

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.29  E-value=1.6  Score=50.35  Aligned_cols=87  Identities=11%  Similarity=0.233  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHH
Q 023255          142 KQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQA  220 (285)
Q Consensus       142 rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLra  220 (285)
                      ++.+..+|..|+.++.++..+ .++...++.-...+...+..+...|+.+++.+......+...++|+-.|-.++.-|-.
T Consensus       800 k~~~e~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~le~k~~eL~k  879 (1822)
T KOG4674|consen  800 KDKCESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIAKLEIKLSELEK  879 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555555554444 4444444444444445555555555555555555566555555555555555555555


Q ss_pred             HHHhHHhh
Q 023255          221 ELANAEKR  228 (285)
Q Consensus       221 el~n~e~r  228 (285)
                      .|...+.|
T Consensus       880 ~l~~~~~~  887 (1822)
T KOG4674|consen  880 RLKSAKTQ  887 (1822)
T ss_pred             HHHHhHHH
Confidence            55544433

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=96.27  E-value=1.9  Score=45.37  Aligned_cols=168  Identities=15%  Similarity=0.260  Sum_probs=111.6

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Q 023255           48 EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAE  127 (285)
Q Consensus        48 ee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~E  127 (285)
                      .+.+......-.+.+..-+.|-.+-..|+++|...+.++..-...+..---.+|.-.|.+.--..+.+..   +..++..
T Consensus       519 qedi~~~k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~Ev~~kl~ksEen~r~~e~e~~~k~kq---~k~lenk  595 (786)
T PF05483_consen  519 QEDINNSKKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGEEVKCKLDKSEENARSIECEILKKEKQ---MKILENK  595 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHHhhhHHH---HHHHHHH
Confidence            3333333334445555666666677777778877777777665555544444444444443333333333   4555566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHh
Q 023255          128 LDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKN  207 (285)
Q Consensus       128 l~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mekn  207 (285)
                      +..++..+........+|..+-..|.+.+.-   +..|+..+.-.|..|+.|+..+..-++.+...+..-+|.-.+-|-|
T Consensus       596 ~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~a---E~kq~~~~eikVn~L~~E~e~~kk~~eE~~~~~~keie~K~~~e~~  672 (786)
T PF05483_consen  596 CNNLRKQVENKNKNIEELQQENKALKKKITA---ESKQSNVYEIKVNKLQEELENLKKKHEEETDKYQKEIESKSISEEE  672 (786)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhhhHHH
Confidence            6667777777666677777777777766544   6788888888899999999999999999998888888888887776


Q ss_pred             HHHHHHHHHHHHHHHHh
Q 023255          208 IISVAQQIERLQAELAN  224 (285)
Q Consensus       208 li~ma~e~ekLrael~n  224 (285)
                      |.   -||+|+|.-..-
T Consensus       673 L~---~EveK~k~~a~E  686 (786)
T PF05483_consen  673 LL---GEVEKAKLTADE  686 (786)
T ss_pred             HH---HHHHHHHHHHHH
Confidence            54   477777765433

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=96.26  E-value=1.2  Score=45.85  Aligned_cols=118  Identities=14%  Similarity=0.223  Sum_probs=89.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-ESKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~-d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                      ||.|+.+...+.+.+..+...+..+...-+.|..++..+.+-- .+.. +......+..+|+.+...+......++..+.
T Consensus       294 le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY-~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~  372 (560)
T PF06160_consen  294 LEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSY-TLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQV  372 (560)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence            4777777777777777788878777777777777777777654 2333 3777888889999999999999999999998


Q ss_pred             hchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH---hhHHHH
Q 023255          193 NRASNHEQREIMEKNIISVAQQIERLQAELANAE---KRARAA  232 (285)
Q Consensus       193 ~~~e~~eq~q~meknli~ma~e~ekLrael~n~e---~r~~a~  232 (285)
                      .+.+..+.++.+.++|..+-.+...+...|.+..   ++||-.
T Consensus       373 ~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~  415 (560)
T PF06160_consen  373 PYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREK  415 (560)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9988888888888888777776666666665553   555543

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

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

Probab=96.26  E-value=0.34  Score=51.24  Aligned_cols=34  Identities=12%  Similarity=0.118  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEING  154 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~Lek  154 (285)
                      ...-|+.+.+++..+.+....|..+.+++..-.+
T Consensus       483 Rq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk  516 (697)
T PF09726_consen  483 RQQDKQSLQQLEKRLAEERRQRASLEKQLQEERK  516 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444443

; GO: 0016021 integral to membrane

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=96.25  E-value=0.75  Score=46.47  Aligned_cols=149  Identities=16%  Similarity=0.289  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHHH-HHHHHHHhhhhhHhHHHHHHHHHHHh---hhhHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           72 HVALKQELSLAEQE-LRHLSSVAASVKAERDAEVRELYEKS---LKLDAEL----RVIESMHAELDRVRADIEKLCVIKQ  143 (285)
Q Consensus        72 h~~LqqEL~laqhE-L~~l~~~i~~~~ae~e~~~r~L~~k~---~kleael----r~~e~lk~El~qlr~eiq~l~~~rq  143 (285)
                      ...+.+||.+.-.+ .+.+...+...+++.|    .|++++   +||..-+    ++-.+|+.+.....+-...+....+
T Consensus       251 ~~~~e~Elk~~f~~~~~~i~~~i~~lk~~n~----~l~e~i~ea~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~  326 (622)
T COG5185         251 YEPSEQELKLGFEKFVHIINTDIANLKTQND----NLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQ  326 (622)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence            33455666554332 3455555555555542    233332   2332222    2234444555555555555555556


Q ss_pred             HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023255          144 EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       144 eL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~  223 (285)
                      +....+.+|..++..   ...+|++|++.+++|+..+.+.+-.+|.-++-++|    ...+.++|-.|.-+.++|+.++-
T Consensus       327 ~~~g~l~kl~~eie~---kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~E----re~L~reL~~i~~~~~~L~k~V~  399 (622)
T COG5185         327 EWPGKLEKLKSEIEL---KEEEIKALQSNIDELHKQLRKQGISTEQFELMNQE----REKLTRELDKINIQSDKLTKSVK  399 (622)
T ss_pred             hcchHHHHHHHHHHH---HHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHH----HHHHHHHHHHhcchHHHHHHHHH
Confidence            666666666655554   35678889999999999999888888777766665    34578899999999999999986


Q ss_pred             hHHhhHHH
Q 023255          224 NAEKRARA  231 (285)
Q Consensus       224 n~e~r~~a  231 (285)
                      ..+--+.+
T Consensus       400 ~~~leaq~  407 (622)
T COG5185         400 SRKLEAQG  407 (622)
T ss_pred             hHHHHHHH
Confidence            65533433

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=96.23  E-value=1.1  Score=42.12  Aligned_cols=15  Identities=27%  Similarity=0.310  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHhHH
Q 023255          212 AQQIERLQAELANAE  226 (285)
Q Consensus       212 a~e~ekLrael~n~e  226 (285)
                      .-|.--||-||+--.
T Consensus       170 kdEardlrqelavr~  184 (333)
T KOG1853|consen  170 KDEARDLRQELAVRT  184 (333)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            347888888887655

>PF13514 AAA_27: AAA domain

Probab=96.19  E-value=2.8  Score=46.46  Aligned_cols=132  Identities=22%  Similarity=0.310  Sum_probs=70.7

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHH-----HHHHHHHHHhhhhHHHHHH-----------
Q 023255           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD-----AEVRELYEKSLKLDAELRV-----------  120 (285)
Q Consensus        57 EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e-----~~~r~L~~k~~kleaelr~-----------  120 (285)
                      ++++.+.+......++..+++++..+++++..+...+.....+..     .....++.....+++++..           
T Consensus       161 e~~~~l~~~~~~~~~y~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ler~~~~~p~~~~~~~l~~~l~~l~~~~~~p~~~  240 (1111)
T PF13514_consen  161 ELERELREAEVRAAEYQELQQALEEAEEELEELRAELKELRAELRRLERLRRAWPLLAELQQLEAELAELGEVPDFPEDG  240 (1111)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcCCcCCCChhH
Confidence            344455555666667777777777777777777777666666532     2233345555555555432           


Q ss_pred             ---HH-------HHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH
Q 023255          121 ---IE-------SMHAELDRVRADIEKLCVIKQ---------EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH  181 (285)
Q Consensus       121 ---~e-------~lk~El~qlr~eiq~l~~~rq---------eL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~  181 (285)
                         .+       ....++..++.++..+.....         .....|..|......+......++.++.++..++.++.
T Consensus       241 ~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~ll~~~~~I~~L~~~~~~~~~~~~dl~~~~~e~~~~~~~~~  320 (1111)
T PF13514_consen  241 AERLEQLEEELAEAQAQLERLQEELAQLEEELDALPVDEELLAHAAEIEALEEQRGEYRKARQDLPRLEAELAELEAELR  320 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               22       222222223333333322222         12233444444445555556667777777777777777


Q ss_pred             hhhhhhh
Q 023255          182 KGRAAIE  188 (285)
Q Consensus       182 ~~ra~~e  188 (285)
                      .+...+.
T Consensus       321 ~~~~~lg  327 (1111)
T PF13514_consen  321 ALLAQLG  327 (1111)
T ss_pred             HHHHhcC
Confidence            7666665

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

Probab=96.17  E-value=2.4  Score=45.51  Aligned_cols=180  Identities=19%  Similarity=0.293  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~  123 (285)
                      +..++-+|..-..||..+-..++.+..++..+++.|++.+..|...+.+..-+.++-|.-.-.|=++..-++.-=..++.
T Consensus       289 ~d~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~  368 (775)
T PF10174_consen  289 MDRLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEK  368 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444557888888888888899999999999999998888888888888766555554444444443333444


Q ss_pred             HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH-----------Hh--hhhccHHHHHHHHHHHHHHHHhh
Q 023255          124 MHAELDRVRADIEKLCV-------IKQEMIKDLNEINGDLAK-----------AR--DESKDMAAIKAEIETERQEIHKG  183 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~-------~rqeL~aevq~LekDL~~-----------~~--~d~qkl~aLkaEIe~LrqEl~~~  183 (285)
                      +..|...+..+|.++..       ....|..+|..|+..+.+           +.  .|..+...+...|+..-.+..+.
T Consensus       369 ~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~~eker~  448 (775)
T PF10174_consen  369 LQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEALREKERL  448 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHH
Confidence            44444443333333332       233333333333322221           11  22333334445555666666666


Q ss_pred             hhhhhhhhhh-chhhhHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023255          184 RAAIECEKKN-RASNHEQREIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       184 ra~~e~ekk~-~~e~~eq~q~meknli~ma~e~ekLrael~  223 (285)
                      +..++....- ..+..++...+.+-+-..-.+++.|..+|.
T Consensus       449 ~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLs  489 (775)
T PF10174_consen  449 QERLEEQRERAEKERQEELETYQKELKELKAKLESLQKELS  489 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            6666543211 113345555555555555555555555553

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

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

Probab=96.16  E-value=1  Score=41.17  Aligned_cols=107  Identities=21%  Similarity=0.347  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--h--hccHHHHHHHHHHHHHHHHhhhhhhh------
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD--E--SKDMAAIKAEIETERQEIHKGRAAIE------  188 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~--d--~qkl~aLkaEIe~LrqEl~~~ra~~e------  188 (285)
                      .+++.+...+..+............+...++..++.+|.+...  +  .+++..|..+|..+...+..+....+      
T Consensus        92 eri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re  171 (237)
T PF00261_consen   92 ERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASERE  171 (237)
T ss_dssp             HHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHH
Confidence            3455556666666666666666666666666666666655432  2  56666666666666666665555443      


Q ss_pred             --hhhhhchhhhHH-------HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          189 --CEKKNRASNHEQ-------REIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       189 --~ekk~~~e~~eq-------~q~meknli~ma~e~ekLrael~n~e  226 (285)
                        ||.+- ..+.++       ....|++...+-++|++|..+|....
T Consensus       172 ~~~e~~i-~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k  217 (237)
T PF00261_consen  172 DEYEEKI-RDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEK  217 (237)
T ss_dssp             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              11111 111122       22345555556666666666665554

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.15  E-value=1.3  Score=42.42  Aligned_cols=107  Identities=18%  Similarity=0.291  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHH-HHHHHHHHHHHHHhhhhhhhhhhhhchhhhH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAA-IKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~a-LkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e  199 (285)
                      ++.|+.+-..+...++.+....-++....+.|+.++..++.-...+.. -..+++.+|.+|...-..++.-++.-.+.-+
T Consensus       153 ~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~  232 (312)
T smart00787      153 LEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEE  232 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444443322111100 0223344444444444444444444455555


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023255          200 QREIMEKNIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       200 q~q~meknli~ma~e~ekLrael~n~e~  227 (285)
                      |++..+..+-....+...++.+|+.+++
T Consensus       233 ~l~~l~~~I~~~~~~k~e~~~~I~~ae~  260 (312)
T smart00787      233 ELQELESKIEDLTNKKSELNTEIAEAEK  260 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555553

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

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

Probab=96.12  E-value=0.23  Score=44.84  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=16.3

Q ss_pred             HHhHHHHHHHHHHHHHHHHhH
Q 023255          205 EKNIISVAQQIERLQAELANA  225 (285)
Q Consensus       205 eknli~ma~e~ekLrael~n~  225 (285)
                      ...+-++-+|||.||+||.--
T Consensus       130 ~~~~~~l~~e~erL~aeL~~e  150 (202)
T PF06818_consen  130 EDELGSLRREVERLRAELQRE  150 (202)
T ss_pred             cccchhHHHHHHHHHHHHHHH
Confidence            345677888999999999743

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=96.12  E-value=1.5  Score=43.71  Aligned_cols=126  Identities=18%  Similarity=0.220  Sum_probs=80.2

Q ss_pred             hHhHHHHHHHHHHHhhhhHHH--HHHH--HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhh----------
Q 023255           97 KAERDAEVRELYEKSLKLDAE--LRVI--ESMHAELDRVRADIEKLC-VIKQEMIKDLNEINGDLAKARD----------  161 (285)
Q Consensus        97 ~ae~e~~~r~L~~k~~kleae--lr~~--e~lk~El~qlr~eiq~l~-~~rqeL~aevq~LekDL~~~~~----------  161 (285)
                      ..++|-++-.|+.|+.|+|++  ++.+  +.++.|..++...+++-+ +....|-..+++|++|-.-++.          
T Consensus       153 eqeqef~vnKlm~ki~Klen~t~~kq~~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe~ekr~Lq~KlDqpvs~p~  232 (552)
T KOG2129|consen  153 EQEQEFFVNKLMNKIRKLENKTLLKQNTLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQEKRYLQKKLDQPVSTPS  232 (552)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCC
Confidence            356788888899999999987  3444  666666666665544322 2233444444444444322221          


Q ss_pred             ---h--------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHH-HHHHHHHHHHHH
Q 023255          162 ---E--------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS-VAQQIERLQAEL  222 (285)
Q Consensus       162 ---d--------~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~-ma~e~ekLrael  222 (285)
                         |        +.--.+++.-|+.|+.|+.|+|+.+--=.|-+.+.+-|..+=|+++-. -.|+-+||.-|+
T Consensus       233 ~prdia~~~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~~Ee~~~reen~rlQrkL~~e~  305 (552)
T KOG2129|consen  233 LPRDIAKIPDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQKSYQEKLMQYRAEEVDHREENERLQRKLINEL  305 (552)
T ss_pred             chhhhhcCccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence               1        222356777788888888888888888788888888887777766543 334555665555

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.09  E-value=1.7  Score=43.20  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=17.3

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          165 DMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .+..++.++..++.++..++..+.-
T Consensus       237 ~~~~~~~~i~~l~~~i~~~~~~~~~  261 (457)
T TIGR01000       237 ILATIQQQIDQLQKSIASYQVQKAG  261 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4566677777777777777776654

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.09  E-value=1.2  Score=45.66  Aligned_cols=154  Identities=19%  Similarity=0.264  Sum_probs=89.3

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh-----HHHHHHH-----HHHHhhhhHHHHHHHH----
Q 023255           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE-----RDAEVRE-----LYEKSLKLDAELRVIE----  122 (285)
Q Consensus        57 EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae-----~e~~~r~-----L~~k~~kleaelr~~e----  122 (285)
                      +|...-.++++|......|+.+|.-+..-+--++....++.+.     +++-.++     --+++.|||++|....    
T Consensus       332 eIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqkkEec~kme~qLkkAh~~~d  411 (654)
T KOG4809|consen  332 EIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQKKEECSKMEAQLKKAHNIED  411 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            7888889999999999999999888877777777777766665     2333333     3478888988874332    


Q ss_pred             ------HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          123 ------SMHAELDRVRADIEKLCVIK---QEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       123 ------~lk~El~qlr~eiq~l~~~r---qeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                            .+-..|.++..++..-...+   +.+....=.|.++......| ..|+.+|.--+..-....+.+-----.|||
T Consensus       412 dar~~pe~~d~i~~le~e~~~y~de~~kaqaevdrlLeilkeveneKnDkdkkiaeler~~kdqnkkvaNlkHk~q~Ekk  491 (654)
T KOG4809|consen  412 DARMNPEFADQIKQLEKEASYYRDECGKAQAEVDRLLEILKEVENEKNDKDKKIAELERHMKDQNKKVANLKHKQQLEKK  491 (654)
T ss_pred             hhhcChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchhhhcCchhhhhhhHHhhHHHHHHHHHH
Confidence                  22223333433333333333   33333334456666666677 777777764443333333332222334555


Q ss_pred             hchhhhHHHHHHHHhHHH
Q 023255          193 NRASNHEQREIMEKNIIS  210 (285)
Q Consensus       193 ~~~e~~eq~q~meknli~  210 (285)
                      .++-.++....=|-|+.+
T Consensus       492 k~aq~lee~rrred~~~d  509 (654)
T KOG4809|consen  492 KNAQLLEEVRRREDSMAD  509 (654)
T ss_pred             HHHHHHHHHHHHHhhhcc
Confidence            555555555544444433

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.08  E-value=0.93  Score=40.63  Aligned_cols=70  Identities=17%  Similarity=0.231  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-ESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~-d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      -..+.+..+|..+...++......+.|..++.-..+...+--. +..|..+++.++..+..|+.++...+.
T Consensus       118 ~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~~~~~l~~ei~~L~~klk  188 (194)
T PF15619_consen  118 AEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQEEVKSLQEEIQRLNQKLK  188 (194)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3356666666666666666666666666666666666555333 367777777777777777777766553

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

Probab=96.02  E-value=0.53  Score=41.03  Aligned_cols=32  Identities=25%  Similarity=0.365  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023255           67 RLAATHVALKQELSLAEQELRHLSSVAASVKA   98 (285)
Q Consensus        67 rla~~h~~LqqEL~laqhEL~~l~~~i~~~~a   98 (285)
                      ++..+-..+++.|....+++..+...+.....
T Consensus        78 ~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~  109 (191)
T PF04156_consen   78 RLQGELSELQQQLQQLQEELDQLQERIQELES  109 (191)
T ss_pred             hhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444455555555555555555443333

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 [].

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.02  E-value=0.82  Score=52.62  Aligned_cols=134  Identities=16%  Similarity=0.226  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHH
Q 023255           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESM  124 (285)
Q Consensus        45 n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~l  124 (285)
                      -....+++....++..+=.++.-+..+-..|.+++.....+.+.++..+..+++-....-+...+.-.+          +
T Consensus       734 ~~a~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~~~l~~e~~~L~~~l~~lQt~~~~~e~s~~~~k~~----------~  803 (1822)
T KOG4674|consen  734 LSANEKLEKLEAELSNLKQEKLLLKETEERLSQELEKLSAEQESLQLLLDNLQTQKNELEESEMATKDK----------C  803 (1822)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------H
Confidence            345556666666788888888888888888888888888888888877777777766555555333333          3


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      ...|.++..+++.|...-++...++..++.++..--.+ -.++..+..+++.+..++..++..|+
T Consensus       804 e~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~  868 (1822)
T KOG4674|consen  804 ESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIA  868 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555544444555555555444433333 34445555555555555554444443

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

Probab=96.01  E-value=0.12  Score=49.37  Aligned_cols=93  Identities=16%  Similarity=0.303  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREI  203 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~  203 (285)
                      ...++.++..+++.+.....++..++..++++-.++..+   +..|+.+.+.+.++-.+.-..+-.-+....+..+..+.
T Consensus        41 ~~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~e---l~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~s  117 (314)
T PF04111_consen   41 SEEDIEELEEELEKLEQEEEELLQELEELEKEREELDQE---LEELEEELEELDEEEEEYWREYNELQLELIEFQEERDS  117 (314)
T ss_dssp             -HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555566666666666666666554443322   33344444444333332222222222222333444455


Q ss_pred             HHHhHHHHHHHHHHHH
Q 023255          204 MEKNIISVAQQIERLQ  219 (285)
Q Consensus       204 meknli~ma~e~ekLr  219 (285)
                      ++..+..+..++++||
T Consensus       118 l~~q~~~~~~~L~~L~  133 (314)
T PF04111_consen  118 LKNQYEYASNQLDRLR  133 (314)
T ss_dssp             HHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5555555555555554

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.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.95  E-value=3.4  Score=46.95  Aligned_cols=18  Identities=22%  Similarity=0.497  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSL   61 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~l   61 (285)
                      ...|+.+|+....+|..+
T Consensus       744 i~el~~~IaeL~~~i~~l  761 (1353)
T TIGR02680       744 IAELDARLAAVDDELAEL  761 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            445555555555543333

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

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

Probab=95.94  E-value=1.3  Score=40.47  Aligned_cols=102  Identities=14%  Similarity=0.238  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~  197 (285)
                      ..+..+|..+...+..+.....+|..++..+...|..+..-    ..+...+...|..|...+..+...+++--.--..+
T Consensus       123 ~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~L  202 (237)
T PF00261_consen  123 KVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAERRVKKL  202 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444555555555555555555555555544322    44567788888889988888888888777666666


Q ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023255          198 HEQREIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       198 ~eq~q~meknli~ma~e~ekLrael~  223 (285)
                      -.+...+|..|...-....+++.||-
T Consensus       203 e~~id~le~eL~~~k~~~~~~~~eld  228 (237)
T PF00261_consen  203 EKEIDRLEDELEKEKEKYKKVQEELD  228 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66677777777777777777777763

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PRK01156 chromosome segregation protein; Provisional

Probab=95.93  E-value=2.8  Score=45.03  Aligned_cols=77  Identities=16%  Similarity=0.251  Sum_probs=40.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       113 kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .++..+...+..+.++...+.++.++.....++..++..+.+...++.....++..++.+++.++.++..++..++.
T Consensus       623 ~le~~~~~le~~~~~l~~~~~~i~~~~~~i~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  699 (895)
T PRK01156        623 EIENEANNLNNKYNEIQENKILIEKLRGKIDNYKKQIAEIDSIIPDLKEITSRINDIEDNLKKSRKALDDAKANRAR  699 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555556666666666666666666666666666665544444333444444444444444444444444443

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

Probab=95.87  E-value=0.98  Score=38.51  Aligned_cols=29  Identities=17%  Similarity=0.343  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          130 RVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       130 qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      ++..+|..|....+.|..+|..++..|..
T Consensus        32 ~~E~EI~sL~~K~~~lE~eld~~~~~l~~   60 (143)
T PF12718_consen   32 QKEQEITSLQKKNQQLEEELDKLEEQLKE   60 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333

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 [].

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=95.83  E-value=2.6  Score=46.93  Aligned_cols=64  Identities=19%  Similarity=0.253  Sum_probs=34.8

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      ..+++.|+..-..+-++...++...+-++..+.+..+-....+..+-+.-...+.+..++.+++
T Consensus       587 ~d~l~~le~~k~~ls~~~~~~~~~~e~~~~~~~~~~e~~~~l~~~i~sL~~~~~~~~~~l~k~~  650 (1317)
T KOG0612|consen  587 EDKLSLLEESKSKLSKENKKLRSELEKERRQRTEISEIIAELKEEISSLEETLKAGKKELLKVE  650 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhHHHHHH
Confidence            3344444444455555555555555555555555555555555555555555555555555554

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

Probab=95.74  E-value=1.3  Score=45.66  Aligned_cols=42  Identities=21%  Similarity=0.389  Sum_probs=29.9

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (285)
Q Consensus       107 L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~  151 (285)
                      +-.|...|+..   ++.++.|+.....+++.+.....+|..+|..
T Consensus       285 ~~~k~~~~~~~---l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~  326 (581)
T KOG0995|consen  285 MKSKKQHMEKK---LEMLKSEIEEKEEEIEKLQKENDELKKQIEL  326 (581)
T ss_pred             HHhhhHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            43444444444   7788888888888888888888888877643

>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=95.72  E-value=0.45  Score=39.59  Aligned_cols=40  Identities=20%  Similarity=0.317  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAE   83 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laq   83 (285)
                      ++.|...|...+.|+..+=.+..++..+...+.+||...-
T Consensus        18 ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~   57 (120)
T PF12325_consen   18 VERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLM   57 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555555555555555554433

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 [].

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.69  E-value=4.6  Score=45.85  Aligned_cols=96  Identities=14%  Similarity=0.122  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHH----HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD----AEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCV  140 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e----~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~  140 (285)
                      .+.-...+..++.+|...+..+..|.........-..    ....++...-.+++.-.+.+.....++.+++.++.++..
T Consensus       225 l~e~~~~~~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  304 (1353)
T TIGR02680       225 VADALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELETAREEERELDA  304 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455556666666666666666555543333222    222223333334444445556666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 023255          141 IKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       141 ~rqeL~aevq~LekDL~~~~  160 (285)
                      .+..+..+.+.+++++..++
T Consensus       305 ~~~~le~~~~~l~~~~~~l~  324 (1353)
T TIGR02680       305 RTEALEREADALRTRLEALQ  324 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHhc
Confidence            66666666666666666654

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=95.68  E-value=5  Score=46.07  Aligned_cols=103  Identities=11%  Similarity=0.100  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHH-------Hhhhhhhhhhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEI-------HKGRAAIECEKKN  193 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl-------~~~ra~~e~ekk~  193 (285)
                      ++..+.++..++.++..+....+++..++..+.+.+...+....+.......++..++-+       ..+...++.-...
T Consensus       371 LeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~~~~~~~~~~SdEeLe~~LenF~ak  450 (1486)
T PRK04863        371 VEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERAKQLCGLPDLTADNAEDWLEEFQAK  450 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444444433       3344444444445


Q ss_pred             chhhhHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023255          194 RASNHEQREIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e~ekLrael~  223 (285)
                      -.+...+...+|+.|-.+..+++.++....
T Consensus       451 lee~e~qL~elE~kL~~lea~leql~~~~~  480 (1486)
T PRK04863        451 EQEATEELLSLEQKLSVAQAAHSQFEQAYQ  480 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666677777777777777776666653

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.66  E-value=2.1  Score=46.71  Aligned_cols=105  Identities=19%  Similarity=0.255  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       115 eaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      .+-..+.+-+|+++..+..++......+.+|..++.....++.....+    +.++.+.-..++.+.+++..+-.+.|+-
T Consensus       251 ~~~k~~~~r~k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~l  330 (1072)
T KOG0979|consen  251 NAYKQAKDRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESL  330 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444566666777777777776666666666666665555555554433    5566666667777777777777777776


Q ss_pred             hhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          191 KKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       191 kk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      |+..-..       .+++..-...+..++++|.+++
T Consensus       331 k~~~~~r-------q~~i~~~~k~i~~~q~el~~~~  359 (1072)
T KOG0979|consen  331 KKAAEKR-------QKRIEKAKKMILDAQAELQETE  359 (1072)
T ss_pred             HHHHHHH-------HHHHHHHHHHHHHHHhhhhhcC
Confidence            6643322       2344445556666666665554

>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=95.56  E-value=0.66  Score=38.60  Aligned_cols=72  Identities=17%  Similarity=0.338  Sum_probs=59.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       113 kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      +|-+.||   .+..|+..++.++..+...|..+..+|-.++.+..+..+..++++.|+.+++.|.+.+..+--.+
T Consensus        20 ~L~s~lr---~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~Lell   91 (120)
T PF12325_consen   20 RLQSQLR---RLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELL   91 (120)
T ss_pred             HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455544   44578899999999999999999999999999999998888999999999999988777665544

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 [].

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=95.54  E-value=0.55  Score=41.59  Aligned_cols=96  Identities=15%  Similarity=0.159  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc----hhhhHHH
Q 023255          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR----ASNHEQR  201 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~----~e~~eq~  201 (285)
                      +|+.++..+|..|....++|...+..++.+|..+++.. -++++..+|..|+.+...-|.-++.-|.+.    .+-.+|.
T Consensus        79 eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~L-t~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v  157 (201)
T KOG4603|consen   79 EELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSAL-TTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQV  157 (201)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHH
Confidence            57888888999999999999999999999998887653 367777777777777777777777776654    4667788


Q ss_pred             HHHHHhHHHHHHHHHHHHHHH
Q 023255          202 EIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       202 q~meknli~ma~e~ekLrael  222 (285)
                      .-|=...++|-|....+=-||
T Consensus       158 ~~~y~~~~~~wrk~krmf~ei  178 (201)
T KOG4603|consen  158 YREYQKYCKEWRKRKRMFREI  178 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888777665555

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

Probab=95.52  E-value=3.4  Score=43.28  Aligned_cols=29  Identities=3%  Similarity=-0.028  Sum_probs=18.1

Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhhHHHH
Q 023255          174 ETERQEIHKGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       174 e~LrqEl~~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      ..||+.|..+..+|---.+.|+++...+|
T Consensus       163 ~eLK~QL~Elq~~Fv~ltne~~elt~~lq  191 (617)
T PF15070_consen  163 RELKEQLAELQDAFVKLTNENMELTSALQ  191 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHhhHHHH
Confidence            45666666666666666666666655554

>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=95.46  E-value=1.2  Score=42.88  Aligned_cols=120  Identities=16%  Similarity=0.212  Sum_probs=84.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHH-HH----HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD-AE----VRELYEKSLKLDAELRVIESMHAELDRVRADIEK  137 (285)
Q Consensus        63 ~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e-~~----~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~  137 (285)
                      ..|..|..+...|+|.|.-++-|+..|...+...+...+ ..    .++=-+-+..||.=-..++.+..++..+--|.++
T Consensus        79 e~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeE  158 (319)
T PF09789_consen   79 EQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLDEKEE  158 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            558889999999999999999999999998887654410 00    0111112233344455677888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh-hcc---HHHHHHHHHHHHHHHHh
Q 023255          138 LCVIKQEMIKDLNEINGDLAKARDE-SKD---MAAIKAEIETERQEIHK  182 (285)
Q Consensus       138 l~~~rqeL~aevq~LekDL~~~~~d-~qk---l~aLkaEIe~LrqEl~~  182 (285)
                      +..+|..+..++.+|..+|.-.=+. ..+   |.+|-.|-.=|+..|..
T Consensus       159 l~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl~q  207 (319)
T PF09789_consen  159 LVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERLKQ  207 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999875544 666   56666666656555543

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.42  E-value=3.8  Score=44.81  Aligned_cols=167  Identities=22%  Similarity=0.290  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hhhHhHHHHHHHHHHHhhhhHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-----SVKAERDAEVRELYEKSLKLDAEL  118 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~-----~~~ae~e~~~r~L~~k~~kleael  118 (285)
                      ++.+++++..-..|+..+......+.++-..++..|...++..+-|-..-+     +++.++|-.+|.-+.+.      .
T Consensus       330 l~~~~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqgr~sqFssk~eRDkwir~ei~~l------~  403 (1200)
T KOG0964|consen  330 LQKVKDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQGRYSQFSSKEERDKWIRSEIEKL------K  403 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccccccCcHHHHHHHHHHHHHHH------H
Confidence            456666666666677777777777777777777777777776665533332     23345555554443333      3


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~  198 (285)
                      +.+...+.....++.|+..+.....+.-.+++.|..++.                 ..+..+...-+-+-..|...-+++
T Consensus       404 ~~i~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~-----------------e~~~r~~~~~~~~~~~k~~~del~  466 (1200)
T KOG0964|consen  404 RGINDTKEQENILQKEIEDLESELKEKLEEIKELESSIN-----------------ETKGRMEEFDAENTELKRELDELQ  466 (1200)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHh-----------------hhhhHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444                 333333333333333333334444


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH
Q 023255          199 EQREIMEKNIISVAQQIERLQAELANAEKRARAAA  233 (285)
Q Consensus       199 eq~q~meknli~ma~e~ekLrael~n~e~r~~a~~  233 (285)
                      ..++..=.-=-..-..++.++.+|..++++-+++.
T Consensus       467 ~~Rk~lWREE~~l~~~i~~~~~dl~~~~~~L~~~~  501 (1200)
T KOG0964|consen  467 DKRKELWREEKKLRSLIANLEEDLSRAEKNLRATM  501 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44443100000122345555666655666655554

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

Probab=95.41  E-value=4  Score=43.78  Aligned_cols=108  Identities=21%  Similarity=0.281  Sum_probs=81.0

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----------------h-hccHH
Q 023255          106 ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-----------------E-SKDMA  167 (285)
Q Consensus       106 ~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~-----------------d-~qkl~  167 (285)
                      ++.++.-+|+++   .+.+..++..++.+++.+....+++...+..|+.+|..++.                 + ..+++
T Consensus       593 el~eelE~le~e---K~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~  669 (769)
T PF05911_consen  593 ELEEELEKLESE---KEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESYESLETRLK  669 (769)
T ss_pred             HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            344444444444   45555566667777777777777777777777777665542                 1 44566


Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHH
Q 023255          168 AIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIE  216 (285)
Q Consensus       168 aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~e  216 (285)
                      .+++|++.++..+..+...|+.||..+.|+...-+.+|-.|-++.++..
T Consensus       670 ~~e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~~~~~  718 (769)
T PF05911_consen  670 DLEAEAEELQSKISSLEEELEKERALSEELEAKCRELEEELERMKKEES  718 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhhcccc
Confidence            7799999999999999999999999999999999999999999988764

The function of this family is unknown.

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

Probab=95.40  E-value=1.5  Score=46.65  Aligned_cols=106  Identities=19%  Similarity=0.284  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~  198 (285)
                      ...+.+..+..+++.||++++...+.|-.+...|+.|-=.++...+-|+.-..|.++||.||.++.-.+++-+.---|..
T Consensus        69 ~~~~~~e~~~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~  148 (717)
T PF09730_consen   69 KECEDLELERKRLREEIKEYKFREARLLQDYSELEEENISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAA  148 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44677778888888888888888888888888888887777777888888889999999999999999988775544443


Q ss_pred             HHHH----HHHHhHHHHHHHHH---HHHHHHHh
Q 023255          199 EQRE----IMEKNIISVAQQIE---RLQAELAN  224 (285)
Q Consensus       199 eq~q----~meknli~ma~e~e---kLrael~n  224 (285)
                      .-..    -||-=|-++-.|=|   .||-||..
T Consensus       149 rLk~iae~qleEALesl~~EReqk~~LrkEL~~  181 (717)
T PF09730_consen  149 RLKEIAEKQLEEALESLKSEREQKNALRKELDQ  181 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3332    25666667766655   37777743

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

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

Probab=95.39  E-value=0.13  Score=45.69  Aligned_cols=45  Identities=13%  Similarity=0.180  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHH
Q 023255          168 AIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (285)
Q Consensus       168 aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekL  218 (285)
                      .|+.|+..|+-++..+...+.--++-|.++++..      |-.|++|+++|
T Consensus       148 ~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw------m~~k~~eAe~m  192 (194)
T PF08614_consen  148 ILQDELQALQLQLNMLEEKLRKLEEENRELVERW------MQRKAQEAERM  192 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHh
Confidence            3455555555566666655555566666666554      22356666655

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.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.34  E-value=1.4  Score=45.90  Aligned_cols=81  Identities=22%  Similarity=0.325  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      .......+..++...+.+|..+...+...+.+.  .+..+          ....+.++.++.+++.++..+......+..
T Consensus       389 ~~~~~~~~~~~~~~~e~el~~l~~~l~~~~~~e--~i~~l----------~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~  456 (650)
T TIGR03185       389 LQDAKSQLLKELRELEEELAEVDKKISTIPSEE--QIAQL----------LEELGEAQNELFRSEAEIEELLRQLETLKE  456 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChH--HHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346677788888888888888888888776642  33444          455666777777777777777777777777


Q ss_pred             HHHHHHHHHHHHh
Q 023255          148 DLNEINGDLAKAR  160 (285)
Q Consensus       148 evq~LekDL~~~~  160 (285)
                      ++..+++++.+..
T Consensus       457 ~i~~~~~~~~~~~  469 (650)
T TIGR03185       457 AIEALRKTLDEKT  469 (650)
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777776644

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.33  E-value=3.1  Score=40.73  Aligned_cols=40  Identities=18%  Similarity=0.302  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHH----hhhhccHHHHHHHHHHHHHHHHh
Q 023255          143 QEMIKDLNEINGDLAKA----RDESKDMAAIKAEIETERQEIHK  182 (285)
Q Consensus       143 qeL~aevq~LekDL~~~----~~d~qkl~aLkaEIe~LrqEl~~  182 (285)
                      +.|..++..++.++.++    ..+.-++..++++|+.++..+..
T Consensus       257 ~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~  300 (444)
T TIGR03017       257 QNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNA  300 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Confidence            34445555555555443    33466777888888877777655

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

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

Probab=95.27  E-value=0.3  Score=46.69  Aligned_cols=29  Identities=7%  Similarity=0.164  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhch
Q 023255          167 AAIKAEIETERQEIHKGRAAIECEKKNRA  195 (285)
Q Consensus       167 ~aLkaEIe~LrqEl~~~ra~~e~ekk~~~  195 (285)
                      -.+..+.+.+...+...+..++--+|.|+
T Consensus       109 ~~~~~e~~sl~~q~~~~~~~L~~L~ktNv  137 (314)
T PF04111_consen  109 IEFQEERDSLKNQYEYASNQLDRLRKTNV  137 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCHHT--T
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            34455556666666666666655555543

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

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

Probab=95.25  E-value=1.7  Score=37.08  Aligned_cols=18  Identities=11%  Similarity=0.351  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 023255          144 EMIKDLNEINGDLAKARD  161 (285)
Q Consensus       144 eL~aevq~LekDL~~~~~  161 (285)
                      .|...|+.|+.+|.+...
T Consensus        77 ~l~rriq~LEeele~ae~   94 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEK   94 (143)
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            456666666666655443

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 [].

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=95.24  E-value=3.8  Score=41.68  Aligned_cols=13  Identities=23%  Similarity=0.565  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHh
Q 023255          212 AQQIERLQAELAN  224 (285)
Q Consensus       212 a~e~ekLrael~n  224 (285)
                      -.|+.+||..+.+
T Consensus       368 e~E~q~lr~~l~~  380 (511)
T PF09787_consen  368 ESEIQKLRNQLSA  380 (511)
T ss_pred             HHHHHHHHHHHHH
Confidence            4577778877755

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=95.22  E-value=4.4  Score=41.73  Aligned_cols=52  Identities=15%  Similarity=0.087  Sum_probs=32.9

Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhhH-HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          174 ETERQEIHKGRAAIECEKKNRASNHE-QREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       174 e~LrqEl~~~ra~~e~ekk~~~e~~e-q~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      ..+..++.++...++. ..-|.+-++ +....+..+-.+..+.+-|..-...++
T Consensus       451 ~~~~~~i~~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE  503 (569)
T PRK04778        451 FEVSDEIEALAEELEE-KPINMEAVNRLLEEATEDVETLEEETEELVENATLTE  503 (569)
T ss_pred             HHHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666777777776 667777776 666666666666665555555554444

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

Probab=95.15  E-value=1.3  Score=39.86  Aligned_cols=59  Identities=20%  Similarity=0.262  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHH--------HHHHhHHHHHHHHHHHHHHHHh
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE--------IMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q--------~meknli~ma~e~ekLrael~n  224 (285)
                      +..|+-+-+.|.+.+.++....+.-...+...+..+|        .+|+.|..|...+|+--|+|..
T Consensus       102 l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~e  168 (201)
T PF13851_consen  102 LKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNE  168 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444444444433433333333        4678888888888888888843

>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=95.13  E-value=3.3  Score=39.81  Aligned_cols=55  Identities=22%  Similarity=0.303  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          136 EKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       136 q~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      +.+.+..+.|..+|.+|.+.|...+.+ ..++.....+...++.+=.+++-...-|
T Consensus       225 e~~~shI~~Lr~EV~RLR~qL~~sq~e~~~k~~~~~~eek~ireEN~rLqr~L~~E  280 (310)
T PF09755_consen  225 ERLSSHIRSLRQEVSRLRQQLAASQQEHSEKMAQYLQEEKEIREENRRLQRKLQRE  280 (310)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444455555555444444 4445555555555555555554444444

>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=95.11  E-value=3.3  Score=39.77  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHhHHhhHHH
Q 023255          208 IISVAQQIERLQAELANAEKRARA  231 (285)
Q Consensus       208 li~ma~e~ekLrael~n~e~r~~a  231 (285)
                      +-.+..||..||..|+++.....+
T Consensus       231 I~~Lr~EV~RLR~qL~~sq~e~~~  254 (310)
T PF09755_consen  231 IRSLRQEVSRLRQQLAASQQEHSE  254 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455888888888877755433

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

Probab=95.10  E-value=4.1  Score=40.74  Aligned_cols=51  Identities=14%  Similarity=0.214  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           49 DRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        49 e~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      ++|.....+|..+-.......++...|+.+|...+.++..+...+.....+
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~   88 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADD   88 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            344444445555545555555555666666666666666665555544443

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

Probab=95.08  E-value=6.7  Score=43.12  Aligned_cols=50  Identities=22%  Similarity=0.207  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASV   96 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~   96 (285)
                      |+.+...++..|..++..+..+-+-.+.|+-|+..++.+...........
T Consensus       413 Ls~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~~s~~rq  462 (1195)
T KOG4643|consen  413 LSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVTRSLSRQ  462 (1195)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            44445555555666666666666666666666666666665555544444

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

Probab=95.04  E-value=1.9  Score=43.05  Aligned_cols=55  Identities=16%  Similarity=0.249  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQ--------RLAATHVALKQELSLAEQELRHLSSVAASVKA   98 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnq--------rla~~h~~LqqEL~laqhEL~~l~~~i~~~~a   98 (285)
                      ...+++++...+..+..+...|.        .+......+++++..++.++..++..+..++.
T Consensus       170 l~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~  232 (498)
T TIGR03007       170 IKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDALKR  232 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888887776654432        24566777778877777777777666665543

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=95.03  E-value=6.4  Score=42.67  Aligned_cols=75  Identities=20%  Similarity=0.321  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023255          147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA  225 (285)
Q Consensus       147 aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~  225 (285)
                      ..+..+...+.+.+...+.+..+..++..+...+...++    ..+-..+.+++.+..+.++..+...+++|..++...
T Consensus       274 ~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l  348 (908)
T COG0419         274 EELRELERLLEELEEKIERLEELEREIEELEEELEGLRA----LLEELEELLEKLKSLEERLEKLEEKLEKLESELEEL  348 (908)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555566666666666666666655222    223334455666666677777777777777766655

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=95.02  E-value=5.8  Score=42.06  Aligned_cols=17  Identities=35%  Similarity=0.579  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHhHHh
Q 023255          211 VAQQIERLQAELANAEK  227 (285)
Q Consensus       211 ma~e~ekLrael~n~e~  227 (285)
                      ++..|+-||--|..+|.
T Consensus       585 lvqqv~dLR~~L~~~Eq  601 (961)
T KOG4673|consen  585 LVQQVEDLRQTLSKKEQ  601 (961)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66778888877766663

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

Probab=94.97  E-value=0.58  Score=37.18  Aligned_cols=88  Identities=15%  Similarity=0.154  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      .+.++-..++..+..+.....-+...+.+++.+..+   ..++.-++....+.|..|+..++..+.    .+.+..++++
T Consensus         7 ~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~k---adqkyfa~mr~~d~l~~e~k~L~~~~~----Ks~~~i~~L~   79 (96)
T PF08647_consen    7 SMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAK---ADQKYFAAMRSKDALDNEMKKLNTQLS----KSSELIEQLK   79 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhHHHHHHHHHHHHHHHH----HhHHHHHHHH
Confidence            333444444445555555555555555555555444   366777888888888888888887764    4567888888


Q ss_pred             HHHHhHHHHHHHHHH
Q 023255          203 IMEKNIISVAQQIER  217 (285)
Q Consensus       203 ~meknli~ma~e~ek  217 (285)
                      -+|+++++--.+.||
T Consensus        80 ~~E~~~~~~l~~~Ek   94 (96)
T PF08647_consen   80 ETEKEFVRKLKNLEK   94 (96)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            899999998887775

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

Probab=94.97  E-value=2  Score=44.58  Aligned_cols=36  Identities=14%  Similarity=0.337  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHH
Q 023255          138 LCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEI  173 (285)
Q Consensus       138 l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEI  173 (285)
                      +....+.|+.+|++++.-+.+.... ..+|..|.+++
T Consensus       290 kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l  326 (629)
T KOG0963|consen  290 KDSEIAQLSNDIERLEASLVEEREKHKAQISALEKEL  326 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555554444433 33333333333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.96  E-value=0.44  Score=49.27  Aligned_cols=100  Identities=14%  Similarity=0.252  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq  200 (285)
                      ++.++.|+..|+.++.++......|..++.++.+++..-...+.++.++..+|+.|+.+|......+|..++. ...+.+
T Consensus       431 ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~-l~~l~k  509 (652)
T COG2433         431 VERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERK-LAELRK  509 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence            4444444444444444444444444444444444444211124556667777777777777777777665543 334455


Q ss_pred             HHHHHHhHHHH-HHHHHHHHHH
Q 023255          201 REIMEKNIISV-AQQIERLQAE  221 (285)
Q Consensus       201 ~q~meknli~m-a~e~ekLrae  221 (285)
                      ++.||-.=-.| ...|++|+-+
T Consensus       510 ~~~lE~sG~g~pvk~ve~~t~~  531 (652)
T COG2433         510 MRKLELSGKGTPVKVVEKLTLE  531 (652)
T ss_pred             HHhhhhcCCCcceehhhhhhHH
Confidence            55555321111 1356666543

>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=94.91  E-value=0.38  Score=35.53  Aligned_cols=37  Identities=27%  Similarity=0.297  Sum_probs=25.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq  150 (285)
                      |++|+|+-..+..||..+++.-..+....++...+..
T Consensus         6 L~~EirakQ~~~eEL~kvk~~n~~~e~kLqeaE~rn~   42 (61)
T PF08826_consen    6 LEAEIRAKQAIQEELTKVKSANLAFESKLQEAEKRNR   42 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6888888888888888877766555554444444333

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

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

Probab=94.90  E-value=3.8  Score=39.31  Aligned_cols=28  Identities=21%  Similarity=0.379  Sum_probs=17.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          201 REIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       201 ~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                      ....+..+..+..++.++++++..++.+
T Consensus       241 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~  268 (423)
T TIGR01843       241 REEVLEELTEAQARLAELRERLNKARDR  268 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455666666777777777766643

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

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=94.90  E-value=2.6  Score=37.44  Aligned_cols=156  Identities=17%  Similarity=0.226  Sum_probs=96.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---------hHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 023255           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASV---------KAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRA  133 (285)
Q Consensus        63 ~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~---------~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~  133 (285)
                      ..+++.+.-...|+..+.--+..+.-++.++...         ....+-..-+|-+-..+||.+-++.+.|.+--.-+|.
T Consensus         9 e~Qq~qa~Lv~~LQ~KV~qYr~rc~ele~~l~~~~~l~~~~~~~~~~~e~s~dLe~~l~rLeEEqqR~~~L~qvN~lLRe   88 (182)
T PF15035_consen    9 EEQQRQAQLVQRLQAKVLQYRKRCAELEQQLSASQVLESPSQRRRSEEEHSPDLEEALIRLEEEQQRSEELAQVNALLRE   88 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcCcccccccccccCcccHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3445555555556666666666666666666322         1111112334666788999999999997766666777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHH
Q 023255          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA  212 (285)
Q Consensus       134 eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma  212 (285)
                      .++.....-+.|+.+++.++.|+..+..+ ..|-.       ..+.+-.....-+.-|-+.-..+-.+..+.-.++.-|-
T Consensus        89 QLEq~~~~N~~L~~dl~klt~~~~~l~~eL~~ke~-------~~~~ee~~~~~y~~~eh~rll~LWr~v~~lRr~f~elr  161 (182)
T PF15035_consen   89 QLEQARKANEALQEDLQKLTQDWERLRDELEQKEA-------EWREEEENFNQYLSSEHSRLLSLWREVVALRRQFAELR  161 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777888888888777775544 33333       33334444444555555555666667777777766664


Q ss_pred             H----HHHHHHHHHHhH
Q 023255          213 Q----QIERLQAELANA  225 (285)
Q Consensus       213 ~----e~ekLrael~n~  225 (285)
                      .    .+..+|+|++.+
T Consensus       162 ~~TerdL~~~r~e~~r~  178 (182)
T PF15035_consen  162 TATERDLSDMRAEFART  178 (182)
T ss_pred             HHHHhhHHHHHHHHHHH
Confidence            4    566777777543

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=94.83  E-value=4.7  Score=40.11  Aligned_cols=23  Identities=4%  Similarity=0.063  Sum_probs=14.0

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhh
Q 023255          163 SKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      ..++..++.+|..++.++..+++
T Consensus       242 ~~~i~~l~~~i~~~~~~~~~~~~  264 (457)
T TIGR01000       242 QQQIDQLQKSIASYQVQKAGLTK  264 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccC
Confidence            45566666666666666665543

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=94.81  E-value=2.9  Score=37.52  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRL   68 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrl   68 (285)
                      .+.|..++...+.+++.+..+|+-|
T Consensus        14 i~~L~n~l~elq~~l~~l~~ENk~L   38 (194)
T PF15619_consen   14 IKELQNELAELQRKLQELRKENKTL   38 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555543

>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=94.77  E-value=2  Score=39.63  Aligned_cols=56  Identities=21%  Similarity=0.286  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQE  179 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqE  179 (285)
                      ....-.+|.+.+.||..|....+++..+-..+...+.++..   ...-|+.+|+.++.+
T Consensus        48 r~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~e---ey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   48 RMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYE---EYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            34444555666666666655555555555555555544332   334455566666655

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.

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

Probab=94.71  E-value=5.3  Score=40.09  Aligned_cols=51  Identities=18%  Similarity=0.165  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS   95 (285)
Q Consensus        45 n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~   95 (285)
                      +-+++++.-.+.+++.+..|.-..-+.+..+++|-....|-.+.|+.....
T Consensus       218 ~di~~kv~flerkv~eledd~~~~gd~~SrlkqEnlqLvhR~h~LEEq~re  268 (502)
T KOG0982|consen  218 IDIERKVRFLERKVQELEDDQNIAGDRSSRLKQENLQLVHRYHMLEEQRRE  268 (502)
T ss_pred             hhHHHHHHHHHHHHHHhhcchhccccchhHHHHHHHHHHHHHHHHHHHHHh
Confidence            345666666666777777776677778999999999999988888776653

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=94.67  E-value=2.9  Score=42.40  Aligned_cols=71  Identities=13%  Similarity=0.145  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .-.++.++.||...+.+|+-|.+.+.+|..+|..--=-..+|..-++.-..|-.|++.+.-+..+++..+.
T Consensus       329 ~g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~  399 (622)
T COG5185         329 PGKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVK  399 (622)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            56678888888888888888888888888877643322334443344445566666666666666666553

>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=94.54  E-value=2.5  Score=35.68  Aligned_cols=31  Identities=10%  Similarity=0.296  Sum_probs=14.4

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           62 LQDNQRLAATHVALKQELSLAEQELRHLSSV   92 (285)
Q Consensus        62 L~dnqrla~~h~~LqqEL~laqhEL~~l~~~   92 (285)
                      +...+.+..+...+..++...++.+.+|...
T Consensus        51 ~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~   81 (151)
T PF11559_consen   51 MEQREDLSDKLRRLRSDIERLQNDVERLKEQ   81 (151)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            3334444444444445544444444444333

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.

>PF15294 Leu_zip: Leucine zipper

Probab=94.50  E-value=4.5  Score=38.37  Aligned_cols=56  Identities=23%  Similarity=0.431  Sum_probs=41.3

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                      .+.+..|...+..++.++         ||. -.+..++.++|+-+|.+--.+|=+++..|..+++=
T Consensus       189 ~q~l~dLE~k~a~lK~e~---------ek~-~~d~~~~~k~L~e~L~~~KhelL~~QeqL~~aeke  244 (278)
T PF15294_consen  189 AQDLSDLENKMAALKSEL---------EKA-LQDKESQQKALEETLQSCKHELLRVQEQLSLAEKE  244 (278)
T ss_pred             ccchhhHHHHHHHHHHHH---------HHH-HHHHHHHHHHHHHHHHHHHHHHHhcchhhhcchhh
Confidence            555666777776665433         333 34555699999999999999999999998887743

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=94.48  E-value=4.3  Score=39.73  Aligned_cols=64  Identities=11%  Similarity=0.263  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhccHHHHHHHHHHHHHHHHhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR---DESKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~---~d~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      ...++.+..++...+.++.....+++.++..+.++|.+-.   +|++-|-.+|.-|..||+||....
T Consensus       282 ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMd  348 (359)
T PF10498_consen  282 LSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMD  348 (359)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            3344444444444444444444555555555555555533   456677788888888888887654

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>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=94.48  E-value=1.9  Score=39.56  Aligned_cols=91  Identities=18%  Similarity=0.249  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHH
Q 023255          133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA  212 (285)
Q Consensus       133 ~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma  212 (285)
                      ..+.++...+++|..++..+++++..++.   ....+...++..++++..+...++.-++.+.+..-.+..|-..|-...
T Consensus        42 ~~id~~~~e~~~L~~e~~~l~~e~e~L~~---~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v  118 (251)
T PF11932_consen   42 KRIDQWDDEKQELLAEYRQLEREIENLEV---YNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFV  118 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444332   233334444455555555555555555555555555555555555533


Q ss_pred             H------------HHHHHHHHHHhHH
Q 023255          213 Q------------QIERLQAELANAE  226 (285)
Q Consensus       213 ~------------e~ekLrael~n~e  226 (285)
                      .            -|++||+.+.+++
T Consensus       119 ~~d~Pf~~~eR~~Rl~~L~~~l~~~d  144 (251)
T PF11932_consen  119 ELDLPFLLEERQERLARLRAMLDDAD  144 (251)
T ss_pred             hcCCCCChHHHHHHHHHHHHhhhccC
Confidence            2            3566666665554

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.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=94.47  E-value=4.1  Score=43.01  Aligned_cols=27  Identities=22%  Similarity=0.166  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSS   91 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~   91 (285)
                      .+-+..+...++++|..++.+|.....
T Consensus       196 ~~~L~~ql~~l~~~l~~aE~~l~~fk~  222 (754)
T TIGR01005       196 ADFLAPEIADLSKQSRDAEAEVAAYRA  222 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555566666666555555543

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

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

Probab=94.43  E-value=8.3  Score=41.13  Aligned_cols=50  Identities=4%  Similarity=0.163  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhh
Q 023255          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAA  186 (285)
Q Consensus       137 ~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~  186 (285)
                      ........|..+++.|..++..+... ......++.++..|..++......
T Consensus       363 vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~  413 (717)
T PF09730_consen  363 VAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKS  413 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33333444444444444444444443 233344555555555555555333

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

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=94.38  E-value=1.5  Score=46.41  Aligned_cols=36  Identities=14%  Similarity=0.147  Sum_probs=24.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~  100 (285)
                      ++....+..=|.++|...+.+|...+..+.+.+...
T Consensus       262 ~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~  297 (726)
T PRK09841        262 AAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQR  297 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            444455566677777777777777777777766654

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=94.32  E-value=11  Score=42.56  Aligned_cols=167  Identities=19%  Similarity=0.207  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~  123 (285)
                      |..|..++..... .-+.......+-.-+....+|+...+..|..+...-.....-.      +     .+.+..+.++.
T Consensus       167 p~~LKkkfD~IF~-~tky~KAld~~kk~rkd~~~evk~~~~~l~~lk~~K~~~e~~~------l-----~i~~~~~ki~~  234 (1294)
T KOG0962|consen  167 PKNLKKKFDDIFS-ATKYTKALDSLKKLRKDQSQEVKTKKQELEHLKTLKERAEVLR------L-----NIHSGQRKIEK  234 (1294)
T ss_pred             hHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------H-----HHHHHHHHHHH
Confidence            5578877766544 2233344455555555556666666666666644333222111      1     33444777778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH-hhhhhhhhhhhhchhhhHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH-KGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~-~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      .+.++..|..++........++...++.+++.+.++..=..+...+..+++.++..+. -.+.+.+...+-+...-+-+.
T Consensus       235 ~ke~v~e~e~e~~~~~~~i~ei~~~~~el~k~~~~~~~l~~e~~~l~~~~~~l~~~i~~~~~~t~~~l~~~~~n~~~~~~  314 (1294)
T KOG0962|consen  235 SKEEVSELENELGPIEAKIEEIEKSLKELEKLLKQVKLLDSEHKNLKKQISRLREKILKIFDGTDEELGELLSNFEERLE  314 (1294)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHhHHHHHH
Confidence            8888888888877777777777777777776666544333333344444444444333 122233344555555555566


Q ss_pred             HHHHhHHHHHHHHHHHHHHH
Q 023255          203 IMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       203 ~meknli~ma~e~ekLrael  222 (285)
                      .|+..+..+-+++.+|-.+.
T Consensus       315 ~~~~~~~~~e~~~~~l~~e~  334 (1294)
T KOG0962|consen  315 EMGEKLRELEREISDLNEER  334 (1294)
T ss_pred             HHHHhHHHHHHHHHHHHHHH
Confidence            67777777777666665443

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

Probab=94.22  E-value=4  Score=36.66  Aligned_cols=96  Identities=11%  Similarity=0.210  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHH
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~  201 (285)
                      +..+..+..+..+...|..-.+.+..++..|.++|..+..|-..+..+++.+..+.+++..++-..+--.-.+......+
T Consensus        44 ~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~Er  123 (201)
T PF13851_consen   44 ERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQER  123 (201)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555666666666666667777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhHHHHHHHHHH
Q 023255          202 EIMEKNIISVAQQIER  217 (285)
Q Consensus       202 q~meknli~ma~e~ek  217 (285)
                      ..+...+.++..||..
T Consensus       124 deL~~kf~~~i~evqQ  139 (201)
T PF13851_consen  124 DELYRKFESAIQEVQQ  139 (201)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7777777778777643

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=94.18  E-value=8.7  Score=42.45  Aligned_cols=170  Identities=16%  Similarity=0.244  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQD-------------NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEK  110 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~d-------------nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k  110 (285)
                      |+.+..++.....+.+.....             ..-.+..+..|+.+...++-+..+-+....      |..++..-+.
T Consensus       162 YeelK~E~~kAE~~t~~~~~kkk~I~aEkk~aK~~k~eaeky~~lkde~~~~q~e~~L~qLfhv------E~~i~k~~~e  235 (1141)
T KOG0018|consen  162 YEELKYEMAKAEETTTGNYKKKKSIAAEKKEAKEGKEEAEKYQRLKDEKGKAQKEQFLWELFHV------EACIEKANDE  235 (1141)
T ss_pred             HHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh------hhhHhhhhHH
Confidence            667776666655532222211             112355566666666666655555443333      2222224444


Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hc--cHHHHHHHHHHHHHHHHhhhhhh
Q 023255          111 SLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SK--DMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       111 ~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~q--kl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ...+.++   +..++..+.....++.......-....+++.+.+.+.+.... .+  .+-.++.+...++..+...+..+
T Consensus       236 ls~~~~e---i~~~~~~~d~~e~ei~~~k~e~~ki~re~~~~Dk~i~~ke~~l~erp~li~~ke~~~~~k~rl~~~~k~i  312 (1141)
T KOG0018|consen  236 LSRLNAE---IPKLKERMDKKEREIRVRKKERGKIRRELQKVDKKISEKEEKLAERPELIKVKENASHLKKRLEEIEKDI  312 (1141)
T ss_pred             HHHHhhh---hHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhcchhhccchhHHHHhhhhH
Confidence            4444444   222233333333333333333334444555555555555544 22  22334455566667777777777


Q ss_pred             hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       188 e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      +-=++.+..+-+.++.++|.++++..=-+-+-.|+
T Consensus       313 ~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei  347 (1141)
T KOG0018|consen  313 ETAKKDYRALKETIERLEKELKAVEGAKEEFEKEI  347 (1141)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77778888888888888888887665444444444

>PF13514 AAA_27: AAA domain

Probab=94.17  E-value=11  Score=41.74  Aligned_cols=44  Identities=16%  Similarity=0.360  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       147 aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      ..+..|...+.+.+....++..+..+++.+++++..+...++.-
T Consensus       784 ~~~~~L~~~l~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~  827 (1111)
T PF13514_consen  784 EALEALRARLEEAREAQEERERLQEQLEELEEELEQAEEELEEL  827 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666555556666666666666665555554433

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

Probab=94.15  E-value=8.5  Score=40.18  Aligned_cols=22  Identities=14%  Similarity=0.424  Sum_probs=10.3

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHH
Q 023255          202 EIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       202 q~meknli~ma~e~ekLrael~  223 (285)
                      .+-.+=+.-|..=|.|-++||.
T Consensus       487 s~Yt~RIlEIv~NI~KQk~eI~  508 (594)
T PF05667_consen  487 SAYTRRILEIVKNIRKQKEEIE  508 (594)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHH
Confidence            3333334445555555555553

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

Probab=94.14  E-value=2.2  Score=37.11  Aligned_cols=22  Identities=14%  Similarity=0.288  Sum_probs=10.6

Q ss_pred             hccHHHHHHHHHHHHHHHHhhh
Q 023255          163 SKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      ..++..+...++.+.+++..++
T Consensus       129 ~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen  129 EERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444

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 [].

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.13  E-value=6.5  Score=40.75  Aligned_cols=37  Identities=19%  Similarity=0.294  Sum_probs=20.5

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023255           64 DNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (285)
Q Consensus        64 dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~  100 (285)
                      +-..|-.+...|+-++++++|||..++..++...+-+
T Consensus        44 eK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~h   80 (772)
T KOG0999|consen   44 EKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQH   80 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555566666666666666666544443

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

Probab=94.07  E-value=4.8  Score=44.17  Aligned_cols=110  Identities=20%  Similarity=0.181  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH---HHHHHHHHHHhhhhHHH---
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER---DAEVRELYEKSLKLDAE---  117 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~---e~~~r~L~~k~~kleae---  117 (285)
                      -+.|+-.|+..+..|..+-.+..-.+.....|+++|+..+-++..+.+-+...-.+.   ++++-++-.=.-++|+=   
T Consensus       172 ~~hL~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~ea~ra~~yrdeldalre~aer~d~~  251 (1195)
T KOG4643|consen  172 NLHLEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDEAHRADRYRDELDALREQAERPDTT  251 (1195)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhcCCCc
Confidence            336777777777777777777777778888888888888888888877777665553   11111110000111110   


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 ----LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (285)
Q Consensus       118 ----lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~Le  153 (285)
                          +-..+-+|..+..++.+-+-|....+.|.++++.++
T Consensus       252 ykerlmDs~fykdRveelkedN~vLleekeMLeeQLq~lr  291 (1195)
T KOG4643|consen  252 YKERLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLR  291 (1195)
T ss_pred             cchhhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence                111223566666666666666666666666666655

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

Probab=94.05  E-value=8.7  Score=41.35  Aligned_cols=42  Identities=10%  Similarity=0.080  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhH
Q 023255          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNI  208 (285)
Q Consensus       167 ~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknl  208 (285)
                      .-...||+.|+++|+......-+---.++++-+|++.|..+.
T Consensus       482 e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~  523 (1118)
T KOG1029|consen  482 ELMISEIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAH  523 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhc
Confidence            334445555555555555554444444555555666555444

>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]

Probab=94.03  E-value=4.8  Score=40.08  Aligned_cols=108  Identities=17%  Similarity=0.251  Sum_probs=75.0

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----------------------------
Q 023255          109 EKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR----------------------------  160 (285)
Q Consensus       109 ~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~----------------------------  160 (285)
                      +|.+..-+=+++.++-+.-|.+|+.+-++|.+.-|||...+   ..+|.++.                            
T Consensus       439 QKCLEnahLaqalEaerqaLRqCQrEnQELnaHNQELnnRL---aaEItrLRtlltgdGgGtGsplaqgkdayELEVLLR  515 (593)
T KOG4807|consen  439 QKCLENAHLAQALEAERQALRQCQRENQELNAHNQELNNRL---AAEITRLRTLLTGDGGGTGSPLAQGKDAYELEVLLR  515 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHH---HHHHHHHHHHhccCCCCCCCccccCcchhhHHHHHH
Confidence            44444444478888889999999999999999999886543   23333332                            


Q ss_pred             hhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          161 DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       161 ~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ...+.|.-|++||..||-||+.+-.+-.|=...+.+.+-.+-...-   .--.+|+.|...|
T Consensus       516 VKEsEiQYLKqEissLkDELQtalrDKkyaSdKYkDiYtELSiaKa---kadcdIsrLKEqL  574 (593)
T KOG4807|consen  516 VKESEIQYLKQEISSLKDELQTALRDKKYASDKYKDIYTELSIAKA---KADCDISRLKEQL  574 (593)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhHHHHHHHHHHH---hhhccHHHHHHHH
Confidence            1234567889999999999999988888887777777654432110   1123888888777

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

Probab=94.02  E-value=7.2  Score=38.90  Aligned_cols=102  Identities=12%  Similarity=0.164  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhh------------------hccHHHHHHHHHHHH
Q 023255          123 SMHAELDRVRADIEKLCV-------IKQEMIKDLNEINGDLAKARDE------------------SKDMAAIKAEIETER  177 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~-------~rqeL~aevq~LekDL~~~~~d------------------~qkl~aLkaEIe~Lr  177 (285)
                      .++.++.+++.++..+..       ..+++..++..+++.+.+.-..                  ..++..++.+++.++
T Consensus       251 ~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~  330 (498)
T TIGR03007       251 ELDGRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLE  330 (498)
T ss_pred             chHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555543       2344555566666555443111                  123344444444444


Q ss_pred             HHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          178 QEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       178 qEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                      .++..++..++.-+    +.+.+.-.-+..+..+.||++-.+.-....-+|
T Consensus       331 ~~~~~l~~~~~~~~----~~~~~~~~~~~el~~L~Re~~~~~~~Y~~l~~r  377 (498)
T TIGR03007       331 ARVAELTARIERLE----SLLRTIPEVEAELTQLNRDYEVNKSNYEQLLTR  377 (498)
T ss_pred             HHHHHHHHHHHHHH----HHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444333222    122233344666777778887777666655544

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

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

Probab=93.99  E-value=0.25  Score=43.84  Aligned_cols=81  Identities=19%  Similarity=0.350  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~  197 (285)
                      ..+...+.+++.|+.++...+.++..++-.++.++.+....    ...|..|+.++..|+.++..+...++.-.|.+..+
T Consensus        70 ~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l  149 (194)
T PF08614_consen   70 SSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEIL  149 (194)
T ss_dssp             --------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555555555555444322    44455666666555555555555544444444443


Q ss_pred             hHHHH
Q 023255          198 HEQRE  202 (285)
Q Consensus       198 ~eq~q  202 (285)
                      ...+.
T Consensus       150 ~DE~~  154 (194)
T PF08614_consen  150 QDELQ  154 (194)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            33333

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.

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=93.98  E-value=7.5  Score=38.98  Aligned_cols=137  Identities=18%  Similarity=0.270  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh----hhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH-------------
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVA----ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDR-------------  130 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i----~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~q-------------  130 (285)
                      +......|+++-...+--|..|....    ..++.|+|.-+-.|..|+.|||+|-|-.   ...++|             
T Consensus       163 lm~ki~Klen~t~~kq~~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe~ekr~L---q~KlDqpvs~p~~prdia~  239 (552)
T KOG2129|consen  163 LMNKIRKLENKTLLKQNTLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQEKRYL---QKKLDQPVSTPSLPRDIAK  239 (552)
T ss_pred             HHHHHHHhhhhhHHhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhcCcccCCCchhhhhc
Confidence            44444455555444444333333222    3456678888888989999999884433   222322             


Q ss_pred             ---HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHH
Q 023255          131 ---VR-ADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME  205 (285)
Q Consensus       131 ---lr-~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~me  205 (285)
                         .+ .+...+....+-|.++|.++.+++.+++.. .-|+..+.+|=..++.|..++..-+             .+.||
T Consensus       240 ~~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~~Ee~~~reen~rlQrkL-------------~~e~e  306 (552)
T KOG2129|consen  240 IPDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQKSYQEKLMQYRAEEVDHREENERLQRKL-------------INELE  306 (552)
T ss_pred             CccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH-------------HHHHH
Confidence               11 122344555667788888888888887766 5566666666555555554443221             13455


Q ss_pred             Hh--HHHHHHHHHHHHH
Q 023255          206 KN--IISVAQQIERLQA  220 (285)
Q Consensus       206 kn--li~ma~e~ekLra  220 (285)
                      +-  |-.|-.|-|++-.
T Consensus       307 rRealcr~lsEsessle  323 (552)
T KOG2129|consen  307 RREALCRMLSESESSLE  323 (552)
T ss_pred             HHHHHHHHhhhhhHHHH
Confidence            55  6667777777643

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

Probab=93.98  E-value=9.3  Score=40.06  Aligned_cols=95  Identities=18%  Similarity=0.316  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hhhhHhHHHHHHHHHHHhhhhHHH
Q 023255           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVA-------ASVKAERDAEVRELYEKSLKLDAE  117 (285)
Q Consensus        45 n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i-------~~~~ae~e~~~r~L~~k~~kleae  117 (285)
                      ..|..++..+...++..+.+|+.|..-.......|.-....++++....       ..+.+++..-.|.           
T Consensus        90 ~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRA-----------  158 (617)
T PF15070_consen   90 EHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRA-----------  158 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHH-----------
Confidence            3445555555556666666677766555444445554444455544332       2233333222232           


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq  150 (285)
                      +.-+..+|..|..++.-...|....-+|+..++
T Consensus       159 lsQN~eLK~QL~Elq~~Fv~ltne~~elt~~lq  191 (617)
T PF15070_consen  159 LSQNRELKEQLAELQDAFVKLTNENMELTSALQ  191 (617)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHhhhHhhHHHH
Confidence            233456666666666655555555544444443

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

Probab=93.97  E-value=6  Score=37.80  Aligned_cols=74  Identities=16%  Similarity=0.370  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh---hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHH
Q 023255          142 KQEMIKDLNEINGDLAKARDE---SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (285)
Q Consensus       142 rqeL~aevq~LekDL~~~~~d---~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekL  218 (285)
                      -.++..+|..|.+.+..+..-   ..++.+|.++++.++.+....+.-|       .++..+.|..-..|+.+-++++.+
T Consensus       133 E~~lvq~I~~L~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki-------~~la~eaqe~he~m~k~~~~~De~  205 (294)
T COG1340         133 ERELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKI-------QELANEAQEYHEEMIKLFEEADEL  205 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666665522   5556666666666665555544443       345566677777777777777666


Q ss_pred             HHHH
Q 023255          219 QAEL  222 (285)
Q Consensus       219 rael  222 (285)
                      |.+.
T Consensus       206 Rkea  209 (294)
T COG1340         206 RKEA  209 (294)
T ss_pred             HHHH
Confidence            6554

>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=93.88  E-value=3.3  Score=34.50  Aligned_cols=63  Identities=14%  Similarity=0.390  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHH
Q 023255          117 ELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQE  179 (285)
Q Consensus       117 elr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqE  179 (285)
                      +++.+..+|.++..++.++..+..........+...+.....-... ...+..++..++.|..+
T Consensus        57 ~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~Q  120 (132)
T PF07926_consen   57 DIKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQ  120 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566666777777777777777666666666666665555554444 45555555555555443

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

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=93.79  E-value=7.5  Score=39.98  Aligned_cols=114  Identities=15%  Similarity=0.221  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      +|-|+.+...+..-+.-+...++++.....-|..+|..+.+--.=...+.+......++|+.+.+.+...-.-++-.+.+
T Consensus       297 lE~EveA~~~V~~~~~~l~~~l~k~ke~n~~L~~Eie~V~~sY~l~e~e~~~vr~~e~eL~el~~~~~~i~~~~~~~~~~  376 (570)
T COG4477         297 LEREVEAKNVVEENLPILPDYLEKAKENNEHLKEEIERVKESYRLAETELGSVRKFEKELKELESVLDEILENIEAQEVA  376 (570)
T ss_pred             HHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence            35555555555555666777777777777777777777776655445567888888888999988888888888888888


Q ss_pred             chhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023255          194 RASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e~ekLrael~n~e~  227 (285)
                      +.+..+-++-.++-|-..-.+.++++..|..-.|
T Consensus       377 yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~Lrk  410 (570)
T COG4477         377 YSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRK  410 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            8888888888888887777777777776655543

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=93.79  E-value=11  Score=42.21  Aligned_cols=6  Identities=17%  Similarity=0.091  Sum_probs=3.8

Q ss_pred             EeecCC
Q 023255           10 TTLHNH   15 (285)
Q Consensus        10 vtf~p~   15 (285)
                      .||.+.
T Consensus       400 fTy~~~  405 (1317)
T KOG0612|consen  400 FTYTHE  405 (1317)
T ss_pred             eeeccc
Confidence            677653

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

Probab=93.76  E-value=4.1  Score=43.35  Aligned_cols=13  Identities=31%  Similarity=0.317  Sum_probs=8.8

Q ss_pred             ccCceEE-EeecCC
Q 023255            3 IYGNSLH-TTLHNH   15 (285)
Q Consensus         3 ifG~tli-vtf~p~   15 (285)
                      +||.+|| +|.+.+
T Consensus       451 ~lg~sll~lts~~e  464 (717)
T PF10168_consen  451 VLGYSLLALTSSGE  464 (717)
T ss_pred             CCCceEEEEccCCc
Confidence            4899988 555444

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

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=93.72  E-value=0.018  Score=60.45  Aligned_cols=114  Identities=19%  Similarity=0.316  Sum_probs=0.0

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023255          104 VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (285)
Q Consensus       104 ~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~  183 (285)
                      +|+-.+|..|+|+++.....=-.++..++..++.|......|...+..++.++.++.       +++..++.+++++..+
T Consensus       303 lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~-------~~~~qle~~k~qi~eL  375 (713)
T PF05622_consen  303 LREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKAR-------ALKSQLEEYKKQIQEL  375 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-------HHHHHHHHHHHHHHHH
Confidence            455567777888885554443345556666666666666667677777776665544       4555555555555555


Q ss_pred             hhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          184 RAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       184 ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      ......+++..-........++.-+.++.+|.+.|..|..+
T Consensus       376 e~~l~~~~~~~~~l~~e~~~L~ek~~~l~~eke~l~~e~~~  416 (713)
T PF05622_consen  376 EQKLSEESRRADKLEFENKQLEEKLEALEEEKERLQEERDS  416 (713)
T ss_dssp             -----------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555544444555555555555666666666665543

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.64  E-value=0.93  Score=41.03  Aligned_cols=28  Identities=11%  Similarity=0.227  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAER  100 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae~  100 (285)
                      ..++..|...+.++..+...+.+...+.
T Consensus        89 p~~~~rlp~le~el~~l~~~l~~~~~~~  116 (206)
T PRK10884         89 PSLRTRVPDLENQVKTLTDKLNNIDNTW  116 (206)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            3445666666677777666666544443

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

Probab=93.47  E-value=2.9  Score=38.28  Aligned_cols=52  Identities=15%  Similarity=0.325  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          134 DIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       134 eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .+..+.....++..++..|...+.+.   ..++...+..++.+++.+...+..+.
T Consensus        57 ~~~~~~~~~~~~~~r~~~l~~~i~~~---~~~i~~~r~~l~~~~~~l~~~~~~l~  108 (302)
T PF10186_consen   57 EIQQLKREIEELRERLERLRERIERL---RKRIEQKRERLEELRESLEQRRSRLS  108 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444432   23344455555555555555555554

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.46  E-value=1.9  Score=39.08  Aligned_cols=32  Identities=6%  Similarity=0.051  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGD  155 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekD  155 (285)
                      ++++..+++.++..+......|.++...+.++
T Consensus       137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~  168 (206)
T PRK10884        137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQRT  168 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444433

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=93.29  E-value=3.2  Score=36.07  Aligned_cols=91  Identities=11%  Similarity=0.219  Sum_probs=43.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhh-hccHHHHHHHH-HHHHHHHHhhhhhhhh
Q 023255          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD-LAKARDE-SKDMAAIKAEI-ETERQEIHKGRAAIEC  189 (285)
Q Consensus       113 kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekD-L~~~~~d-~qkl~aLkaEI-e~LrqEl~~~ra~~e~  189 (285)
                      +++.++...+..+.|...++++.++   ...+...+.+.|..| -.+..++ ..+.+++.+++ ..|.++++......+ 
T Consensus        45 ~I~~~L~~Ae~~k~eAe~l~a~ye~---~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~~ea~L~~~~~~~~~~~~~~~~-  120 (155)
T PRK06569         45 NIQDNITQADTLTIEVEKLNKYYNE---EIDKTNTEIDRLKKEKIDSLESEFLIKKKNLEQDLKNSINQNIEDINLAAK-  120 (155)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            3444444455555555444443332   222223333334333 3344444 55555555555 455666666666666 


Q ss_pred             hhhhchhhhHHHHHHHHhHH
Q 023255          190 EKKNRASNHEQREIMEKNII  209 (285)
Q Consensus       190 ekk~~~e~~eq~q~meknli  209 (285)
                        +-+.+..+++--|--|++
T Consensus       121 --~~~~~~~~~~i~~~~~i~  138 (155)
T PRK06569        121 --QFRTNKSEAIIKLAVNII  138 (155)
T ss_pred             --HHHHhHHHHHHHHHHHHH
Confidence              344444555555555544

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=93.29  E-value=0.024  Score=59.65  Aligned_cols=25  Identities=12%  Similarity=0.203  Sum_probs=0.0

Q ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHH
Q 023255          196 SNHEQREIMEKNIISVAQQIERLQA  220 (285)
Q Consensus       196 e~~eq~q~meknli~ma~e~ekLra  220 (285)
                      +.+.+...||+-......|+.+||.
T Consensus       254 ~ql~~i~~LE~en~~l~~Elk~Lr~  278 (722)
T PF05557_consen  254 EQLAHIRELEKENRRLREELKHLRQ  278 (722)
T ss_dssp             -------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444443

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>TIGR00634 recN DNA repair protein RecN

Probab=93.28  E-value=4.6  Score=41.40  Aligned_cols=59  Identities=12%  Similarity=0.148  Sum_probs=37.2

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA  225 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~  225 (285)
                      +..+..+...++.+++++..+...-+    .-.++-++....++.+...|.++-+.|...+..
T Consensus       321 g~s~e~l~~~~~~l~~eL~~l~~~~~----~le~L~~el~~l~~~l~~~a~~Ls~~R~~~a~~  379 (563)
T TIGR00634       321 GASVEEVLEYAEKIKEELDQLDDSDE----SLEALEEEVDKLEEELDKAAVALSLIRRKAAER  379 (563)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567777777777777776544333    223344556666777777777777777776443

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PF04626 DEC-1_C: Dec-1 protein, C terminal region; InterPro: IPR006720 The defective chorion-1 gene (dec-1) in Drosophila encodes follicle cell proteins necessary for proper eggshell assembly

Probab=93.26  E-value=0.051  Score=45.06  Aligned_cols=29  Identities=31%  Similarity=0.603  Sum_probs=24.9

Q ss_pred             CCcccCCCCCCCCCCCCCCCCCCCCcccccc
Q 023255          241 STSYAASYGNPDPGFGGSLYADPYSMHQVSA  271 (285)
Q Consensus       241 ~~~y~~~~gn~~~~~~~~~y~~~y~~~~~~~  271 (285)
                      ..+||.+||  +.||++|+||.+|+.|.+|.
T Consensus        74 ~~sYgtsYg--~ggyGsnaYG~~~~~n~yqs  102 (132)
T PF04626_consen   74 VQSYGTSYG--GGGYGSNAYGVQRSVNSYQS  102 (132)
T ss_pred             ecccceeec--CCcccccccCCCcCcccccc
Confidence            368888888  66999999999999998875

Multiple products of the dec-1 gene are formed by alternative RNA splicing and proteolytic processing []. Cleavage products include S80 (80 kDa) which is incorporated into the eggshell, and further proteolysis of S80 gives S60 (60 kDa). Alternative splicing generates different carboxy terminal ends in different protein isoforms. This domain is the most C-terminal region that is present in the main isoforms.; GO: 0005213 structural constituent of chorion, 0007304 chorion-containing eggshell formation, 0005576 extracellular region, 0042600 chorion

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=93.20  E-value=15  Score=39.92  Aligned_cols=161  Identities=17%  Similarity=0.252  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      ....+..+...+.-.+..+..|......+.-......+ .......++..+.....+...+..+..++..+.....++..
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~  350 (908)
T COG0419         272 REEELRELERLLEELEEKIERLEELEREIEELEEELEG-LRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAE  350 (908)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555554444333322222 11222222222333333333333333333333333333333


Q ss_pred             HHHHHHHHHHHHhhh-hccHHHHHHHHH-------HHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHH
Q 023255          148 DLNEINGDLAKARDE-SKDMAAIKAEIE-------TERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ  219 (285)
Q Consensus       148 evq~LekDL~~~~~d-~qkl~aLkaEIe-------~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLr  219 (285)
                      ......+-+.+.... ..++..+..++.       .+...++........-.....+..++....++.+....+++++++
T Consensus       351 ~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~  430 (908)
T COG0419         351 EKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELE  430 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            323333333332222 222333333333       334444444555555555666667777777777777888888888


Q ss_pred             HHHHhHHhhH
Q 023255          220 AELANAEKRA  229 (285)
Q Consensus       220 ael~n~e~r~  229 (285)
                      .++.+.+..-
T Consensus       431 ~~~~~~~~~~  440 (908)
T COG0419         431 EEIKKLEEQI  440 (908)
T ss_pred             HHHHHHHHHH
Confidence            8777776443

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=93.16  E-value=13  Score=39.32  Aligned_cols=51  Identities=16%  Similarity=0.294  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          140 VIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       140 ~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      ..-..|+.+++.|+++|+...+.    .+.|.....|-+.|++++.+...+++-.
T Consensus       162 ~~l~sL~~k~~~Le~~L~~le~~r~~e~~~La~~q~e~d~L~~qLsk~~~~le~q  216 (739)
T PF07111_consen  162 EALASLTSKAEELEKSLESLETRRAGEAKELAEAQREADLLREQLSKTQEELEAQ  216 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            34556777888888877776642    5667777778888888888888877754

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

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

Probab=93.14  E-value=6.3  Score=38.43  Aligned_cols=37  Identities=19%  Similarity=0.222  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~  159 (285)
                      .+++|-++++..++.+...+.|...+.+.|.+|+.+.
T Consensus       138 ~~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~  174 (401)
T PF06785_consen  138 HLREENQCLQLQLDALQQECGEKEEESQTLNRELAEA  174 (401)
T ss_pred             HHHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            3445555666666666666666666666666666553

>TIGR02977 phageshock_pspA phage shock protein A

Probab=93.06  E-value=6.5  Score=35.45  Aligned_cols=105  Identities=14%  Similarity=0.181  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHhHHHHHHHHHHHhhhhHHHHHHHHHH
Q 023255           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-SVKAERDAEVRELYEKSLKLDAELRVIESM  124 (285)
Q Consensus        46 ~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~-~~~ae~e~~~r~L~~k~~kleaelr~~e~l  124 (285)
                      .|+.-+.....+|...-...-+..+....+++++.-.+..+.....+.. .++...|---|+.          +......
T Consensus        28 ~l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~A----------l~~k~~~   97 (219)
T TIGR02977        28 MIRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAA----------LIEKQKA   97 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH----------HHHHHHH
Confidence            3333333333334333334444555566666777666666666644433 3444455555555          3333344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      ...+..+...+..+.....+|..++..|++.+.+++
T Consensus        98 ~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k  133 (219)
T TIGR02977        98 QELAEALERELAAVEETLAKLQEDIAKLQAKLAEAR  133 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444445555555554444443

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

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=93.05  E-value=7.8  Score=36.32  Aligned_cols=19  Identities=16%  Similarity=0.221  Sum_probs=8.0

Q ss_pred             hHHHHHHHHHHHHHHHHhH
Q 023255          207 NIISVAQQIERLQAELANA  225 (285)
Q Consensus       207 nli~ma~e~ekLrael~n~  225 (285)
                      ++-..-..++..+..+.++
T Consensus       187 ~~~~~~~~l~~a~~~l~~~  205 (327)
T TIGR02971       187 EVKSALEAVQQAEALLELT  205 (327)
T ss_pred             HHHHHHHHHHHHHHHHhcC
Confidence            3333334444444444433

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. strain PCC 7120 is partially characterized as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter, required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. PCC 7120 has seven members.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.05  E-value=1.7  Score=36.23  Aligned_cols=46  Identities=24%  Similarity=0.291  Sum_probs=34.4

Q ss_pred             hhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023255          182 KGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       182 ~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~  227 (285)
                      ....|+++-++.-..+-+++..+++++.....+++.++..+.....
T Consensus        91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~  136 (140)
T PRK03947         91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQ  136 (140)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456677777777777788888888888888888888887765543

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=93.03  E-value=14  Score=39.14  Aligned_cols=60  Identities=15%  Similarity=0.255  Sum_probs=42.6

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhh------hhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAA------IECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~------~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      .+.++.|.......+.++.++|..      ...|.+.....+-+...|+-.+...==|.++|.++|
T Consensus       250 lqel~~l~~a~~q~~ee~~~~re~~~tv~~LqeE~e~Lqskl~~~~~l~~~~~~LELeN~~l~tkL  315 (716)
T KOG4593|consen  250 LQELEELERALSQLREELATLRENRETVGLLQEELEGLQSKLGRLEKLQSTLLGLELENEDLLTKL  315 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            556677777777777777755543      345667777777777788888777777888888877

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

Probab=92.96  E-value=2.5  Score=39.83  Aligned_cols=65  Identities=14%  Similarity=0.283  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccH----HHHHHHHHHHHHHHHhhh
Q 023255          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM----AAIKAEIETERQEIHKGR  184 (285)
Q Consensus       120 ~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl----~aLkaEIe~LrqEl~~~r  184 (285)
                      ++..+..++.+.+..+..+.+....|.++|++-..||.+.+.-.+.|    |+-..|-+.|..||+++=
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY  238 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLY  238 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence            36777888888888888888888888888888888888876654433    777788888888777653

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

>PRK11519 tyrosine kinase; Provisional

Probab=92.91  E-value=3.4  Score=43.63  Aligned_cols=33  Identities=12%  Similarity=0.155  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~  100 (285)
                      ...+..=|+++|...+.+|...+..+...+...
T Consensus       265 a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~  297 (719)
T PRK11519        265 ASKSLAFLAQQLPEVRSRLDVAENKLNAFRQDK  297 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            344555677777777777777777776666553

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

Probab=92.89  E-value=5.6  Score=37.52  Aligned_cols=97  Identities=18%  Similarity=0.351  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      +..--..|+.-+.....+++.++..+.++.++.           ..||+.   ++.-+.|++..+..++.|++.|--..+
T Consensus       160 ~~~iE~~l~~ai~~~~~~~~~~~~~l~~l~~de-----------~~Le~K---Iekkk~ELER~qKRL~sLq~vRPAfmd  225 (267)
T PF10234_consen  160 LNEIEKALKEAIKAVQQQLQQTQQQLNNLASDE-----------ANLEAK---IEKKKQELERNQKRLQSLQSVRPAFMD  225 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHH---HHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence            344445666667777777777777777766664           133444   777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhh-hcc---HHHHHHHHHHHHH
Q 023255          148 DLNEINGDLAKARDE-SKD---MAAIKAEIETERQ  178 (285)
Q Consensus       148 evq~LekDL~~~~~d-~qk---l~aLkaEIe~Lrq  178 (285)
                      +-..++.||++.=.. ..|   +.-|+.+++....
T Consensus       226 EyEklE~EL~~lY~~Y~~kfRNl~yLe~qle~~~~  260 (267)
T PF10234_consen  226 EYEKLEEELQKLYEIYVEKFRNLDYLEHQLEEYNR  260 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999999987766 555   4667777765543

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

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

Probab=92.88  E-value=5.2  Score=33.78  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=10.4

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           61 LLQDNQRLAATHVALKQELSLAEQELRH   88 (285)
Q Consensus        61 lL~dnqrla~~h~~LqqEL~laqhEL~~   88 (285)
                      +|...++-......|...+.....++..
T Consensus        43 Ll~~~~r~~~~~e~l~~~~~~l~~d~~~   70 (151)
T PF11559_consen   43 LLQQRDRDMEQREDLSDKLRRLRSDIER   70 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            3333333333333333333333333333

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.

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

Probab=92.86  E-value=14  Score=38.66  Aligned_cols=95  Identities=19%  Similarity=0.275  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh------------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE------------SKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d------------~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~  194 (285)
                      ||.-+-.++...++..-.|..++..|...+...+++            +++|.....+|..|-.++++.+++.-.|   .
T Consensus       236 ev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e---~  312 (629)
T KOG0963|consen  236 EVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEE---R  312 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH---H
Confidence            344444445555555555555555555555555433            2233444455555555555555554333   3


Q ss_pred             hhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          195 ASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       195 ~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      ..+..|.++.|+-+-+.-.++|+|+..|.+
T Consensus       313 e~~~~qI~~le~~l~~~~~~leel~~kL~~  342 (629)
T KOG0963|consen  313 EKHKAQISALEKELKAKISELEELKEKLNS  342 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345667888888888888888888877744

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

Probab=92.79  E-value=8  Score=35.75  Aligned_cols=110  Identities=21%  Similarity=0.299  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023255           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMH  125 (285)
Q Consensus        46 ~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk  125 (285)
                      .|+.+|...+.+..+--......-.+...|..++..++.+-..|.........+    +..|-....+.+   ...+.|.
T Consensus         9 Ele~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~----~~rL~~~~~~~~---eEk~~Le   81 (246)
T PF00769_consen    9 ELEERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEE----KQRLEEEAEMQE---EEKEQLE   81 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHH---------------H
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH---HHHHHHH
Confidence            456666666655555555555555566666666666666666665544433222    222311222222   2244566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      .++..+..+|..|....+.-..++..+..++...+.+
T Consensus        82 ~e~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~  118 (246)
T PF00769_consen   82 QELREAEAEIARLEEESERKEEEAEELQEELEEARED  118 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666666666666666665544

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

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=92.78  E-value=0.031  Score=60.09  Aligned_cols=106  Identities=15%  Similarity=0.325  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR----DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~----~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq  200 (285)
                      ...|.++.+++..-...+.++....+.|+.||.++.    ..+..-..+...|..+...+..+...++.....+-+..++
T Consensus       524 qr~l~~le~~LE~E~k~r~~~~r~kkKLE~~l~eLe~~ld~~n~~~~e~~k~~kk~q~qlkdlq~~lee~~~~~~~~~~~  603 (859)
T PF01576_consen  524 QRQLESLEAELEEERKERAEALREKKKLESDLNELEIQLDHANRANEEAQKQLKKLQAQLKDLQRELEEAQRAREELREQ  603 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            334444444444444444444444455555554443    2244456777888889999999999999999999999999


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHHhhHH
Q 023255          201 REIMEKNIISVAQQIERLQAELANAEKRAR  230 (285)
Q Consensus       201 ~q~meknli~ma~e~ekLrael~n~e~r~~  230 (285)
                      ...+|+-+..|..|++-++..+..+++--+
T Consensus       604 ~~~~e~r~~~l~~elee~~~~~~~a~r~rk  633 (859)
T PF01576_consen  604 LAVSERRLRALQAELEELREALEQAERARK  633 (859)
T ss_dssp             ------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998874433

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>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=92.77  E-value=7.7  Score=35.49  Aligned_cols=36  Identities=22%  Similarity=0.375  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL  156 (285)
                      +..++..+.+++.++........++...++.....+
T Consensus        72 ~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l  107 (302)
T PF10186_consen   72 LERLRERIERLRKRIEQKRERLEELRESLEQRRSRL  107 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444433333

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

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=92.77  E-value=0.031  Score=58.74  Aligned_cols=101  Identities=20%  Similarity=0.345  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhhh----------hccHHHHHHHHHHHHHHHH
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEM----------IKDLNEINGDLAKARDE----------SKDMAAIKAEIETERQEIH  181 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL----------~aevq~LekDL~~~~~d----------~qkl~aLkaEIe~LrqEl~  181 (285)
                      +.++.++..++.++++.....++|          ..+|+.|+.++.....+          ..+++.|.++...++.|+.
T Consensus       195 ~~l~~~le~~~~~~~e~e~~~~~L~~~q~~~~e~e~~i~~Le~el~~~~~~~~i~k~l~~ql~~i~~LE~en~~l~~Elk  274 (722)
T PF05557_consen  195 EELKEQLEELQSELQEAEQQLQELQASQASLAEAEQKIKELEAELKDQESDAEINKELKEQLAHIRELEKENRRLREELK  274 (722)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444554444444444444          45555555544443332          4556778888888888888


Q ss_pred             hhhhhh------hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          182 KGRAAI------ECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       182 ~~ra~~------e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ++|...      +.|+..-...++.+..++..|..+=-|+++|..|+
T Consensus       275 ~Lr~~~~n~elLeEe~~sLq~kl~~~E~~~~el~~lq~e~~~Le~el  321 (722)
T PF05557_consen  275 HLRQSQENVELLEEEKRSLQRKLERLEELEEELAELQLENEKLEDEL  321 (722)
T ss_dssp             -----------------------------------------------
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            877643      34555555555666666666666655666666655

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=92.72  E-value=13  Score=37.90  Aligned_cols=109  Identities=18%  Similarity=0.196  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           80 SLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLD-----------------AELRVIESMHAELDRVRADIEKLCVIK  142 (285)
Q Consensus        80 ~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kle-----------------aelr~~e~lk~El~qlr~eiq~l~~~r  142 (285)
                      ...+..|+.+...+..-...-...+-..+.+..++|                 ..++....+...+.-++.......++-
T Consensus       158 ~sL~ekl~lld~al~~~~~~~~~~~~~fl~rtl~~e~~~~~L~~~~~A~~~~~~~l~~~~e~~~~l~l~~~~~~~~~~el  237 (511)
T PF09787_consen  158 RSLQEKLSLLDEALKREDGNAITAVVEFLKRTLKKEIERQELEERPKALRHYIEYLRESGELQEQLELLKAEGESEEAEL  237 (511)
T ss_pred             hhHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            444444444444444333333333444556666666                 334445555555555555555555555


Q ss_pred             HHHHHHHHHHHH----HHHHHhh----h-hcc------HHHHHHHHHHHHHHHHhhhhhhh
Q 023255          143 QEMIKDLNEING----DLAKARD----E-SKD------MAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       143 qeL~aevq~Lek----DL~~~~~----d-~qk------l~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .++..+...+-+    =+..++.    + .+.      ++.|+.|.+.++.+++.++..|+
T Consensus       238 ~~Yk~kA~~iLq~kEklI~~LK~~~~~~~~~~~~~~~el~~l~~E~~~~~ee~~~l~~Qi~  298 (511)
T PF09787_consen  238 QQYKQKAQRILQSKEKLIESLKEGCLEEGFDSSTNSIELEELKQERDHLQEEIQLLERQIE  298 (511)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHhcccccccccccchhcchhhHHHHHHHHHHHHHHHHHHH
Confidence            555533322222    2222222    1 111      78888888888888888888873

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=92.71  E-value=14  Score=38.18  Aligned_cols=82  Identities=15%  Similarity=0.193  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          145 MIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       145 L~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      +..+++.+++.+......  .-.+...+..++.+..+|..+-..+|.|-+++..--+....+..-+-.+......|..|+
T Consensus       250 i~~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~  329 (560)
T PF06160_consen  250 IEEEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEEL  329 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            444566666666666655  446788888888999999999999999999988888888888888888777777777777


Q ss_pred             HhHH
Q 023255          223 ANAE  226 (285)
Q Consensus       223 ~n~e  226 (285)
                      ....
T Consensus       330 ~~v~  333 (560)
T PF06160_consen  330 ERVS  333 (560)
T ss_pred             HHHH
Confidence            5443

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

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

Probab=92.71  E-value=6.4  Score=34.39  Aligned_cols=16  Identities=19%  Similarity=0.464  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHhHH
Q 023255          211 VAQQIERLQAELANAE  226 (285)
Q Consensus       211 ma~e~ekLrael~n~e  226 (285)
                      +..||..||++|++++
T Consensus       136 i~~ei~~lr~~iE~~K  151 (177)
T PF07798_consen  136 IDTEIANLRTEIESLK  151 (177)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4557778888887766

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=92.64  E-value=8.3  Score=35.56  Aligned_cols=140  Identities=18%  Similarity=0.177  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~  123 (285)
                      |..+.-.+.....+++.........-.....+..++.....++.-|......+.                     +....
T Consensus        19 ~~~l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~---------------------~~~~~   77 (264)
T PF06008_consen   19 PYKLLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVS---------------------RKAQQ   77 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHH
Confidence            334555555555555555555444444444444555555555555544443222                     22333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hhccHHHHHHHHHHHHHHH-----Hhhhhhhhhhhhh
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-----ESKDMAAIKAEIETERQEI-----HKGRAAIECEKKN  193 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~-----d~qkl~aLkaEIe~LrqEl-----~~~ra~~e~ekk~  193 (285)
                      +...........+.|....+.+...|+.|-.++..+..     ....++...+|++.|=+++     ...+..-+.|++.
T Consensus        78 l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~f~~~~~~Ae~El~~  157 (264)
T PF06008_consen   78 LNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRDFTPQRQNAEDELKE  157 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence            34444444444444444444455555555555555444     3666777777777776666     4556677778877


Q ss_pred             chhhhHHHHHH
Q 023255          194 RASNHEQREIM  204 (285)
Q Consensus       194 ~~e~~eq~q~m  204 (285)
                      -.+++.+++.-
T Consensus       158 A~~LL~~v~~~  168 (264)
T PF06008_consen  158 AEDLLSRVQKW  168 (264)
T ss_pred             HHHHHHHHHHH
Confidence            77777777664

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PF07246 Phlebovirus_NSM: Phlebovirus nonstructural protein NS-M; InterPro: IPR009879 This entry consists of several Phlebovirus nonstructural NS-M proteins, which represent the N-terminal region of the M polyprotein precursor

Probab=92.57  E-value=3.9  Score=38.46  Aligned_cols=80  Identities=10%  Similarity=0.108  Sum_probs=39.9

Q ss_pred             EeecCC-----CcccccCCccCCCCC------------CCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 023255           10 TTLHNH-----SQFTMSGRRVLREPP------------LSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATH   72 (285)
Q Consensus        10 vtf~p~-----rsvTleGD~ydpeG~------------LsGGs~p~~~~~l~n~Lee~L~~q~~EIq~lL~dnqrla~~h   72 (285)
                      +||..+     -+||-+|+.-.|...            |+=|.+|  +++.++.+........+-|+....+...     
T Consensus        94 lTC~~~~~s~Gv~l~fnGlddepG~~IVDC~~~~~isdLgv~vg~--g~v~~~~~~~~~~ekd~~i~~~~~~~e~-----  166 (264)
T PF07246_consen   94 LTCIGSLGSEGVSLDFNGLDDEPGHNIVDCDTFKIISDLGVGVGD--GRVDYEELKKEAEEKDQLIKEKTQEREN-----  166 (264)
T ss_pred             eeecCCCCcceeEEecCCCCCCCCCeeEecCCCCEeeeccccccc--ccccHHHHHHHHHHHHHHHHHHhhchhh-----
Confidence            566554     677778875444332            2222222  2344555555443333334433222222     


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                         ..+-+.++|+++.+...+.+.+.+
T Consensus       167 ---d~rnq~l~~~i~~l~~~l~~~~~~  190 (264)
T PF07246_consen  167 ---DRRNQILSHEISNLTNELSNLRND  190 (264)
T ss_pred             ---hhHHHHHHHHHHHhhhhHHHhhch
Confidence               344455567777776666655555

The function of this family is unknown.

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

Probab=92.57  E-value=17  Score=39.08  Aligned_cols=59  Identities=22%  Similarity=0.279  Sum_probs=35.8

Q ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHhhhhhHhHHHHHHHHHH
Q 023255           51 IAIQHS-DIQSLLQDNQRLAATHVALKQELSLAEQELRHLS--------------SVAASVKAERDAEVRELYE  109 (285)
Q Consensus        51 L~~q~~-EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~--------------~~i~~~~ae~e~~~r~L~~  109 (285)
                      |..||. -.+.-...+.+.-+...+|+++|+.+.+.--.++              +++...+-|+|..|.+.+-
T Consensus         4 lvkqh~kvaeeav~gwekae~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~~~   77 (769)
T PF05911_consen    4 LVKQHAKVAEEAVSGWEKAEAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEAVA   77 (769)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            445555 3344456677777888888888887765544333              4444555566666655543

The function of this family is unknown.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=92.37  E-value=14  Score=37.58  Aligned_cols=98  Identities=9%  Similarity=0.200  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHH
Q 023255          133 ADIEKLCVIKQEMIKDLNEINGDLAKARDE----------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       133 ~eiq~l~~~rqeL~aevq~LekDL~~~~~d----------~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      ..+..+...+++|..+-+.|-.++=+-++.          .+=|.-|+..|+..++.+.   ..+..+.+.+..+.+|.+
T Consensus        99 ek~~~l~~~~~~L~~~F~~LA~~ile~k~~~f~~~~~~~l~~ll~Pl~e~l~~f~~~v~---~~~~~~~~~~~~L~~qi~  175 (475)
T PRK10361         99 DKIRQMINSEQRLSEQFENLANRIFEHSNRRVDEQNRQSLNSLLSPLREQLDGFRRQVQ---DSFGKEAQERHTLAHEIR  175 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence            334445555555666666655555443322          1113444555555554444   233457788899999998


Q ss_pred             HHHHhHHHHHHHHHHHHHHHHh-HHhh-HHHHH
Q 023255          203 IMEKNIISVAQQIERLQAELAN-AEKR-ARAAA  233 (285)
Q Consensus       203 ~meknli~ma~e~ekLrael~n-~e~r-~~a~~  233 (285)
                      .|-.--..|..|..+|--=|-. ...| .||-.
T Consensus       176 ~L~~~n~~i~~ea~nLt~ALkgd~K~rG~WGE~  208 (475)
T PRK10361        176 NLQQLNAQMAQEAINLTRALKGDNKTQGNWGEV  208 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCcCcchHHH
Confidence            8877778888899888777743 3444 45543

>COG4913 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.34  E-value=18  Score=38.83  Aligned_cols=28  Identities=29%  Similarity=0.457  Sum_probs=23.4

Q ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023255          198 HEQREIMEKNIISVAQQIERLQAELANA  225 (285)
Q Consensus       198 ~eq~q~meknli~ma~e~ekLrael~n~  225 (285)
                      .++.+-+.|-+.....++-.||.+|.-.
T Consensus       775 ~~~r~~LqkrIDa~na~Lrrl~~~Iig~  802 (1104)
T COG4913         775 IEHRRQLQKRIDAVNARLRRLREEIIGR  802 (1104)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence            5677888899999999999999998654

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=92.23  E-value=10  Score=40.48  Aligned_cols=79  Identities=22%  Similarity=0.180  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHH--H--
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVI--E--  122 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~--e--  122 (285)
                      |.++|+.+..|+...+.    -|..+..|+..|...+.|++..+...       ..--..|.||+.||-.|+...  +  
T Consensus       460 L~e~IeKLk~E~d~e~S----~A~~~~gLk~kL~~Lr~E~sKa~~~~-------~~~~~~L~eK~~kLk~Efnkkl~ea~  528 (762)
T PLN03229        460 LNEMIEKLKKEIDLEYT----EAVIAMGLQERLENLREEFSKANSQD-------QLMHPVLMEKIEKLKDEFNKRLSRAP  528 (762)
T ss_pred             HHHHHHHHHHHHHHHHH----HhhhhhhHHHHHHHHHHHHHhccccc-------ccccHHHHHHHHHHHHHHHHhhhccc
Confidence            56666666666655543    46677888888888887777753211       011123556666666654222  2  


Q ss_pred             ---HHHHHHHHHHHHHH
Q 023255          123 ---SMHAELDRVRADIE  136 (285)
Q Consensus       123 ---~lk~El~qlr~eiq  136 (285)
                         .++..++-|++..+
T Consensus       529 n~p~lk~Kle~Lk~~~~  545 (762)
T PLN03229        529 NYLSLKYKLDMLNEFSR  545 (762)
T ss_pred             ccHHHHHHHHHHHHHHH
Confidence               45555555555554

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=92.17  E-value=9.1  Score=37.46  Aligned_cols=86  Identities=19%  Similarity=0.299  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhh--hhHhHHHHHHHHHHHhhhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           74 ALKQELSLAEQELRHLSSVAAS--VKAERDAEVRELYEKSLKLDAELRV----IESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        74 ~LqqEL~laqhEL~~l~~~i~~--~~ae~e~~~r~L~~k~~kleaelr~----~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      .+.+.|....+++..+...-..  ...+.+..|-+||+..-+++.-.-.    ++-|+ -|..+|.++.........|..
T Consensus       265 ~i~~rl~~L~~~~~~l~~~~~~~~~~~~~e~KI~eLy~~l~~~~~~~~~lP~lv~RL~-tL~~lH~~a~~~~~~l~~le~  343 (388)
T PF04912_consen  265 SIERRLKSLLSELEELAEKRKEAKEDAEQESKIDELYEILPRWDPYAPSLPSLVERLK-TLKSLHEEAAEFSQTLSELES  343 (388)
T ss_pred             HHHHHHHHHHHHHHHHHhccccccccccchhHHHHHHHHHHHHHHHhhhhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444332222  2345667788888888887765322    22232 444555555555555555555


Q ss_pred             HHHHHHHHHHHHh
Q 023255          148 DLNEINGDLAKAR  160 (285)
Q Consensus       148 evq~LekDL~~~~  160 (285)
                      ....|..+|..|.
T Consensus       344 ~q~~l~~~l~~~~  356 (388)
T PF04912_consen  344 QQSDLQSQLKKWE  356 (388)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555554444443

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

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

Probab=92.13  E-value=17  Score=37.98  Aligned_cols=44  Identities=14%  Similarity=0.349  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhh
Q 023255          141 IKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       141 ~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      .|..|..++..+......-..+    ..+++.++.+++.+..|++...
T Consensus       420 ~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Ke  467 (594)
T PF05667_consen  420 HRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKE  467 (594)
T ss_pred             HHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555554333322211    2334455555555444444433

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=92.12  E-value=16  Score=37.50  Aligned_cols=26  Identities=23%  Similarity=0.373  Sum_probs=11.5

Q ss_pred             HHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023255          205 EKNIISVAQQIERLQAELANAEKRARAA  232 (285)
Q Consensus       205 eknli~ma~e~ekLrael~n~e~r~~a~  232 (285)
                      ......|.+++|+-=.+  +|+++|+--
T Consensus       162 ~~~~~~~~~~~~~~~~~--~a~~~a~~i  187 (514)
T TIGR03319       162 RHEAAKLIKEIEEEAKE--EADKKAKEI  187 (514)
T ss_pred             HHHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence            34444455555442222  445555443

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=92.11  E-value=16  Score=37.54  Aligned_cols=141  Identities=21%  Similarity=0.266  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~  123 (285)
                      ...|.++..+.+..+..+..+..-|.+...+|+..|..-.+.   |..++.....+.+--.|..+++....-.+      
T Consensus       339 ld~LqEksqile~sv~~l~~~lkDLd~~~~aLs~rld~qEqt---L~~rL~e~~~e~~~~~r~~lekl~~~q~e------  409 (531)
T PF15450_consen  339 LDLLQEKSQILEDSVAELMRQLKDLDDHILALSWRLDLQEQT---LNLRLSEAKNEWESDERKSLEKLDQWQNE------  409 (531)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Confidence            567888888888888888888888999999999998765554   55667777777777777775555333332      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e  196 (285)
                      +.+.+..++..+..+-....++..++..+..|+.-   - ...-++..-+|..+|+||..+-..+-|-|-+++-
T Consensus       410 ~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~---kIdtE~k~R~~eV~~vRqELa~lLssvQ~~~e~~~~  480 (531)
T PF15450_consen  410 MEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDT---KIDTEGKAREREVGAVRQELATLLSSVQLLKEDNPG  480 (531)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhh---hccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChh
Confidence            33344444444555555555566666555555432   2 4455788899999999999999999999887776

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

Probab=92.10  E-value=5.5  Score=37.80  Aligned_cols=93  Identities=22%  Similarity=0.286  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHH-----
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR-----  201 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~-----  201 (285)
                      .|+.+...+++|..+++.=.=++.+++.-|++   --+|.+.-+.++-.|+.|.+.+...|+..-|.+..+..-+     
T Consensus        19 KIqelE~QldkLkKE~qQrQfQleSlEAaLqK---QKqK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~   95 (307)
T PF10481_consen   19 KIQELEQQLDKLKKERQQRQFQLESLEAALQK---QKQKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKES   95 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH---HHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHH
Confidence            44445555555555566556666666666554   3566777777778888888888888877777776665433     


Q ss_pred             --HHHHHhHHHHHHHHHHHHHHH
Q 023255          202 --EIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       202 --q~meknli~ma~e~ekLrael  222 (285)
                        .-+|.-|.+--..||+|-.||
T Consensus        96 qv~~lEgQl~s~Kkqie~Leqel  118 (307)
T PF10481_consen   96 QVNFLEGQLNSCKKQIEKLEQEL  118 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence              345555555555555555554

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

>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=92.09  E-value=6.1  Score=36.25  Aligned_cols=51  Identities=18%  Similarity=0.357  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEI  173 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEI  173 (285)
                      .+..++.++..++..|....+.+...+...+++|.+++.....+...+.+|
T Consensus        53 ~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l  103 (251)
T PF11932_consen   53 ELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQEL  103 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444444

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.

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

Probab=92.09  E-value=7.9  Score=36.84  Aligned_cols=86  Identities=16%  Similarity=0.252  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           78 ELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (285)
Q Consensus        78 EL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~  157 (285)
                      .|.--.-||.-|..++...+.+=      |-|-.-+.||.|.- .+.++||.||+.-|+.+.+..-   .+=+.|.|=..
T Consensus        83 ~l~dRetEI~eLksQL~RMrEDW------IEEECHRVEAQLAL-KEARkEIkQLkQvieTmrssL~---ekDkGiQKYFv  152 (305)
T PF15290_consen   83 RLHDRETEIDELKSQLARMREDW------IEEECHRVEAQLAL-KEARKEIKQLKQVIETMRSSLA---EKDKGIQKYFV  152 (305)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhc---hhhhhHHHHHh
Confidence            34444555666666666555555      66667777888754 4455688888887776555443   33333333222


Q ss_pred             HHhhhhccHHHHHHHH
Q 023255          158 KARDESKDMAAIKAEI  173 (285)
Q Consensus       158 ~~~~d~qkl~aLkaEI  173 (285)
                      +.+-.+.||..|-.-.
T Consensus       153 DINiQN~KLEsLLqsM  168 (305)
T PF15290_consen  153 DINIQNKKLESLLQSM  168 (305)
T ss_pred             hhhhhHhHHHHHHHHH
Confidence            2333455555554433

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

Probab=92.01  E-value=4.5  Score=37.61  Aligned_cols=43  Identities=19%  Similarity=0.259  Sum_probs=31.5

Q ss_pred             hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHH
Q 023255          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRAR  230 (285)
Q Consensus       188 e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~  230 (285)
                      |--|.-+.|+=+++....+.+..+-+||++||++=.+-=.+-|
T Consensus        89 DRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiR  131 (248)
T PF08172_consen   89 DRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIR  131 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345667777788888888888899999999999555433343

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

>PF15294 Leu_zip: Leucine zipper

Probab=91.97  E-value=11  Score=35.65  Aligned_cols=80  Identities=18%  Similarity=0.289  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh-----hhhhhhchhhhHHHHHHHHhHHHHHHH
Q 023255          141 IKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI-----ECEKKNRASNHEQREIMEKNIISVAQQ  214 (285)
Q Consensus       141 ~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~-----e~ekk~~~e~~eq~q~meknli~ma~e  214 (285)
                      ...+|..++..+..++.+.-.| .+..+.|+..|...++++-+.....     |.|||.+.  .-+-.-|-+=|..=.-+
T Consensus       191 ~l~dLE~k~a~lK~e~ek~~~d~~~~~k~L~e~L~~~KhelL~~QeqL~~aekeLekKfqq--T~ay~NMk~~ltkKn~Q  268 (278)
T PF15294_consen  191 DLSDLENKMAALKSELEKALQDKESQQKALEETLQSCKHELLRVQEQLSLAEKELEKKFQQ--TAAYRNMKEILTKKNEQ  268 (278)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhcchhhHHHHhCc--cHHHHHhHHHHHhccHH
Confidence            3456777788888888887777 7788999999999888888877664     56666653  45555554444444447


Q ss_pred             HHHHHHHH
Q 023255          215 IERLQAEL  222 (285)
Q Consensus       215 ~ekLrael  222 (285)
                      |--||-.|
T Consensus       269 iKeLRkrl  276 (278)
T PF15294_consen  269 IKELRKRL  276 (278)
T ss_pred             HHHHHHHh
Confidence            77777665

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

Probab=91.96  E-value=14  Score=36.75  Aligned_cols=44  Identities=16%  Similarity=0.170  Sum_probs=24.8

Q ss_pred             HHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHH
Q 023255          178 QEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE  221 (285)
Q Consensus       178 qEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrae  221 (285)
                      .+|..-.+-||-+-+.-+-.-++.|+-++-|.+.+.-...+-.+
T Consensus       189 ~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq~~q~  232 (499)
T COG4372         189 LDLKLRSAQIEQEAQNLATRANAAQARTEELARRAAAAQQTAQA  232 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334466666666666666777777776665544444333

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=91.88  E-value=16  Score=37.18  Aligned_cols=83  Identities=12%  Similarity=0.151  Sum_probs=49.7

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          111 SLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       111 ~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .....+.+......+.++.+++.++..+.....++.++...++..+..-+.. ..|+..|..--+.|+.+...+-..|=.
T Consensus        45 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~le~~~~~~~ek~~~l~~~~~~L~~~F~~LA~~ile  124 (475)
T PRK10361         45 LSAAKQQITQSEHWRAECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHADDKIRQMINSEQRLSEQFENLANRIFE  124 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444445555666666666666666666666666666666666655544 556666666566666666666665555


Q ss_pred             hhhh
Q 023255          190 EKKN  193 (285)
Q Consensus       190 ekk~  193 (285)
                      +|..
T Consensus       125 ~k~~  128 (475)
T PRK10361        125 HSNR  128 (475)
T ss_pred             HHHH
Confidence            5433

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=91.87  E-value=2.6  Score=31.76  Aligned_cols=62  Identities=19%  Similarity=0.273  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      +..++..+..+...+.......+.|..+=.....-|...   -..+..|+.|++.+++|+.+.|+
T Consensus         7 ~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a---~~e~~~Lk~E~e~L~~el~~~r~   68 (69)
T PF14197_consen    7 IATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDA---YEENNKLKEENEALRKELEELRA   68 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhc
Confidence            444555555555555444444444444333333333332   23345577777777777766553

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.76  E-value=16  Score=36.95  Aligned_cols=41  Identities=20%  Similarity=0.273  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      .+++.++-..|...+.||.+......+|..++.++..-|++
T Consensus       388 tqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~R  428 (521)
T KOG1937|consen  388 TQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNR  428 (521)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            35555555566666666666666666666666666655554

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

Probab=91.74  E-value=22  Score=38.56  Aligned_cols=64  Identities=19%  Similarity=0.211  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL  107 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L  107 (285)
                      .+.+|+.+...+..|.-+-..++++-.+..+||.-++.++.++.-.+-.+.+..+.-+...-+|
T Consensus        94 v~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eL  157 (1265)
T KOG0976|consen   94 VNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDEL  157 (1265)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            5678888887777777777777777777777777777777777777777766666544433333

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=91.73  E-value=20  Score=37.91  Aligned_cols=35  Identities=17%  Similarity=0.150  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023255           66 QRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (285)
Q Consensus        66 qrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~  100 (285)
                      +.......-|..+|...+.+|...+..+...+..+
T Consensus       190 ~~~~~a~~~L~~ql~~l~~~l~~aE~~l~~fk~~~  224 (754)
T TIGR01005       190 ESNTAAADFLAPEIADLSKQSRDAEAEVAAYRAQS  224 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            33445667788888888888888888888887753

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=91.64  E-value=1.5  Score=37.88  Aligned_cols=67  Identities=15%  Similarity=0.286  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .....++...++....+...+..|..++....+.|..|+....-..+|+++|+.|+.+.......++
T Consensus         9 ~~~gk~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e   75 (155)
T PF06810_consen    9 AENGKDIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYE   75 (155)
T ss_pred             HHccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566667777777788888888889999999999888788888899999988888875544433

The function of this family is unknown.; GO: 0005198 structural molecule activity

>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=91.45  E-value=2.9  Score=36.03  Aligned_cols=63  Identities=17%  Similarity=0.393  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      ...+..+|.+++.++..+....+.|.+++..|.+.+.-  .+ ..++..|+.|++.|...|..++.
T Consensus        74 l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~--~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   74 LAELDAEIKELREELAELKKEVKSLEAELASLSSEPTN--EELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44455556666666666555555555555555544322  11 34445555555555555555554

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 [].

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

Probab=91.40  E-value=9.1  Score=36.33  Aligned_cols=65  Identities=18%  Similarity=0.266  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      ..++.|..-+......+...++.|+-+++.-+..+.=+   ..++...+..|+.|-+++.+++..+|-
T Consensus        63 s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~l---EgQl~s~Kkqie~Leqelkr~KsELEr  127 (307)
T PF10481_consen   63 SALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFL---EGQLNSCKKQIEKLEQELKRCKSELER  127 (307)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444333333322221   344444555555555555555554443

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

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=91.33  E-value=1.2  Score=46.09  Aligned_cols=61  Identities=25%  Similarity=0.367  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .|.+.+++.=+..+..|+.++.++||+|..+|..+.          .|+.+|+.+|..-++||.++...||
T Consensus        78 ~r~~~e~~RI~~sVs~EL~ele~krqel~seI~~~n----------~kiEelk~~i~~~q~eL~~Lk~~ie  138 (907)
T KOG2264|consen   78 GRILREQKRILASVSLELTELEVKRQELNSEIEEIN----------TKIEELKRLIPQKQLELSALKGEIE  138 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH----------HHHHHHHHHHHHhHHHHHHHHhHHH
Confidence            444566666666778888888899999988887765          4566666777666666666655554

>PRK12704 phosphodiesterase; Provisional

Probab=91.09  E-value=20  Score=36.76  Aligned_cols=27  Identities=22%  Similarity=0.337  Sum_probs=11.8

Q ss_pred             HHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023255          204 MEKNIISVAQQIERLQAELANAEKRARAA  232 (285)
Q Consensus       204 meknli~ma~e~ekLrael~n~e~r~~a~  232 (285)
                      .......|.+++|.-=.+  +|+++|+--
T Consensus       167 ~~~~~~~~~~~~~~~~~~--~a~~~a~~i  193 (520)
T PRK12704        167 ARHEAAVLIKEIEEEAKE--EADKKAKEI  193 (520)
T ss_pred             HHHHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence            334444555555443222  345555443

>PRK11546 zraP zinc resistance protein; Provisional

Probab=90.82  E-value=1.7  Score=37.27  Aligned_cols=41  Identities=24%  Similarity=0.261  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       147 aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ++-..|...+..-..|.++|.+|.+||..|+++|...|..+
T Consensus        72 aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~  112 (143)
T PRK11546         72 SKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKR  112 (143)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444455566778899999999999999988777643

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=90.80  E-value=5.9  Score=34.07  Aligned_cols=50  Identities=26%  Similarity=0.327  Sum_probs=42.6

Q ss_pred             hhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023255          182 KGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (285)
Q Consensus       182 ~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a  231 (285)
                      ....|+|+-||...++-.-.+.|+.+|--+++.+..++.++.-.-.+..+
T Consensus        91 ~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q~~~~  140 (145)
T COG1730          91 SADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQKQAA  140 (145)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35678899999999999999999999999999999999999766665544

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

Probab=90.74  E-value=33  Score=38.71  Aligned_cols=51  Identities=22%  Similarity=0.294  Sum_probs=30.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLD  115 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kle  115 (285)
                      -++...+..+-++..+....+|+.|-..+.+.-..   .=.+|+++.++.++||
T Consensus      1452 Aq~~~~~a~as~~q~~~s~~el~~Li~~v~~Flt~~~adp~si~~vA~~vL~l~ 1505 (1758)
T KOG0994|consen 1452 AQRALEQANASRSQMEESNRELRNLIQQVRDFLTQPDADPDSIEEVAEEVLALE 1505 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcc
Confidence            34455556666677777777777777666654332   2234555655555554

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

Probab=90.74  E-value=2.1  Score=39.80  Aligned_cols=41  Identities=17%  Similarity=0.251  Sum_probs=35.3

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHH
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~m  204 (285)
                      ++..+|++|+..+++++..++..++--|+-|..++|..+=+
T Consensus        93 ~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRyl  133 (248)
T PF08172_consen   93 QRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYL  133 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34578899999999999999999999999999999987763

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

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

Probab=90.69  E-value=29  Score=37.88  Aligned_cols=16  Identities=13%  Similarity=0.279  Sum_probs=6.3

Q ss_pred             HHHHHHHHhHHHHHHH
Q 023255           57 DIQSLLQDNQRLAATH   72 (285)
Q Consensus        57 EIq~lL~dnqrla~~h   72 (285)
                      .+.+.....++...++
T Consensus       348 ~l~~~~~ear~~~~q~  363 (980)
T KOG0980|consen  348 QLENLKEEARRRIEQY  363 (980)
T ss_pred             hhhhHHHHHHHHHHHH
Confidence            3344444434333333

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=90.69  E-value=13  Score=34.71  Aligned_cols=61  Identities=11%  Similarity=0.087  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHhhh-hccHHHHH----HHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHH
Q 023255          146 IKDLNEINGDLAKARDE-SKDMAAIK----AEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (285)
Q Consensus       146 ~aevq~LekDL~~~~~d-~qkl~aLk----aEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mek  206 (285)
                      ..++...+.++...+++ ..+++.+.    .+...+.....+..+........+...+.+..+|..
T Consensus       188 ~~~~~~~~~~l~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~a~~~~~~~~~~G~l~R~~Al~~  253 (301)
T PF14362_consen  188 RAQLDAAQAELDTLQAQIDAAIAALDAQIAARKARLDEARQAKVAEFQAIISANDGFLARLEALWE  253 (301)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHhhccCCCHHHHHHHHHH
Confidence            33344444444444444 44445555    666666666666666666666777777777777653

>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]

Probab=90.69  E-value=20  Score=35.94  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=17.6

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          202 EIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       202 q~meknli~ma~e~ekLrael~n~e  226 (285)
                      .+-|.-+-=+.+||.-||-||..+-
T Consensus       515 RVKEsEiQYLKqEissLkDELQtal  539 (593)
T KOG4807|consen  515 RVKESEIQYLKQEISSLKDELQTAL  539 (593)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555667778888888887663

>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit

Probab=90.62  E-value=9.9  Score=32.44  Aligned_cols=34  Identities=21%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023255           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASV   96 (285)
Q Consensus        63 ~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~   96 (285)
                      -+...+...+.+|.+.|....|-|..|+..+...
T Consensus        20 ~~~e~ll~~~~~LE~qL~~~~~~l~lLq~e~~~~   53 (160)
T PF13094_consen   20 FDYEQLLDRKRALERQLAANLHQLELLQEEIEKE   53 (160)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666666777777777777777776666533

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

Probab=90.58  E-value=35  Score=38.60  Aligned_cols=38  Identities=26%  Similarity=0.302  Sum_probs=27.7

Q ss_pred             hhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023255          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (285)
Q Consensus       195 ~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~  232 (285)
                      .+.+..++-||-.+.+=-+-++.+-+||+-.++|-+..
T Consensus      1706 ~~kl~~l~dLe~~y~~~~~~L~~~~aeL~~Le~r~~~v 1743 (1758)
T KOG0994|consen 1706 NEKLDRLKDLELEYLRNEQALEDKAAELAGLEKRVESV 1743 (1758)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHHHH
Confidence            34556666677666777778888889998888886654

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=90.58  E-value=18  Score=35.41  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=14.1

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHH
Q 023255          201 REIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       201 ~q~meknli~ma~e~ekLrael~  223 (285)
                      ....+..+.....++..++.++.
T Consensus       229 ~~~~~~~l~~~~~~l~~~~~~l~  251 (421)
T TIGR03794       229 LETVEARIKEARYEIEELENKLN  251 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444556666667777777774

Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.

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

Probab=90.57  E-value=19  Score=38.46  Aligned_cols=19  Identities=21%  Similarity=0.300  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLL   62 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL   62 (285)
                      -..||..|+.+.+++.-..
T Consensus        93 ndklE~~Lankda~lrq~e  111 (916)
T KOG0249|consen   93 NDKLENELANKDADLRQNE  111 (916)
T ss_pred             hHHHHHHHhCcchhhchhH
Confidence            4577777777766544333

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=90.54  E-value=16  Score=34.61  Aligned_cols=106  Identities=12%  Similarity=0.190  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          122 ESMHAELDRVRADIEKLCVI------------KQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~------------rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ..+|.+|.+-...++++...            -+.|.+++..|.++=.++..-  ..+|..|..|+---|..-..+++.+
T Consensus       180 ~rlK~ele~tk~Klee~QnelsAwkFTPdS~tGK~LMAKCR~L~qENeElG~q~s~Gria~Le~eLAmQKs~seElkssq  259 (330)
T KOG2991|consen  180 LRLKGELEQTKDKLEEAQNELSAWKFTPDSKTGKMLMAKCRTLQQENEELGHQASEGRIAELEIELAMQKSQSEELKSSQ  259 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhheeeecCCCcchHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHHhhHHHHHHhH
Confidence            45666666666666666543            467889999999888888766  7789999999977777777778888


Q ss_pred             hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023255          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (285)
Q Consensus       188 e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~  227 (285)
                      +..-+--.++-+-+..|...++-+-.+++.-|-||...+|
T Consensus       260 ~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k  299 (330)
T KOG2991|consen  260 EELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKK  299 (330)
T ss_pred             HHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHH
Confidence            8888877888888888888888888877777777765553

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

Probab=90.50  E-value=3.6  Score=32.70  Aligned_cols=66  Identities=18%  Similarity=0.350  Sum_probs=38.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA  186 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~  186 (285)
                      ...++..+-.+-.+..++..+++.+.+.+..++.+|..+.+       .+....+|++++..++.++..+...
T Consensus        24 ~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~-------~~~~~~~l~~e~~~lk~~i~~le~~   89 (108)
T PF02403_consen   24 DEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKK-------AGEDAEELKAEVKELKEEIKELEEQ   89 (108)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH-------TTCCTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhh-------CcccHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556666666666777777777777777766666554       2344455555555555555544443

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 ....

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=90.46  E-value=12  Score=36.62  Aligned_cols=100  Identities=10%  Similarity=0.242  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHH-
Q 023255          129 DRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK-  206 (285)
Q Consensus       129 ~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mek-  206 (285)
                      ..++..+.++......-..+|.+-++=|+.--.. .++...++.++..++.+++.+...+..-...-++..+++..+.+ 
T Consensus       237 ~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~e  316 (359)
T PF10498_consen  237 PETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQE  316 (359)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333434444333333444444444444432222 44445555555555555555555555555444444444433222 


Q ss_pred             ------------hHHHHHHHHHHHHHHHHhHHhh
Q 023255          207 ------------NIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       207 ------------nli~ma~e~ekLrael~n~e~r  228 (285)
                                  .|+.+.+=|-|||.||..++-|
T Consensus       317 meerg~~mtD~sPlv~IKqAl~kLk~EI~qMdvr  350 (359)
T PF10498_consen  317 MEERGSSMTDGSPLVKIKQALTKLKQEIKQMDVR  350 (359)
T ss_pred             HHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence                        2566777788888888877755

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=90.41  E-value=17  Score=34.84  Aligned_cols=96  Identities=20%  Similarity=0.340  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      +...-++++|..++.+|...+..+...+..+-     +++=.....+....+..++.++.+++              .++
T Consensus       170 ~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~-----~~d~~~~~~~~~~~i~~L~~~l~~~~--------------~~l  230 (362)
T TIGR01010       170 DTIAFAENEVKEAEQRLNATKAELLKYQIKNK-----VFDPKAQSSAQLSLISTLEGELIRVQ--------------AQL  230 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-----CcChHHHHHHHHHHHHHHHHHHHHHH--------------HHH
Confidence            45556777777777777777777766666540     10000000001222222222222222              222


Q ss_pred             HHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          150 NEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       150 q~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ..+..   .+..+.-++..++++|+.++.+|...+..+
T Consensus       231 ~~l~~---~~~~~~P~v~~l~~~i~~l~~~i~~e~~~i  265 (362)
T TIGR01010       231 AQLRS---ITPEQNPQVPSLQARIKSLRKQIDEQRNQL  265 (362)
T ss_pred             HHHHh---hCCCCCCchHHHHHHHHHHHHHHHHHHHHh
Confidence            22211   222337778888888888888887765544

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

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

Probab=90.36  E-value=5.3  Score=35.50  Aligned_cols=51  Identities=22%  Similarity=0.367  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       137 ~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      .+....++|..++..|.+++..+... ..++..++.++..++..+.+-.-.|
T Consensus       107 ~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~anrwTDNI  158 (188)
T PF03962_consen  107 ELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKIAKEAANRWTDNI  158 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            34444555555566666666655544 6677777777777777766654443

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

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=90.33  E-value=14  Score=33.76  Aligned_cols=131  Identities=14%  Similarity=0.227  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q 023255           82 AEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK---  158 (285)
Q Consensus        82 aqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~---  158 (285)
                      ....|..+..++.++...-      -.++-.+=+.+-.+...++..|..+...|+.-...|.+....++..-...-.   
T Consensus         3 ~~~KL~~i~e~~~~f~~~l------e~e~~~Rr~~ee~r~~~i~e~i~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~~   76 (247)
T PF06705_consen    3 TKSKLASINERFSGFESDL------ENEKRQRREQEEQRFQDIKEQIQKLEKALEAEVKRRVESNKKLQSKFEEQINNMQ   76 (247)
T ss_pred             hHHHHHHHHHHHHHHHHHH------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             --Hhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          159 --ARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       159 --~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                        +.+. ..+...+..-++.|-..+..+...+..|+.......      |.+..++.++|..|+.-+.+
T Consensus        77 ~~v~~~~~~~~~~~~~~l~~L~~ri~~L~~~i~ee~~~r~~~i------e~~~~~l~~~l~~l~~~~~~  139 (247)
T PF06705_consen   77 ERVENQISEKQEQLQSRLDSLNDRIEALEEEIQEEKEERPQDI------EELNQELVRELNELQEAFEN  139 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH------HHHHHHHHHHHHHHHHHHHH

>PRK03598 putative efflux pump membrane fusion protein; Provisional

Probab=90.26  E-value=8.3  Score=36.37  Aligned_cols=22  Identities=9%  Similarity=0.276  Sum_probs=10.9

Q ss_pred             HHhHHHHHHHHHHHHHHHHhHH
Q 023255          205 EKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       205 eknli~ma~e~ekLrael~n~e  226 (285)
                      +..+-+...++++++..+.+..
T Consensus       184 ~~~l~~~~~~l~~a~~~l~~~~  205 (331)
T PRK03598        184 KASLAQAQAALAQAELNLQDTE  205 (331)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCE
Confidence            3334334445566666664444

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=90.21  E-value=17  Score=34.38  Aligned_cols=49  Identities=14%  Similarity=0.211  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHH
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVI  121 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~  121 (285)
                      ..|++.+-.++-+.++|..-...++--.|.|.-..|...-.||-|+.-.
T Consensus        55 ~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt  103 (333)
T KOG1853|consen   55 DQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQT  103 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555555555556666666766666666664333

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

Probab=90.14  E-value=1.3  Score=42.98  Aligned_cols=48  Identities=23%  Similarity=0.113  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHH
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ  213 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~  213 (285)
                      ...|+++++.|.++++.+.+.||--|+.-.|.++...-.+-+=|.++.
T Consensus       248 ~~kL~~~~etLEqq~~~L~~niDIL~~k~~eal~~~~n~~~~~~D~~~  295 (365)
T KOG2391|consen  248 KQKLVAMKETLEQQLQSLQKNIDILKSKVREALEKAENLEALDIDEAI  295 (365)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhccCcCCCchhhh
Confidence            345666666677777777777777776666665555554444444444

>PRK00106 hypothetical protein; Provisional

Probab=90.04  E-value=26  Score=36.26  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=11.9

Q ss_pred             HHhHHHHHHHHHHHHHHHHhHHhhHHHHH
Q 023255          205 EKNIISVAQQIERLQAELANAEKRARAAA  233 (285)
Q Consensus       205 eknli~ma~e~ekLrael~n~e~r~~a~~  233 (285)
                      ......+.+++|.-=.+  +|++.|+--.
T Consensus       183 ~~~~~~~i~~~e~~a~~--~a~~~a~~ii  209 (535)
T PRK00106        183 THEIATRIREAEREVKD--RSDKMAKDLL  209 (535)
T ss_pred             HHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence            33444455554432222  4555555443

>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=89.90  E-value=14  Score=32.90  Aligned_cols=66  Identities=15%  Similarity=0.248  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      ...+..+|..+..++..|.....++..++..+++...+...  ...+....||+.|+...+++++-++
T Consensus       122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~--~~~k~~~~ei~~lk~~~~ql~~~l~  187 (189)
T PF10211_consen  122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQ--EEEKKHQEEIDFLKKQNQQLKAQLE  187 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45666677777777777777777777777777665554332  2234456666666666666655443

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 [].

>PRK10869 recombination and repair protein; Provisional

Probab=89.89  E-value=21  Score=36.83  Aligned_cols=67  Identities=7%  Similarity=-0.007  Sum_probs=45.2

Q ss_pred             HHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          154 GDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       154 kDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      ..+.++... +.-+.++.+-.+.+++++..+...-+.    ..++-.+....++.+...|.++-+.|-+.|.
T Consensus       306 ~~l~~L~rKyg~~~~~~~~~~~~l~~eL~~L~~~e~~----l~~Le~e~~~l~~~l~~~A~~LS~~R~~aA~  373 (553)
T PRK10869        306 SKQISLARKHHVSPEELPQHHQQLLEEQQQLDDQEDD----LETLALAVEKHHQQALETAQKLHQSRQRYAK  373 (553)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555 667888888888888888776654433    2345566677777888888887777776543

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=89.84  E-value=5.2  Score=30.13  Aligned_cols=41  Identities=22%  Similarity=0.279  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHH
Q 023255           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL  107 (285)
Q Consensus        67 rla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L  107 (285)
                      +|-+....|+..|..+...+......+..+..|+|.-++.|
T Consensus         2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l   42 (69)
T PF14197_consen    2 KLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQL   42 (69)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667778888888888888877777777777776655555

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.84  E-value=19  Score=37.42  Aligned_cols=60  Identities=18%  Similarity=0.226  Sum_probs=35.9

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH----HHHHHHHhHHHHHHHHH---HHHHHH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE----QREIMEKNIISVAQQIE---RLQAEL  222 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e----q~q~meknli~ma~e~e---kLrael  222 (285)
                      .+-|..-.-|.+++|.++.|+.-.+|+-+..--|..-    --+.||.-|-+.-.|=|   .||-||
T Consensus       186 Vs~LR~sQVEyEglkheikRleEe~elln~q~ee~~~Lk~IAekQlEEALeTlq~EReqk~alkkEL  252 (772)
T KOG0999|consen  186 VSNLRQSQVEYEGLKHEIKRLEEETELLNSQLEEAIRLKEIAEKQLEEALETLQQEREQKNALKKEL  252 (772)
T ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3334455567799999999999999987754322211    11345555655555544   255555

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

Probab=89.76  E-value=16  Score=33.52  Aligned_cols=110  Identities=19%  Similarity=0.270  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH----HHHHhhhhhhhhhhhhc
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETER----QEIHKGRAAIECEKKNR  194 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~Lr----qEl~~~ra~~e~ekk~~  194 (285)
                      ..+..++.++.+++..+-++.+..+.+..++..+..++.++.....  .+|.+.-+.|-    .+++.+...++-.+...
T Consensus        31 Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~--~Al~~g~E~LAr~al~~~~~le~~~~~~~~~~  108 (225)
T COG1842          31 QAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKAE--LALQAGNEDLAREALEEKQSLEDLAKALEAEL  108 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777888888888888888888888888888888888775421  23333333333    34445555555566666


Q ss_pred             hhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHH
Q 023255          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRAR  230 (285)
Q Consensus       195 ~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~  230 (285)
                      ...-++...|++++..+-.-|..+|+...-..-|..
T Consensus       109 ~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~  144 (225)
T COG1842         109 QQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKA  144 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777888888888888888888888766665443

>PF14992 TMCO5: TMCO5 family

Probab=89.69  E-value=13  Score=35.36  Aligned_cols=25  Identities=16%  Similarity=0.341  Sum_probs=14.7

Q ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHHH
Q 023255          196 SNHEQREIMEKNIISVAQQIERLQAE  221 (285)
Q Consensus       196 e~~eq~q~meknli~ma~e~ekLrae  221 (285)
                      +.++++.- +|++.-+-+|+.|-.-.
T Consensus       158 E~L~rmE~-ekE~~lLe~el~k~q~~  182 (280)
T PF14992_consen  158 EKLRRMEE-EKEMLLLEKELSKYQMQ  182 (280)
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHhch
Confidence            34466666 66666666666655443

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=89.64  E-value=23  Score=36.75  Aligned_cols=58  Identities=7%  Similarity=0.172  Sum_probs=35.1

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      +..++.+-+-.+.++.|+..+...-+-.+.    +-.+.+.+...+...|+.+-+.|...|+
T Consensus       317 ~~~~~~l~~~~~~~~~el~~L~~~~~~~~~----Le~~~~~l~~~~~~~A~~Ls~~R~~~A~  374 (557)
T COG0497         317 GVTIEDLLEYLDKIKEELAQLDNSEESLEA----LEKEVKKLKAELLEAAEALSAIRKKAAK  374 (557)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhhhhhHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556777777777777777777665543332    2334555566666666666666655543

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

Probab=89.62  E-value=20  Score=38.33  Aligned_cols=11  Identities=27%  Similarity=0.525  Sum_probs=5.6

Q ss_pred             HHHHhhhhHHH
Q 023255          107 LYEKSLKLDAE  117 (285)
Q Consensus       107 L~~k~~kleae  117 (285)
                      ..++.+||+..
T Consensus       161 ~eer~~kl~~~  171 (916)
T KOG0249|consen  161 IEERTRKLEEQ  171 (916)
T ss_pred             HHHHHHHHHHH
Confidence            44455555554

>PRK10698 phage shock protein PspA; Provisional

Probab=89.52  E-value=16  Score=33.22  Aligned_cols=152  Identities=14%  Similarity=0.229  Sum_probs=75.0

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHhHHHHHHH-------HHHHhhhhHHHH----HHHHHHHHHHHHH
Q 023255           64 DNQRLAATHVALKQELSLAEQELRHLSSVAA-SVKAERDAEVRE-------LYEKSLKLDAEL----RVIESMHAELDRV  131 (285)
Q Consensus        64 dnqrla~~h~~LqqEL~laqhEL~~l~~~i~-~~~ae~e~~~r~-------L~~k~~kleael----r~~e~lk~El~ql  131 (285)
                      ..-+..+....+++++.-++..+.....+.. .+....|---|+       ..+++..|+.++    ..++.++..+.++
T Consensus        46 alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L  125 (222)
T PRK10698         46 TSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKKEIGEL  125 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455566666666666666666544433 344455555555       445555555554    2334556666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--HHHH----Hhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHH
Q 023255          132 RADIEKLCVIKQEMIKDLNEING--DLAK----ARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREI  203 (285)
Q Consensus       132 r~eiq~l~~~rqeL~aevq~Lek--DL~~----~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~  203 (285)
                      +..+.++...+..|.+..+..+.  .+++    +..+  .+....++..|+.+-.+..-.    . + .....+-.+...
T Consensus       126 ~~ki~eak~k~~~L~aR~~~A~a~~~~~~~~~~~~~~~a~~~f~rmE~ki~~~Ea~aea~----~-~-~~~~~l~~e~~~  199 (222)
T PRK10698        126 ENKLSETRARQQALMLRHQAASSSRDVRRQLDSGKLDEAMARFESFERRIDQMEAEAESH----G-F-GKQKSLDQQFAE  199 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHhHh----h-c-cCCCCHHHHHHH
Confidence            66666666666666655544332  2222    1211  233344444444443333221    0 0 111223344444


Q ss_pred             HHHhHHHHHHHHHHHHHHH
Q 023255          204 MEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       204 meknli~ma~e~ekLrael  222 (285)
                      +|.+ -.+-.|+++|++.+
T Consensus       200 le~~-~~ve~ELa~LK~~~  217 (222)
T PRK10698        200 LKAD-DEISEQLAALKAKM  217 (222)
T ss_pred             hhcc-chHHHHHHHHHHHh
Confidence            4443 24566777777765

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=89.50  E-value=22  Score=37.71  Aligned_cols=81  Identities=15%  Similarity=0.297  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq  200 (285)
                      ....+++|..++.++..+.....++..++..+.+++++....   +..+..++..+...+....    -|+..+-.+.-+
T Consensus       236 ~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~---~~~~~~~L~~~~~~l~~~~----~e~~~r~kL~N~  308 (670)
T KOG0239|consen  236 ESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKE---SNTLQSDLESLEENLVEKK----KEKEERRKLHNE  308 (670)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence            344455566666666666666666666666666666553322   2233333333333333322    233444455555


Q ss_pred             HHHHHHhH
Q 023255          201 REIMEKNI  208 (285)
Q Consensus       201 ~q~meknl  208 (285)
                      .+-+.-|+
T Consensus       309 i~eLkGnI  316 (670)
T KOG0239|consen  309 ILELKGNI  316 (670)
T ss_pred             HHHhhcCc
Confidence            55555554

>PF07794 DUF1633: Protein of unknown function (DUF1633); InterPro: IPR012436 This family contains sequences derived from a group of hypothetical proteins expressed by Arabidopsis thaliana (Mouse-ear cress)

Probab=89.49  E-value=6.8  Score=40.15  Aligned_cols=116  Identities=25%  Similarity=0.290  Sum_probs=73.0

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023255          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       105 r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      +...+|+--||.|   ++.++.+++..+..|..|...|++|+.+|-.|+.--+..+.-   +-+-+.|+   -.-+.++-
T Consensus       593 kG~Aeki~~me~E---i~glq~DkQ~ar~qIh~Le~~Reelsk~V~DLtssaQgakKA---VhdaK~El---A~~Y~klL  663 (790)
T PF07794_consen  593 KGYAEKIGFMEME---IGGLQADKQTARNQIHRLEQRREELSKRVMDLTSSAQGAKKA---VHDAKVEL---AAAYSKLL  663 (790)
T ss_pred             hhhHhhhhhhhhh---hcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH---HHHHHHHH---HHHHHHHH
Confidence            4466778888888   778888999999999999999999999998877544433221   11112222   11222222


Q ss_pred             hhhhh---hhhhchh----------hhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023255          185 AAIEC---EKKNRAS----------NHEQREIMEKNIISVAQQIERLQAELANAEKRA  229 (285)
Q Consensus       185 a~~e~---ekk~~~e----------~~eq~q~meknli~ma~e~ekLrael~n~e~r~  229 (285)
                      +-|+.   -||.+.-          |+.=...|-||-|..+-|-..|.|||-.++.|-
T Consensus       664 agiKEKwv~KKe~t~le~qAaEvesNlaLidqi~kaaIdltvEkprlqAeLdd~ea~c  721 (790)
T PF07794_consen  664 AGIKEKWVAKKEYTVLEGQAAEVESNLALIDQITKAAIDLTVEKPRLQAELDDLEARC  721 (790)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhHHHhhchHHHhhh
Confidence            22221   1222222          223344567777888888889999998888553

These sequences are highly similar and the region concerned is about 100 residues long.

>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=89.39  E-value=6.7  Score=29.76  Aligned_cols=9  Identities=33%  Similarity=0.774  Sum_probs=5.3

Q ss_pred             hHHHHHHHH
Q 023255           99 ERDAEVREL  107 (285)
Q Consensus        99 e~e~~~r~L  107 (285)
                      ++|.+|..|
T Consensus         9 EKDe~Ia~L   17 (74)
T PF12329_consen    9 EKDEQIAQL   17 (74)
T ss_pred             hHHHHHHHH
Confidence            555556666

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.

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

Probab=89.25  E-value=8.1  Score=34.35  Aligned_cols=75  Identities=19%  Similarity=0.293  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      ++..+..+..++..+.....+|..++......-.    +...=..+.++++.|+.++..+.+.++--++...+.+++++
T Consensus        67 ~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~----~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~  141 (188)
T PF03962_consen   67 RQNKLEKLQKEIEELEKKIEELEEKIEEAKKGRE----ESEEREELLEELEELKKELKELKKELEKYSENDPEKIEKLK  141 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            3334444444444444444444444444322111    12222334455555555555555555544444454444433

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

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.24  E-value=20  Score=33.85  Aligned_cols=51  Identities=20%  Similarity=0.289  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      +..+.......+.+|+.+..+-..+......++.++.-.+.+|..++..|.
T Consensus        40 l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~   90 (265)
T COG3883          40 LSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIA   90 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444455555555444444444444444444444444444443

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=89.23  E-value=20  Score=33.99  Aligned_cols=18  Identities=6%  Similarity=-0.018  Sum_probs=8.2

Q ss_pred             CcccccCCccCCCCCCCC
Q 023255           16 SQFTMSGRRVLREPPLST   33 (285)
Q Consensus        16 rsvTleGD~ydpeG~LsG   33 (285)
                      ..-++++|..+-....+|
T Consensus        40 ~~~~v~~~~v~v~~~v~G   57 (346)
T PRK10476         40 DDAYIDADVVHVASEVGG   57 (346)
T ss_pred             CCeEEEeeeEEEcccCce
Confidence            334445555554444443

>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif

Probab=89.14  E-value=20  Score=36.85  Aligned_cols=93  Identities=17%  Similarity=0.336  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq  200 (285)
                      ++.+-.+++.+++...-....++.|...+...+++          ...+..+++.+.+.+.++....+--++.|-   +|
T Consensus       422 I~eLt~qlQ~adSKa~~f~~Ec~aL~~rL~~aE~e----------k~~l~eeL~~a~~~i~~LqDEL~TTr~NYE---~Q  488 (518)
T PF10212_consen  422 IEELTSQLQHADSKAVHFYAECRALQKRLESAEKE----------KESLEEELKEANQNISRLQDELETTRRNYE---EQ  488 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhHH---HH
Confidence            34444444444444444444444444443333332          233444444444444444444333333332   58


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          201 REIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       201 ~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      +.+|---|++|.-.+.+-+.||.+-+
T Consensus       489 Ls~MSEHLasmNeqL~~Q~eeI~~LK  514 (518)
T PF10212_consen  489 LSMMSEHLASMNEQLAKQREEIQTLK  514 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999886654

It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.

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

Probab=89.14  E-value=18  Score=36.27  Aligned_cols=47  Identities=9%  Similarity=0.082  Sum_probs=23.8

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          106 ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD  155 (285)
Q Consensus       106 ~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekD  155 (285)
                      .+..+..+.|.+   +..++.|..|+..+.-...+..+-++.++..++.+
T Consensus        45 ai~a~~~~~E~~---l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~   91 (459)
T KOG0288|consen   45 AIKAKLQEKELE---LNRLQEENTQLNEERVREEATEKTLTVDVLIAENL   91 (459)
T ss_pred             HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            354444455555   33345555555555555555555555555555444

>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]

Probab=88.95  E-value=14  Score=33.42  Aligned_cols=87  Identities=11%  Similarity=0.183  Sum_probs=48.8

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhh-hhhh-----hhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH---
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAI-ECEK-----KNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA---  233 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~-e~ek-----k~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~~---  233 (285)
                      ..++-.++.++-.++.-+...+..+ +.-+     ....+..+..+.....+..+...++.++..+.+...--.+..   
T Consensus       150 ~~~l~~l~~~l~~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  229 (292)
T PF01544_consen  150 LRELFDLRRELSRLRRSLSPLREVLQRLLRRDDSPFISDEDKEYLRDLLDRIERLLERAESLRERLESLQDLYQSKLSNR  229 (292)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCSTTSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666667777777777777777766 3332     233334444566666666666666666666554432211111   


Q ss_pred             ----------HhhhcCC----CCcccCCCC
Q 023255          234 ----------AAAAVNP----STSYAASYG  249 (285)
Q Consensus       234 ----------~a~~~~~----~~~y~~~~g  249 (285)
                                .+.+.=|    .|-||+|++
T Consensus       230 ~n~~m~~LT~~t~iflPlt~i~g~fGMN~~  259 (292)
T PF01544_consen  230 QNRVMKVLTIVTAIFLPLTFITGIFGMNFK  259 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSTTS-SS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence                      1334444    579999997

CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=88.74  E-value=31  Score=35.50  Aligned_cols=72  Identities=15%  Similarity=0.186  Sum_probs=36.8

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023255          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (285)
Q Consensus       107 L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~r  184 (285)
                      .++.+-||.+.   +..+++++.-++.+...+....+....-=..++.++.+.+   -|-.+..+.+.....||+.+|
T Consensus       231 q~Ee~skLlsq---l~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~Ele---DkyAE~m~~~~EaeeELk~lr  302 (596)
T KOG4360|consen  231 QQEENSKLLSQ---LVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELE---DKYAECMQMLHEAEEELKCLR  302 (596)
T ss_pred             HHHHHHHHHHH---HHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhc
Confidence            44555555555   4555555555666655555555555554455555544433   233344444444444555444

>TIGR01069 mutS2 MutS2 family protein

Probab=88.66  E-value=28  Score=37.40  Aligned_cols=38  Identities=13%  Similarity=0.080  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 023255           48 EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQE   85 (285)
Q Consensus        48 ee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhE   85 (285)
                      ++-+...+.++..++.+..+.-.+....++++.....+
T Consensus       503 ~~~~~~~~~~~~~li~~L~~~~~~~e~~~~~~~~~~~e  540 (771)
T TIGR01069       503 KTFYGEFKEEINVLIEKLSALEKELEQKNEHLEKLLKE  540 (771)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333355555555444433333333333333333

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=88.65  E-value=34  Score=35.76  Aligned_cols=35  Identities=23%  Similarity=0.341  Sum_probs=17.5

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSS   91 (285)
Q Consensus        57 EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~   91 (285)
                      ++..+-.+.+.+..+...++.++..++.++..+..
T Consensus       217 el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~  251 (650)
T TIGR03185       217 ELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEK  251 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444555555555555555555554433

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

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

Probab=88.50  E-value=41  Score=36.54  Aligned_cols=29  Identities=24%  Similarity=0.196  Sum_probs=22.9

Q ss_pred             hhhhhchhhhHHHHHHHHhHHHHHHHHHH
Q 023255          189 CEKKNRASNHEQREIMEKNIISVAQQIER  217 (285)
Q Consensus       189 ~ekk~~~e~~eq~q~meknli~ma~e~ek  217 (285)
                      .+.++.++.++.+..-++|+..-+.-|++
T Consensus       827 ~~tsa~a~~le~m~~~~~~la~e~~~ieq  855 (970)
T KOG0946|consen  827 ERTSAAADSLESMGSTEKNLANELKLIEQ  855 (970)
T ss_pred             HHHHhhhhhhHHhhccccchhhHHHHHHH
Confidence            45678889999988888888777776666

>smart00806 AIP3 Actin interacting protein 3

Probab=88.47  E-value=29  Score=34.83  Aligned_cols=154  Identities=20%  Similarity=0.272  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH-HHH-HHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Q 023255           76 KQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE-LRV-IESMHAELD----RVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        76 qqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleae-lr~-~e~lk~El~----qlr~eiq~l~~~rqeL~aev  149 (285)
                      ..||...++||..+.+...++.++-..-|-.+.+|+.++-.= +.. ...-+.=+.    +|-.+-+.|.+...+|+.-|
T Consensus       154 ~~el~~lrrdLavlRQ~~~~~~~~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~v  233 (426)
T smart00806      154 RAELKSLQRELAVLRQTHNSFFTEIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDII  233 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            478888888888888888888888777777776666665221 100 112222222    34456677888888888888


Q ss_pred             HHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh-----------hHHHHHHHHhHHHHHHHHH
Q 023255          150 NEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN-----------HEQREIMEKNIISVAQQIE  216 (285)
Q Consensus       150 q~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~-----------~eq~q~meknli~ma~e~e  216 (285)
                      ..|.+|+..-..-  -.||..+.++|+.++++|+++..-|.-||-.--..           -+.+.-+|.=++-+-.-++
T Consensus       234 E~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEEqqfL~lQedL~~DL~dDL~  313 (426)
T smart00806      234 EALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEEQQFLTLQEDLIADLKEDLE  313 (426)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899998876655  78899999999999999999999999988432221           1222333333334444555


Q ss_pred             HHHHHHHhHHhhH
Q 023255          217 RLQAELANAEKRA  229 (285)
Q Consensus       217 kLrael~n~e~r~  229 (285)
                      |...=+++.++..
T Consensus       314 ka~eTf~lVeq~~  326 (426)
T smart00806      314 KAEETFDLVEQCC  326 (426)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555443

Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.

>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals

Probab=88.46  E-value=15  Score=35.26  Aligned_cols=97  Identities=21%  Similarity=0.382  Sum_probs=58.6

Q ss_pred             HHHHHHHHhHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 023255           57 DIQSLLQDNQRLAAT----HVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVR  132 (285)
Q Consensus        57 EIq~lL~dnqrla~~----h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr  132 (285)
                      .|++.+.|.||....    .+.|+.|++..--.|.   +.+..++.       -|          +.+=.+|-+|++.++
T Consensus       154 nIEKSvKDLqRctvSL~RYr~~lkee~d~S~k~ik---~~F~~l~~-------cL----------~dREvaLl~EmdkVK  213 (302)
T PF07139_consen  154 NIEKSVKDLQRCTVSLTRYRVVLKEEMDSSIKKIK---QTFAELQS-------CL----------MDREVALLAEMDKVK  213 (302)
T ss_pred             cHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH---HHHHHHHH-------HH----------HHHHHHHHHHHHHHH
Confidence            688888888875433    3444444444432222   22222211       13          334456778999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHH
Q 023255          133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIET  175 (285)
Q Consensus       133 ~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~  175 (285)
                      +|.-++-..||.=..++.+++.-...+.  ..||.+|+++|+-
T Consensus       214 ~EAmeiL~aRqkkAeeLkrltd~A~~Ms--E~Ql~ELRadIK~  254 (302)
T PF07139_consen  214 AEAMEILDARQKKAEELKRLTDRASQMS--EEQLAELRADIKH  254 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcC--HHHHHHHHHHHHH
Confidence            9999999999888888888774433322  4556666666643

>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria

Probab=88.41  E-value=28  Score=38.86  Aligned_cols=137  Identities=18%  Similarity=0.269  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhh--------hhhHhHHHHHHHHHHHhhhhHHH----HHHHHHHHHHHHHHHHHHHHHH
Q 023255           72 HVALKQELSLAEQELRHLSSVAA--------SVKAERDAEVRELYEKSLKLDAE----LRVIESMHAELDRVRADIEKLC  139 (285)
Q Consensus        72 h~~LqqEL~laqhEL~~l~~~i~--------~~~ae~e~~~r~L~~k~~kleae----lr~~e~lk~El~qlr~eiq~l~  139 (285)
                      -..|+.++...+++|..|++.+.        ..+..-|.-+-++..|+.-||..    +..++..-..+..|+.|++=|.
T Consensus      1065 s~eLReQIq~~KQ~LesLQRAV~TPVvtd~eKvr~rYe~LI~~iTKrIt~LEk~k~~~l~~ikK~ia~lnnlqqElklLR 1144 (1439)
T PF12252_consen 1065 SSELREQIQSVKQDLESLQRAVVTPVVTDAEKVRVRYETLITDITKRITDLEKAKLDNLDSIKKAIANLNNLQQELKLLR 1144 (1439)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567777777777777765543        23333444445555555555532    1122222222222333333332


Q ss_pred             HHHHHHH--------HHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHH
Q 023255          140 VIKQEMI--------KDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII  209 (285)
Q Consensus       140 ~~rqeL~--------aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli  209 (285)
                      .++-.+-        ++|..|++.|+.++..  ..-+.++-++|..|           +.|   ...++--++.|...+-
T Consensus      1145 nEK~Rmh~~~dkVDFSDIEkLE~qLq~~~~kL~dAyl~eitKqIsaL-----------e~e---~PKnltdvK~missf~ 1210 (1439)
T PF12252_consen 1145 NEKIRMHSGTDKVDFSDIEKLEKQLQVIHTKLYDAYLVEITKQISAL-----------EKE---KPKNLTDVKSMISSFN 1210 (1439)
T ss_pred             hHHHhhccCCCcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH-----------Hhh---CCCchhhHHHHHHHHH
Confidence            2222221        3455555555555544  33344444444443           322   2334446777888887


Q ss_pred             HHHHHHHHHHHHH
Q 023255          210 SVAQQIERLQAEL  222 (285)
Q Consensus       210 ~ma~e~ekLrael  222 (285)
                      ....+||-||-|-
T Consensus      1211 d~laeiE~LrnEr 1223 (1439)
T PF12252_consen 1211 DRLAEIEFLRNER 1223 (1439)
T ss_pred             hhhhHHHHHHHHH
Confidence            7777888877764

There is little literature describing the family.

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=88.41  E-value=8.6  Score=30.97  Aligned_cols=35  Identities=37%  Similarity=0.389  Sum_probs=18.3

Q ss_pred             hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       188 e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ++-++.-...-.++..+++++-.+..++.+|+..+
T Consensus        90 ~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l  124 (129)
T cd00890          90 EFLKKRLETLEKQIEKLEKQLEKLQDQITELQEEL  124 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444455555666666666666665554

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

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

Probab=88.37  E-value=20  Score=32.86  Aligned_cols=49  Identities=22%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhHhHHHHHHHHHHHhhhhH
Q 023255           67 RLAATHVALKQELSLAEQELRHLSSVA-ASVKAERDAEVRELYEKSLKLD  115 (285)
Q Consensus        67 rla~~h~~LqqEL~laqhEL~~l~~~i-~~~~ae~e~~~r~L~~k~~kle  115 (285)
                      .+...+..++.+++-++.....+..+. ..+....|.--|+.+++...+|
T Consensus        49 ~~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LAr~al~~~~~le   98 (225)
T COG1842          49 QAIARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLAREALEEKQSLE   98 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            344444445555555554444443322 2333444555555533333333

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

Probab=88.31  E-value=31  Score=37.47  Aligned_cols=42  Identities=17%  Similarity=0.372  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           53 IQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        53 ~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      .+..++.+.+.+++++-..-.-+..+|+-....++.++....
T Consensus       734 t~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~  775 (970)
T KOG0946|consen  734 TQNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQR  775 (970)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            334466666667776666666666666655555555555444

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.08  E-value=39  Score=35.86  Aligned_cols=62  Identities=15%  Similarity=0.277  Sum_probs=37.1

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHH---HHHHHHHHHHHhHH
Q 023255          165 DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA---QQIERLQAELANAE  226 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma---~e~ekLrael~n~e  226 (285)
                      ++..|++++..++.+.......++.-.+....+..++...+.+|+.--   .+--||+.+|.--+
T Consensus       249 ~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~e~~~r~kL~N~i~eLk  313 (670)
T KOG0239|consen  249 ELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKKKEKEERRKLHNEILELK  313 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344555555566666666666666666666666777777777777655   33445555554443

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

Probab=88.04  E-value=11  Score=29.21  Aligned_cols=86  Identities=21%  Similarity=0.353  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEIN--GDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~Le--kDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~  198 (285)
                      +.....++..+...+..|...+.++...+....  -.+..+..-..-+..|...|..++.++..++..++.-.+...+..
T Consensus         7 l~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r~~l~~a~   86 (123)
T PF02050_consen    7 LAEAQQELQEAEEQLEQLQQERQEYQEQLSESQQGVSVAQLRNYQRYISALEQAIQQQQQELERLEQEVEQAREELQEAR   86 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHT-----SGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555666666666666665544444333  111233333445566666666666666666666666666555555


Q ss_pred             HHHHHHHH
Q 023255          199 EQREIMEK  206 (285)
Q Consensus       199 eq~q~mek  206 (285)
                      -..++||+
T Consensus        87 ~~~k~~e~   94 (123)
T PF02050_consen   87 RERKKLEK   94 (123)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

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

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

Probab=88.01  E-value=5.3  Score=31.71  Aligned_cols=18  Identities=33%  Similarity=0.569  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKL  138 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l  138 (285)
                      ++.++++--.+..+|..+
T Consensus        45 ~e~lr~~rN~~sk~I~~~   62 (108)
T PF02403_consen   45 LEELRAERNELSKEIGKL   62 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHH
Confidence            333333333333333333

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 ....

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

Probab=87.98  E-value=19  Score=32.09  Aligned_cols=72  Identities=24%  Similarity=0.281  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhHhHHHHHHHHHHHhhhhHHH
Q 023255           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS-VKAERDAEVRELYEKSLKLDAE  117 (285)
Q Consensus        46 ~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~-~~ae~e~~~r~L~~k~~kleae  117 (285)
                      .|+..|......+...-....+..+....|++++.-+..++.....+... +....|---|..+.+...++..
T Consensus        27 ~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~   99 (221)
T PF04012_consen   27 MLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQ   99 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555566666666777777777777666555443 3445556666664444444333

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

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.90  E-value=36  Score=37.77  Aligned_cols=96  Identities=15%  Similarity=0.248  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~  198 (285)
                      ..++.++.+|.+++..........+.|..+...+++.|....          .++..++.+++++...+..+    .+. 
T Consensus       455 ~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~----------~el~~~~ee~~~~~~~l~~~----e~i-  519 (1041)
T KOG0243|consen  455 EELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKN----------KELESLKEELQQAKATLKEE----EEI-  519 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH----HHH-
Confidence            335555555555555554444445566666666665555433          33444444444444442211    122 


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023255          199 EQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (285)
Q Consensus       199 eq~q~meknli~ma~e~ekLrael~n~e~r~~a  231 (285)
                        .+.|+++-....+-..+||..+..+.+.-++
T Consensus       520 --i~~~~~se~~l~~~a~~l~~~~~~s~~d~s~  550 (1041)
T KOG0243|consen  520 --ISQQEKSEEKLVDRATKLRRSLEESQDDLSS  550 (1041)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              3344444444444577888888777655443

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

Probab=87.82  E-value=25  Score=33.29  Aligned_cols=63  Identities=8%  Similarity=0.156  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      .|...+..++.....++.|..+|+.|+..    .-+..||..|+.||-.+-.+..-+++.+..-|..
T Consensus       132 ~IR~~E~sl~p~R~~r~~l~d~I~kLk~k----~P~s~kl~~LeqELvraEae~lvaEAqL~n~kR~  194 (271)
T PF13805_consen  132 SIRNREESLQPSRDRRRKLQDEIAKLKYK----DPQSPKLVVLEQELVRAEAENLVAEAQLSNIKRQ  194 (271)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----TTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHhHHHHHHHHHHHhc----CCCChHHHHHHHHHHHHHHHhhHHHHHHHHhhHH
Confidence            44445566666667777777777777542    2347788888888888888888777777766543

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

Probab=87.78  E-value=30  Score=34.91  Aligned_cols=15  Identities=20%  Similarity=0.116  Sum_probs=10.6

Q ss_pred             hhhhhhhchhhhHHH
Q 023255          187 IECEKKNRASNHEQR  201 (285)
Q Consensus       187 ~e~ekk~~~e~~eq~  201 (285)
                      |..||++-.|+.|.+
T Consensus       365 fq~ekeatqELieel  379 (502)
T KOG0982|consen  365 FQEEKEATQELIEEL  379 (502)
T ss_pred             HHHhhHHHHHHHHHH
Confidence            777777777776654

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=87.55  E-value=25  Score=35.28  Aligned_cols=119  Identities=15%  Similarity=0.222  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHH-----H-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           76 KQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDA-----E-LRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        76 qqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~klea-----e-lr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      ..|+...++||..|.+....+..+-..-|-.+-+++.++=.     . -...--+...-..+..+.+.|.....+|+.-|
T Consensus       150 ~~Ev~~LRreLavLRQl~~~~~~~~~~~i~~i~~ki~~~k~~s~~~~~~~~R~~~~~~k~~L~~~sd~Ll~kVdDLQD~V  229 (424)
T PF03915_consen  150 LKEVQSLRRELAVLRQLYSEFQSEVKESISSIREKIKKVKSASTNASGDSNRAYMESGKKKLSEESDRLLTKVDDLQDLV  229 (424)
T ss_dssp             --------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45777777777777777776666655555555444444311     1 01122333444556667777888888888888


Q ss_pred             HHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023255          150 NEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (285)
Q Consensus       150 q~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~  194 (285)
                      +.|.+|+..-..-  ..++..+..+|+.+..+|..+...|.-||-.-
T Consensus       230 E~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~kp~W  276 (424)
T PF03915_consen  230 EDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTEKPIW  276 (424)
T ss_dssp             HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHH
Confidence            8888888776655  78899999999999999999999999888543

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=87.54  E-value=24  Score=33.55  Aligned_cols=13  Identities=8%  Similarity=0.171  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHhHH
Q 023255          214 QIERLQAELANAE  226 (285)
Q Consensus       214 e~ekLrael~n~e  226 (285)
                      +++..+..|.++.
T Consensus       198 ~l~~a~~~l~~~~  210 (346)
T PRK10476        198 ALAIAELHLEDTT  210 (346)
T ss_pred             HHHHHHHHhhcCE
Confidence            4444444554444

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

Probab=87.50  E-value=50  Score=36.42  Aligned_cols=35  Identities=23%  Similarity=0.256  Sum_probs=16.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      |.||-++.+.|+.=.+-.+|+.+.+..-+..-++|
T Consensus       377 N~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE  411 (1243)
T KOG0971|consen  377 NARLKDALVRLRDLSASEKQDHQKLQKELEKKNSE  411 (1243)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhH
Confidence            44555555554444444444444444444444333

>PF14992 TMCO5: TMCO5 family

Probab=87.43  E-value=27  Score=33.23  Aligned_cols=30  Identities=23%  Similarity=0.308  Sum_probs=13.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAA   94 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~   94 (285)
                      .|++-.....|=+.++.+...++.|..-+.
T Consensus        13 ~Q~ldE~Nq~lL~ki~~~E~~iq~Le~Eit   42 (280)
T PF14992_consen   13 EQRLDEANQSLLQKIQEKEGAIQSLEREIT   42 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444445555555555544443

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=87.42  E-value=31  Score=37.18  Aligned_cols=50  Identities=12%  Similarity=0.121  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVA   93 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i   93 (285)
                      .+..++.+.....++.+++.+..+.-.+....++++.....++..+...+
T Consensus       504 i~~A~~~~~~~~~~~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l  553 (782)
T PRK00409        504 IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEEL  553 (782)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444446666666655544444444444444444444443333

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=87.38  E-value=13  Score=29.56  Aligned_cols=11  Identities=18%  Similarity=0.510  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 023255          127 ELDRVRADIEK  137 (285)
Q Consensus       127 El~qlr~eiq~  137 (285)
                      .+..+..++.+
T Consensus        71 ~~e~le~~i~~   81 (105)
T cd00632          71 RLETIELRIKR   81 (105)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>smart00503 SynN Syntaxin N-terminal domain

Probab=87.20  E-value=13  Score=29.28  Aligned_cols=64  Identities=16%  Similarity=0.358  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDL---NEINGDLAKARDE-SKDMAAIKAEIETERQEIH  181 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aev---q~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~  181 (285)
                      +..++.++.+|..++..+..+......+....   ..+..+|.....+ ......++..|+.|.+...
T Consensus         7 ~~~v~~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~lk~l~~~~~   74 (117)
T smart00503        7 FEKVEEIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKELEKENL   74 (117)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            34455555555555555555555555444333   3455555555555 5555566666666655544

Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=87.18  E-value=54  Score=36.43  Aligned_cols=11  Identities=9%  Similarity=0.386  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q 023255           50 RIAIQHSDIQS   60 (285)
Q Consensus        50 ~L~~q~~EIq~   60 (285)
                      .+.....+++.
T Consensus       531 ~l~~~~~~~~~  541 (1047)
T PRK10246        531 RLDALEKEVKK  541 (1047)
T ss_pred             HHHHHHHHHHH
Confidence            34444333433

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=87.16  E-value=45  Score=35.56  Aligned_cols=36  Identities=22%  Similarity=0.291  Sum_probs=17.1

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023255           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA   98 (285)
Q Consensus        63 ~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~a   98 (285)
                      ..|-.+........|.......+.+.|...+....+
T Consensus       482 d~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~  517 (698)
T KOG0978|consen  482 DKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKA  517 (698)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444445555555555555444444433

>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=87.14  E-value=5.7  Score=29.32  Aligned_cols=35  Identities=3%  Similarity=0.154  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~  159 (285)
                      +..-..+...+++......+|..+|..|.++|.++
T Consensus        24 k~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~   58 (61)
T PF08826_consen   24 KSANLAFESKLQEAEKRNRELEQEIERLKKEMEEL   58 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33333444444444444444444444444444443

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

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=87.12  E-value=17  Score=37.00  Aligned_cols=41  Identities=20%  Similarity=0.282  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQ   84 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqh   84 (285)
                      +.-|--++...+.+++.++.+|++|.++...|++......+
T Consensus        61 lrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~  101 (472)
T TIGR03752        61 LRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQ  101 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            45566667777778888888888777777766665544443

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.

>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=87.10  E-value=6  Score=34.09  Aligned_cols=67  Identities=24%  Similarity=0.330  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                      ..|+..+..+|.+|.....+|..++..++.+|..+.+.. -..+|...|..|++++..+..-++.-+.
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~-t~~el~~~i~~l~~e~~~l~~kL~~l~~  137 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEP-TNEELREEIEELEEEIEELEEKLEKLRS  137 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345666666777777777777777777777766655431 1345677777777777777777776554

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 [].

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

Probab=87.03  E-value=12  Score=35.79  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=10.7

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ..|++.+..|+.++.++..++..|
T Consensus        81 ~si~~q~~~i~~l~~~i~~l~~~i  104 (301)
T PF06120_consen   81 ESIAAQKRAIEDLQKKIDSLKDQI  104 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444

>PRK09343 prefoldin subunit beta; Provisional

Probab=87.00  E-value=16  Score=30.14  Aligned_cols=40  Identities=8%  Similarity=0.147  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      ...++..+.-+..+|+.+......|..++..+++.|.++-
T Consensus        73 ~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll  112 (121)
T PRK09343         73 EKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEML  112 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555555666666666666666666666666665555543

>cd07632 BAR_APPL2 The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing 2

Probab=86.91  E-value=25  Score=32.24  Aligned_cols=113  Identities=19%  Similarity=0.222  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHA  126 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~  126 (285)
                      +|+--.....=...++...+|+..    .+++|.+|.|+++.+...-.+-+..       |          -..-+.+..
T Consensus         7 ~~e~~~~~~~~~~~l~~~~~~~~~----~~~~~~~a~~~~s~~l~~~~~~~~~-------~----------~~~D~~v~~   65 (215)
T cd07632           7 FEEDAGTLTDYTNQLLQAMQRVYG----AQNEMCLATQQLSKQLLAYEKQNFA-------L----------GKGDEEVIS   65 (215)
T ss_pred             HHhcchhHHHHHHHHHHHHHHHHH----hHHHHHHHHHHHHHHHHHHHHhcCC-------C----------CCCcHHHHH
Confidence            343333333334445566666654    4589999999998876554433222       1          112233445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhh-hccHHHHHHHHHHHHHHH
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDL-NEINGDLAKARDE-SKDMAAIKAEIETERQEI  180 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aev-q~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl  180 (285)
                      -|.+.-.-++++...+.+|..++ ..+.+-|..|..+ ..+++++|+..+....++
T Consensus        66 sL~kFs~~L~el~~~h~~L~dqaq~sl~~pL~~F~KeDl~~vKe~KK~FdK~Se~~  121 (215)
T cd07632          66 TLQYFAKVVDELNVLHSELAKQLADTMVLPIIQFREKDLTEVSTLKDLFGIASNEH  121 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            55566666667777777888887 4778888899887 888888888888877764

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains. Vertebrates contain two APPL proteins, APPL1 and APPL2. Both APPL proteins interact with the transcriptional repressor Reptin, acting as activators of beta-catenin/TCF-mediated trancription. APPL2 is essential for cell proliferation. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interac

>KOG4687 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=86.75  E-value=30  Score=33.11  Aligned_cols=86  Identities=28%  Similarity=0.262  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMI  146 (285)
Q Consensus        67 rla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~  146 (285)
                      .++.....|+..|...+.+++++..---+...+---+..+|          +..++..+.|-.+++.+.+.|.....+|.
T Consensus        48 ~~a~~aETLeln~ealere~eLlaa~gc~a~~e~gterqdL----------aa~i~etkeeNlkLrTd~eaL~dq~adLh  117 (389)
T KOG4687|consen   48 GLAARAETLELNLEALERELELLAACGCDAKIEFGTERQDL----------AADIEETKEENLKLRTDREALLDQKADLH  117 (389)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHhcCCCchhhccchhhHH----------HHHHHHHHHHhHhhhHHHHHHHHHHHHHh
Confidence            34455555566666666666665443333333322222233          44477777777888888888888888888


Q ss_pred             HHHHHHHHHHHHHhhh
Q 023255          147 KDLNEINGDLAKARDE  162 (285)
Q Consensus       147 aevq~LekDL~~~~~d  162 (285)
                      .+..-+.+-...|.+.
T Consensus       118 gD~elfReTeAq~ese  133 (389)
T KOG4687|consen  118 GDCELFRETEAQFESE  133 (389)
T ss_pred             chHHHHHHHHHHHHHH
Confidence            8877777777777655

>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]

Probab=86.66  E-value=17  Score=30.11  Aligned_cols=28  Identities=29%  Similarity=0.360  Sum_probs=20.6

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023255          109 EKSLKLDAELRVIESMHAELDRVRADIE  136 (285)
Q Consensus       109 ~k~~kleaelr~~e~lk~El~qlr~eiq  136 (285)
                      .-..|||..|..+.-+..|+..+..|-.
T Consensus        26 ~~rqkle~qL~Enk~V~~Eldlle~d~~   53 (120)
T KOG3478|consen   26 ESRQKLETQLQENKIVLEELDLLEEDSN   53 (120)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcccch
Confidence            3345788888888888888888776643

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=86.66  E-value=0.2  Score=52.70  Aligned_cols=148  Identities=21%  Similarity=0.353  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQE  144 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqe  144 (285)
                      ++..+..|+.+|...+.++..+.......+.+   .+.++.+|-.++.-|-++.+....++.|++.++....+       
T Consensus       237 ~~~~~~~l~~ql~~L~~el~~~e~~~~d~~~~~e~le~ei~~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~r-------  309 (713)
T PF05622_consen  237 LSVELADLRAQLRRLREELERLEEQRDDLKIELEELEKEIDELRQENEELQAEAREARALRDELDELREKADR-------  309 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH-------
Confidence            33445556666666666666665554444333   22333334334444444445555566666655554444       


Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH---hhhhhhhhhhhhchh-------hhHHHHHHHHhHHHHHHH
Q 023255          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH---KGRAAIECEKKNRAS-------NHEQREIMEKNIISVAQQ  214 (285)
Q Consensus       145 L~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~---~~ra~~e~ekk~~~e-------~~eq~q~meknli~ma~e  214 (285)
                          +.+++.++.+++....-+..++..++.|+....   .-....|.+-+....       .-.|..-++..+..+.++
T Consensus       310 ----~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~~~~~qle~~k~qi~eLe~~l~~~~~~  385 (713)
T PF05622_consen  310 ----ADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKARALKSQLEEYKKQIQELEQKLSEESRR  385 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                444555555555444444445554444444221   112222222222111       123445556666666666


Q ss_pred             HHHHHHHHHhHH
Q 023255          215 IERLQAELANAE  226 (285)
Q Consensus       215 ~ekLrael~n~e  226 (285)
                      +++|.-|+....
T Consensus       386 ~~~l~~e~~~L~  397 (713)
T PF05622_consen  386 ADKLEFENKQLE  397 (713)
T ss_dssp             ------------
T ss_pred             HHHHHHHHHHHH
Confidence            655555554433

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria

Probab=86.54  E-value=37  Score=37.95  Aligned_cols=40  Identities=13%  Similarity=0.194  Sum_probs=28.9

Q ss_pred             hhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          184 RAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       184 ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      ..+|+.++|.-..+++++-.++|.|..=- =.+|+|++|..
T Consensus      1270 ~~tf~~q~~eiq~n~~ll~~L~~tlD~S~-~a~Kqk~di~k 1309 (1439)
T PF12252_consen 1270 VKTFEEQEKEIQQNLQLLDKLEKTLDDSD-TAQKQKEDIVK 1309 (1439)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHhcchH-HHHHHHHHHHH
Confidence            46788888988899999999888886532 24555555543

There is little literature describing the family.

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

Probab=86.49  E-value=15  Score=32.84  Aligned_cols=34  Identities=29%  Similarity=0.436  Sum_probs=27.0

Q ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023255          198 HEQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (285)
Q Consensus       198 ~eq~q~meknli~ma~e~ekLrael~n~e~r~~a  231 (285)
                      .+..+++.+.+.+|..+++++-.++.|++-+=..
T Consensus       151 ~~~ke~~~~ei~~lks~~~~l~~~~~~~e~~F~~  184 (190)
T PF05266_consen  151 KEKKEAKDKEISRLKSEAEALKEEIENAELEFQS  184 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667788899999999999999999977443

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=86.49  E-value=34  Score=33.46  Aligned_cols=28  Identities=11%  Similarity=0.165  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023255           71 THVALKQELSLAEQELRHLSSVAASVKA   98 (285)
Q Consensus        71 ~h~~LqqEL~laqhEL~~l~~~i~~~~a   98 (285)
                      +..-|..+|...+.+|...+..+...+.
T Consensus       172 ~~~fl~~ql~~~~~~l~~ae~~l~~fr~  199 (444)
T TIGR03017       172 AALWFVQQIAALREDLARAQSKLSAYQQ  199 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555554444444433

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

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

Probab=86.36  E-value=3.5  Score=36.95  Aligned_cols=64  Identities=22%  Similarity=0.302  Sum_probs=55.7

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      .+.+.+|.++++.+++.+-.++.-||.+|.++-+--+.-...++.+-+.-.+++-||.|+++..
T Consensus        80 ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~k~~  143 (203)
T KOG3433|consen   80 KSVLQELESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELAKIQ  143 (203)
T ss_pred             HHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5677889999999999999999999999998876555555999999999999999999999876

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=86.29  E-value=32  Score=33.01  Aligned_cols=123  Identities=20%  Similarity=0.287  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 023255           51 IAIQHSDIQSLLQDN-QRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELD  129 (285)
Q Consensus        51 L~~q~~EIq~lL~dn-qrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~  129 (285)
                      +.....++++-+.=| ..+..+.-...++|+..+-|..+|...+..-+..+      -     +||+|   ++.++.-|.
T Consensus        36 ~Kekn~~Lqk~lKLneE~ltkTi~qy~~QLn~L~aENt~L~SkLe~EKq~k------e-----rLEtE---iES~rsRLa  101 (305)
T PF14915_consen   36 LKEKNDDLQKSLKLNEETLTKTIFQYNGQLNVLKAENTMLNSKLEKEKQNK------E-----RLETE---IESYRSRLA  101 (305)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHhHHHHHhHHHH------H-----HHHHH---HHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          130 RVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       130 qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      .+-.+...-.+.+.+|.--.++-..+--.++.. +.-+..|+...+-|.+.|.++++-|
T Consensus       102 aAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~  160 (305)
T PF14915_consen  102 AAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKF  160 (305)
T ss_pred             HHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHH

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

Probab=86.22  E-value=41  Score=34.12  Aligned_cols=11  Identities=18%  Similarity=0.256  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHH
Q 023255           46 HLEDRIAIQHS   56 (285)
Q Consensus        46 ~Lee~L~~q~~   56 (285)
                      ++..+|..|..
T Consensus       325 ll~sqleSqr~  335 (493)
T KOG0804|consen  325 LLTSQLESQRK  335 (493)
T ss_pred             hhhhhhhHHHH
Confidence            45666666655

>COG5293 Predicted ATPase [General function prediction only]

Probab=86.16  E-value=42  Score=34.28  Aligned_cols=99  Identities=16%  Similarity=0.235  Sum_probs=49.1

Q ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHH
Q 023255           86 LRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLC------VIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus        86 L~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~------~~rqeL~aevq~LekDL~~~  159 (285)
                      ++.....+...+.+-      +=+++.++++||+.++.-+.++-.-+++.-..-      ...+-|..++-.+.-+|++.
T Consensus       325 v~~F~r~~~e~R~~y------l~~ei~~i~~dLk~~n~~~~~l~~~rae~l~~Lk~~g~~e~y~~l~ee~~~~~~elae~  398 (591)
T COG5293         325 VIAFNRAITEERHDY------LQEEIAEIEGDLKEVNAELDDLGKRRAEGLAFLKNRGVFEKYQTLCEEIIALRGELAEL  398 (591)
T ss_pred             HHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhhHHHH
Confidence            333444444444444      556666666666665555555544444332211      12233444444444444443


Q ss_pred             h---hhhccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          160 R---DESKDMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       160 ~---~d~qkl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      +   .+..|+.++...|..+++|+-+....+=-|
T Consensus       399 ~~rie~l~k~~~~~~~i~~lkhe~l~~~~r~y~e  432 (591)
T COG5293         399 EYRIEPLRKLHALDQYIGTLKHECLDLEERIYTE  432 (591)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            3   225556666666666666666555554433

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=86.08  E-value=52  Score=35.16  Aligned_cols=153  Identities=19%  Similarity=0.246  Sum_probs=71.2

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023255           60 SLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIE  136 (285)
Q Consensus        60 ~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq  136 (285)
                      .++.+--+.-..|..|++++......++-+..........   -|.|.|.+.....++.+++...   ..-+......+.
T Consensus       486 klm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~---~~~le~~kk~~~  562 (698)
T KOG0978|consen  486 KLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTL---TQSLEMLKKKAQ  562 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHH---HHHHHHHHHHHH
Confidence            3455555666667777777776666666665555443332   4556666666666666664322   122222233333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHH
Q 023255          137 KLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIE  216 (285)
Q Consensus       137 ~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~e  216 (285)
                      ++......|..++...+++|.+++-   ++.++..+|+.+++...|+...++-.++.    ++.++.++.    .+.=.+
T Consensus       563 e~~~~~~~Lq~~~ek~~~~le~i~~---~~~e~~~ele~~~~k~~rleEE~e~L~~k----le~~k~~~~----~~s~d~  631 (698)
T KOG0978|consen  563 EAKQSLEDLQIELEKSEAKLEQIQE---QYAELELELEIEKFKRKRLEEELERLKRK----LERLKKEES----GASADE  631 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhccccc----cccccH
Confidence            3333333333333333333333331   23334444444444444444444333321    222222221    222345


Q ss_pred             HHHHHHHhHH
Q 023255          217 RLQAELANAE  226 (285)
Q Consensus       217 kLrael~n~e  226 (285)
                      .|..||.+..
T Consensus       632 ~L~EElk~yK  641 (698)
T KOG0978|consen  632 VLAEELKEYK  641 (698)
T ss_pred             HHHHHHHHHH
Confidence            6666666655

>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]

Probab=86.06  E-value=42  Score=34.12  Aligned_cols=134  Identities=14%  Similarity=0.100  Sum_probs=64.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHH-----------HHHHHHHHHHHHHH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELR-----------VIESMHAELDRVRA  133 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr-----------~~e~lk~El~qlr~  133 (285)
                      +.........|+++|.++...+++=.........       ....|..+.|.+.|           ..-..|+|+...+.
T Consensus       201 ~le~~Sal~~lq~~L~la~~~~~~~~e~~i~~~~-------~f~~r~~~~E~e~rn~~E~~~lA~r~l~~~kKe~de~k~  273 (554)
T KOG4677|consen  201 SLERFSALRSLQDKLQLAEEAVSMHDENVITAVL-------IFLKRTLSKEIEFRNELEVRQLALRHLIHFKKEIDEQKL  273 (554)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH-------HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333345567777777777766654333221111       12334444454443           22333445555444


Q ss_pred             HHHH--HHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHH
Q 023255          134 DIEK--LCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII  209 (285)
Q Consensus       134 eiq~--l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli  209 (285)
                      .++.  +....++|..-.++-.    ..-.+.-|..++++|++.+|.|+.-.+..++.-..-.--+--+++.||-+..
T Consensus       274 ~~~l~~~l~~keeL~~s~~~e~----~i~qs~~kstas~~E~ee~rve~~~s~ed~~~~q~q~~~Lrs~~~d~EAq~r  347 (554)
T KOG4677|consen  274 LLDLFRFLDRKEELALSHYREH----LIIQSPDKSTASRKEFEETRVELPFSAEDSAHIQDQYTLLRSQIIDIEAQDR  347 (554)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHh----hccCCCCcchhHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444  4444444433222111    1111234466778888888877776666665544444444444444544433

>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]

Probab=85.94  E-value=39  Score=33.61  Aligned_cols=139  Identities=11%  Similarity=0.217  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhh------
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKL------  114 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kl------  114 (285)
                      .+.+-.++..-++.+|.+-...++++..+.+..|||+.++--++.+...+.-++--   +|..+.+-+|+-.+.      
T Consensus       134 ~~~~~~~~~~~~q~lq~~~~~~er~~~~y~~~~qElq~k~t~~~afn~tikife~q~~~~e~~~ka~~d~~~~eqG~qg~  213 (464)
T KOG4637|consen  134 INAVGKKLREYHQQLQEKSLEYERLYEEYTRTSQELQMKRTAIEAFNETIKIFEEQCGTQENLSKAYIDRFRREQGSQGN  213 (464)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhHHHHHhccCCc
Confidence            55667777777778888888899999999999999998888777776666544322   222222222222222      


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhh
Q 023255          115 -DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAA  186 (285)
Q Consensus       115 -eaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~  186 (285)
                       |.++.++..   .-..+++.|++....+-.|..+.+.+=+ +.+.+++  ..++-+|...+.+++-++..+|.+
T Consensus       214 ~e~~~~~~a~---N~~~~ks~i~ei~~sl~~l~d~lk~~~q-~~~~~~enr~~e~m~l~k~~nslkp~l~~lr~~  284 (464)
T KOG4637|consen  214 SEKEIGRIAN---NYDKLKSRIREIHDSLTRLEDDLKALIQ-ALRSNSENRLCELMELDKAMNSLKPDLIQLRKI  284 (464)
T ss_pred             hHHHHHHHHh---hhHHHHHHHHHHHHHHHhHHHHHHHHHH-HHhhhhhhhhHHHHHHHHHHhhcCchHHHHHHH
Confidence             222222211   1122333333333333333333333211 1112222  224555778888888887777765

>PRK14001 potassium-transporting ATPase subunit C; Provisional

Probab=85.88  E-value=1.2  Score=39.96  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=26.9

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023255            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (285)
Q Consensus         3 ifG~tli-------vtf~p~rsvTleGD~ydpeG~LsGGs~p~~~~~l   43 (285)
                      +.|+.||       -+|||.+|-|  +|-|||.+  ||||.-.++.|.
T Consensus        50 vvGS~LIgQ~F~~~~yF~~RPSa~--~~~y~~~~--SggSNl~psnp~   93 (189)
T PRK14001         50 VIGSAHIGQQFTAAKYFHPRPSSA--GDGYDAAA--SSGSNLGPTNEK   93 (189)
T ss_pred             EEeeeeecCCCCCCCCccCCCcCC--CCCCCccc--ccccCCCCCCHH
Confidence            5688888       8899998876  56788665  788854445553

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=85.71  E-value=22  Score=30.58  Aligned_cols=42  Identities=17%  Similarity=0.334  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      .+++-+++.+..+...++++....++|...+..+.+.++...
T Consensus        94 eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~  135 (145)
T COG1730          94 EAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQ  135 (145)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566777777777777777777777777777777777766644

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=85.68  E-value=72  Score=36.40  Aligned_cols=50  Identities=16%  Similarity=0.427  Sum_probs=39.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       113 kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      +++--++....+..++..++.++..+....+++.+.++.+..++.++.++
T Consensus       872 ~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~~~~l~e~~s~  921 (1294)
T KOG0962|consen  872 KIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPLKVELEEAQSE  921 (1294)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcchhhhHHHHHHH
Confidence            33444677778888888888888888888888888888888888887766

>PRK12704 phosphodiesterase; Provisional

Probab=85.49  E-value=47  Score=34.13  Aligned_cols=60  Identities=13%  Similarity=0.248  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHH
Q 023255          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (285)
Q Consensus       145 L~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~m  204 (285)
                      |..+-+.|++....+.....+|...+++|+..++++.+.+..++.-+......+++.-.|
T Consensus        91 L~~Ree~Le~r~e~Lekke~eL~~re~~Le~re~eLe~~~~~~~~~~~~~~~~l~~~a~l  150 (520)
T PRK12704         91 LLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERISGL  150 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            444444444444444444555555555566666666665555555554444444444443

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=85.45  E-value=17  Score=29.16  Aligned_cols=35  Identities=9%  Similarity=0.286  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL  156 (285)
                      ..++..+..+...++.+......|..++..+++.|
T Consensus        70 ~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l  104 (110)
T TIGR02338        70 QELKEKKETLELRVKTLQRQEERLREQLKELQEKI  104 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444333

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=85.37  E-value=5.3  Score=39.76  Aligned_cols=34  Identities=12%  Similarity=0.324  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~  151 (285)
                      +..+-++.++..++..+++.|.+.+.+++.+|..
T Consensus        27 vd~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~   60 (425)
T PRK05431         27 VDELLELDEERRELQTELEELQAERNALSKEIGQ   60 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555556666666666666666666666655

>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]

Probab=85.31  E-value=50  Score=36.11  Aligned_cols=20  Identities=30%  Similarity=0.323  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 023255           71 THVALKQELSLAEQELRHLS   90 (285)
Q Consensus        71 ~h~~LqqEL~laqhEL~~l~   90 (285)
                      -|+.+..+|+....++.-+.
T Consensus       962 LhaE~daeLe~~~ael~ele  981 (1424)
T KOG4572|consen  962 LHAEIDAELEKEFAELIELE  981 (1424)
T ss_pred             hhHHHHHHHHHHHHHHHHHH
Confidence            34445555555555554443

>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=85.27  E-value=38  Score=32.84  Aligned_cols=38  Identities=16%  Similarity=0.269  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~  159 (285)
                      ...+.+...+..|+..|.....|+..+++.|..-+++.
T Consensus        75 ~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~  112 (319)
T PF09789_consen   75 SESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQ  112 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhh
Confidence            33444444444444444444445555555555444443

>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=85.13  E-value=20  Score=29.45  Aligned_cols=31  Identities=13%  Similarity=0.282  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEING  154 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~Lek  154 (285)
                      +..+|........+|...+.+|.+-++.|..
T Consensus        21 Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~   51 (107)
T PF09304_consen   21 LERSLEDEKTSQGELAKQKDQLRNALQSLQA   51 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHhHHHHHHHHHHHHH
Confidence            3344444444444445555555555555543

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.

>TIGR00414 serS seryl-tRNA synthetase

Probab=85.06  E-value=8.5  Score=38.23  Aligned_cols=34  Identities=21%  Similarity=0.390  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~  151 (285)
                      +..+-.+.++..++..+++.|.+.+..++.+|..
T Consensus        29 vd~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~   62 (418)
T TIGR00414        29 LEKLIALDDERKKLLSEIEELQAKRNELSKQIGK   62 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555666666666666677666666655

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.

>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins

Probab=85.02  E-value=21  Score=32.23  Aligned_cols=103  Identities=14%  Similarity=0.219  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLN-EINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq-~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~  201 (285)
                      ++.=...+..+...+......+...+. .+...|..|..+ .++.+.+..+++.+.+........++--|+.+-..-..+
T Consensus        58 l~~a~~~i~~e~e~~a~~H~~~a~~L~~~v~~~l~~~~~~~~~~rK~~~~~~~k~~k~~~~~~~~l~KaK~~Y~~~c~~~  137 (236)
T cd07651          58 LKNSLDTLRLETESMAKSHLKFAKQIRQDLEEKLAAFASSYTQKRKKIQSHMEKLLKKKQDQEKYLEKAREKYEADCSKI  137 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH


Q ss_pred             HHHHHhHHHHH-HHHHHHHHHHHhHH
Q 023255          202 EIMEKNIISVA-QQIERLQAELANAE  226 (285)
Q Consensus       202 q~meknli~ma-~e~ekLrael~n~e  226 (285)
                      .......-.+. +|++|+.+.+..++
T Consensus       138 e~~~~~~~~~~~ke~eK~~~k~~k~~  163 (236)
T cd07651         138 NSYTLQSQLTWGKELEKNNAKLNKAQ  163 (236)
T ss_pred             HHHHHHHcccCcchHHHHHHHHHHHH

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation

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

Probab=84.97  E-value=28  Score=31.03  Aligned_cols=27  Identities=30%  Similarity=0.309  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      ..|.|-|.-.+..|..+...+....+.
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~   52 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMAN   52 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555555555544444444433

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

>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]

Probab=84.77  E-value=16  Score=36.91  Aligned_cols=107  Identities=20%  Similarity=0.333  Sum_probs=0.0

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHH--HHHHHHHHhhhhh
Q 023255          109 EKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEI--ETERQEIHKGRAA  186 (285)
Q Consensus       109 ~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEI--e~LrqEl~~~ra~  186 (285)
                      ++..||-.||....-++++++.++..+.+...+..-...+...|++-|.+    ...|.+|+..+  +..++||..+|.+
T Consensus       242 ehv~km~kdle~Lq~aEqsl~dlQk~Lekar~e~rnvavek~~lerkl~e----a~rl~elreg~e~e~~rkelE~lR~~  317 (575)
T KOG4403|consen  242 EHVNKMMKDLEGLQRAEQSLEDLQKRLEKAREEQRNVAVEKLDLERKLDE----APRLSELREGVENETSRKELEQLRVA  317 (575)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHhh----hhhhhhhhcchhHHHHHHHHHHHHHH


Q ss_pred             hhhhhhhchhh------------------------hHHHHHHHHhHHHHHHHHHHHH
Q 023255          187 IECEKKNRASN------------------------HEQREIMEKNIISVAQQIERLQ  219 (285)
Q Consensus       187 ~e~ekk~~~e~------------------------~eq~q~meknli~ma~e~ekLr  219 (285)
                      ++.=-|....+                        --++|--||-|-..--.+|||+
T Consensus       318 L~kAEkele~nS~wsaP~aLQ~wLq~T~E~E~q~~~kkrqnaekql~~Ake~~eklk  374 (575)
T KOG4403|consen  318 LEKAEKELEANSSWSAPLALQKWLQLTHEVEVQYYNKKRQNAEKQLKEAKEMAEKLK  374 (575)
T ss_pred             HHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=84.76  E-value=32  Score=34.19  Aligned_cols=48  Identities=10%  Similarity=0.205  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          142 KQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       142 rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .+-+..+.+.|.+.++..++...++|....++..|..+++-.|..|+-
T Consensus       344 ~~~l~~~~~~L~~~~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~  391 (458)
T COG3206         344 LALLEQQEAALEKELAQLKGRLSKLPKLQVQLRELEREAEAARSLYET  391 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHH
Confidence            334556666666666666666677777777777777777777666654

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

Probab=84.62  E-value=39  Score=32.52  Aligned_cols=95  Identities=18%  Similarity=0.289  Sum_probs=51.1

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hh------------hHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023255           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAA-----SV------------KAERDAEVRELYEKSLKLDAELRVIESMH  125 (285)
Q Consensus        63 ~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~-----~~------------~ae~e~~~r~L~~k~~kleaelr~~e~lk  125 (285)
                      .......+....|+.+|.....-|+.....-.     +.            .+..-.++-.|=.|...||-|   +..++
T Consensus       104 ~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le~Lq~Klk~LEeE---N~~LR  180 (306)
T PF04849_consen  104 EQLGAALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLEALQEKLKSLEEE---NEQLR  180 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhHHHHHHHHHHHHHH---HHHHH
Confidence            33444445555566666665555555532221     00            111223333477777778888   88888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHh
Q 023255          126 AELDRVRADIEKLCVIKQEMI-----------KDLNEINGDLAKAR  160 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~-----------aevq~LekDL~~~~  160 (285)
                      .|..++..+.......-+.|.           .+|..|+.+|.+-.
T Consensus       181 ~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~  226 (306)
T PF04849_consen  181 SEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKT  226 (306)
T ss_pred             HHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHH
Confidence            888877765554444443333           34555555555533

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 [].

>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=84.55  E-value=18  Score=28.58  Aligned_cols=41  Identities=20%  Similarity=0.207  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHH
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mek  206 (285)
                      ...|..|+..|+..+.+.+..|+--+..-.+.+.++..+||
T Consensus        54 ~d~l~~e~k~L~~~~~Ks~~~i~~L~~~E~~~~~~l~~~Ek   94 (96)
T PF08647_consen   54 KDALDNEMKKLNTQLSKSSELIEQLKETEKEFVRKLKNLEK   94 (96)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34445555555555555555555555555555555555554

>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.41  E-value=48  Score=33.38  Aligned_cols=46  Identities=22%  Similarity=0.216  Sum_probs=33.3

Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhhHHHH-------HHHHhHHHHHHHHHHHH
Q 023255          174 ETERQEIHKGRAAIECEKKNRASNHEQRE-------IMEKNIISVAQQIERLQ  219 (285)
Q Consensus       174 e~LrqEl~~~ra~~e~ekk~~~e~~eq~q-------~meknli~ma~e~ekLr  219 (285)
                      +.|+.+|+.++-+++.|.-...++-.|.+       .-+-.+.|+-.|.|.|+
T Consensus       437 e~l~~ei~~L~eqle~e~~~~~~le~ql~~~ve~c~~~~aS~~slk~e~erl~  489 (542)
T KOG0993|consen  437 EDLVKEIQSLQEQLEKERQSEQELEWQLDDDVEQCSNCDASFASLKVEPERLH  489 (542)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHH
Confidence            67788888888888888877777655554       45556666666888886

>TIGR02231 conserved hypothetical protein

Probab=84.40  E-value=21  Score=36.17  Aligned_cols=43  Identities=16%  Similarity=0.220  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD  161 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~  161 (285)
                      ...+-+..++..++..+.++.....++..+++.++++|..+..
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~  173 (525)
T TIGR02231       131 QAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLT  173 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3355566666666666666666666666666666666666554

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.

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

Probab=84.28  E-value=30  Score=31.36  Aligned_cols=68  Identities=18%  Similarity=0.214  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      ...+.+++..++.+|+.+...|+.-+.++..--+.|.+-..+ .+|.-++...+..|++|+..++....
T Consensus       145 ~~~le~~l~~~k~~ie~vN~~RK~~Q~~~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~  213 (221)
T PF05700_consen  145 LKRLEKELAKLKKEIEEVNRERKRRQEEAGEELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAA  213 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566677777777777777777776666665555555555555 66766777777777777766665443

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

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=84.23  E-value=17  Score=28.07  Aligned_cols=40  Identities=13%  Similarity=0.280  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      .+.+|+|...+-.++......+.++..++.+--+||+.++
T Consensus         6 Ld~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir   45 (79)
T PF08581_consen    6 LDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIR   45 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            6788888888888888888888888887777776666654

; PDB: 3VP9_B 3VP8_B.

>PF14182 YgaB: YgaB-like protein

Probab=84.19  E-value=6.1  Score=30.65  Aligned_cols=40  Identities=20%  Similarity=0.346  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          149 LNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       149 vq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .+.|+++|.+.. +..++..++.||..++++|......|+-
T Consensus        26 CqeIE~eL~~l~-~ea~l~~i~~EI~~mkk~Lk~Iq~~Fe~   65 (79)
T PF14182_consen   26 CQEIEKELKELE-REAELHSIQEEISQMKKELKEIQRVFEK   65 (79)
T ss_pred             HHHHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444432 2456666777777777777777766653

>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length

Probab=84.11  E-value=15  Score=30.19  Aligned_cols=72  Identities=13%  Similarity=0.238  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus        68 la~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      +..+...|.+++.-.+.++.+.+.+...+++.-                 -++.+++-..+..++..+..++...    +
T Consensus         6 ~~~q~~~l~~~v~~lRed~r~SEdrsa~SRa~m-----------------hrRlDElV~Rv~~lEs~~~~lk~dV----s   64 (112)
T PF07439_consen    6 LHQQLGTLNAEVKELREDIRRSEDRSAASRASM-----------------HRRLDELVERVTTLESSVSTLKADV----S   64 (112)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH-----------------HHhHHHHHHHHHHHHHHHHHHHhhH----H
Confidence            445566677777777777777777777777666                 3444444444444444333333332    3


Q ss_pred             HHHHHHHHHHHHh
Q 023255          148 DLNEINGDLAKAR  160 (285)
Q Consensus       148 evq~LekDL~~~~  160 (285)
                      +++..+.|+.+|+
T Consensus        65 emKpVT~dV~rwk   77 (112)
T PF07439_consen   65 EMKPVTDDVKRWK   77 (112)
T ss_pred             hccchHHHHHHHH
Confidence            3455555655554

Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=84.09  E-value=76  Score=35.39  Aligned_cols=49  Identities=6%  Similarity=0.170  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHH
Q 023255          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQI  215 (285)
Q Consensus       167 ~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~  215 (285)
                      ..|+..++..+..+..+=.-+++.++.+.++..=.+-..++|-.+-.-+
T Consensus       535 ~~l~~~~~~s~~d~s~l~~kld~~~~~~d~n~~~~~~~~~~l~~~~~~~  583 (1041)
T KOG0243|consen  535 TKLRRSLEESQDDLSSLFEKLDRKDRLDDDNQEVIDDFQSQLSENLSTL  583 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhccccccHHHHHHHhhhhhHHHHHH
Confidence            3344444555555555555555555555555555554445544444433

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

Probab=84.04  E-value=9.1  Score=27.85  Aligned_cols=18  Identities=17%  Similarity=0.285  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023255          138 LCVIKQEMIKDLNEINGD  155 (285)
Q Consensus       138 l~~~rqeL~aevq~LekD  155 (285)
                      |....+.|..+|.+|..|
T Consensus         8 Ls~dVq~L~~kvdqLs~d   25 (56)
T PF04728_consen    8 LSSDVQTLNSKVDQLSSD   25 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333334444444433

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.

>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=83.44  E-value=30  Score=30.15  Aligned_cols=9  Identities=0%  Similarity=0.250  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 023255          145 MIKDLNEIN  153 (285)
Q Consensus       145 L~aevq~Le  153 (285)
                      |..+...|+
T Consensus       101 Le~e~r~L~  109 (158)
T PF09744_consen  101 LEEENRQLE  109 (158)
T ss_pred             HHHHHHHHH
Confidence            333333333

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

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=83.36  E-value=42  Score=31.85  Aligned_cols=57  Identities=14%  Similarity=0.276  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          137 KLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       137 ~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      +|.+...+|-.-++.|..|+...++.    -++|++-+.+|+.|++.+.....++..+|..
T Consensus       254 Elkssq~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k~~~q~sqav~d~~~~  314 (330)
T KOG2991|consen  254 ELKSSQEELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKKGLEQVSQAVGDKKDE  314 (330)
T ss_pred             HHHHhHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            33444444444444444454444444    3567777777777777777777777666543

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=83.27  E-value=8.4  Score=40.15  Aligned_cols=63  Identities=19%  Similarity=0.336  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~  183 (285)
                      .|-.+.+..||.+++..-|+|+++..++..+++.+.+.+-+.+.   .|.+|+.+|+..+..+..+
T Consensus        85 ~RI~~sVs~EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~---eL~~Lk~~ieqaq~~~~El  147 (907)
T KOG2264|consen   85 KRILASVSLELTELEVKRQELNSEIEEINTKIEELKRLIPQKQL---ELSALKGEIEQAQRQLEEL  147 (907)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHH---HHHHHHhHHHHHHHHHHHH
Confidence            56667888899999999999999999999999999988776443   2445555555555444433

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

Probab=83.27  E-value=44  Score=32.00  Aligned_cols=86  Identities=21%  Similarity=0.294  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHH
Q 023255          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII  209 (285)
Q Consensus       134 eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli  209 (285)
                      .+..+.....+|..++..-..--.+|+.-    +.--...+.|++.|...+.++......-|.       .-...-++||
T Consensus       203 ~~~~~~~~E~~Lr~QL~~Y~~Kf~efq~tL~kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~-------k~e~~n~~l~  275 (309)
T PF09728_consen  203 QVQTLKETEKELREQLNLYSEKFEEFQDTLNKSNEVFETFKKEMEKMSKKIKKLEKENQTWKS-------KWEKSNKALI  275 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhHHHH
Confidence            66666666777777777777666666643    333455566666666666655544433332       2233344777


Q ss_pred             HHHHHHHHHHHHHHhHH
Q 023255          210 SVAQQIERLQAELANAE  226 (285)
Q Consensus       210 ~ma~e~ekLrael~n~e  226 (285)
                      .|+-|-..+..++....
T Consensus       276 ~m~eer~~~~~~~~~~~  292 (309)
T PF09728_consen  276 EMAEERQKLEKELEKLK  292 (309)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77776555555554443

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

>PRK11281 hypothetical protein; Provisional

Probab=83.26  E-value=86  Score=35.37  Aligned_cols=178  Identities=15%  Similarity=0.171  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH
Q 023255           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQ-------ELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE  117 (285)
Q Consensus        45 n~Lee~L~~q~~EIq~lL~dnqrla~~h~~Lqq-------EL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleae  117 (285)
                      ..||.++.....+++..-.+....-.....++.       .+..++..++-+..++.+.....+. +++  .+..+++||
T Consensus       124 ~qLEq~L~q~~~~Lq~~Q~~La~~NsqLi~~qT~PERAQ~~lsea~~RlqeI~~~L~~~~~~~~~-l~~--~~~~~l~ae  200 (1113)
T PRK11281        124 RQLESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQIRNLLKGGKVGGKA-LRP--SQRVLLQAE  200 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHhCCCCCCCc-CCH--HHHHHHHHH
Confidence            457777666655444433333333333333333       3344444444444444332222211 111  122334444


Q ss_pred             HHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHH-HH-H--hhhhhh
Q 023255          118 LRV----IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQ-EI-H--KGRAAI  187 (285)
Q Consensus       118 lr~----~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~Lrq-El-~--~~ra~~  187 (285)
                      +..    ++..++++.....-..=+...+..+..+++.+++.++.++.-  .+++.+.++.++.... +. .  ....-+
T Consensus       201 ~~~l~~~~~~~~~~l~~~~~l~~l~~~q~d~~~~~~~~~~~~~~~lq~~in~kr~~~se~~~~~a~~~~~~~~~~~~p~i  280 (1113)
T PRK11281        201 QALLNAQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLEHQLQLLQEAINSKRLTLSEKTVQEAQSQDEAARIQANPLV  280 (1113)
T ss_pred             HHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCChHH
Confidence            322    233333333333223333334455556666666666666654  3334444444433211 10 0  001113


Q ss_pred             hhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023255          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA  225 (285)
Q Consensus       188 e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~  225 (285)
                      -.|-..|.++.+.+..-.+++-++.++-.+.+..+.+.
T Consensus       281 ~~~~~~N~~Ls~~L~~~t~~~~~l~~~~~~~~~~l~~~  318 (1113)
T PRK11281        281 AQELEINLQLSQRLLKATEKLNTLTQQNLRVKNWLDRL  318 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555444444444333

>TIGR02473 flagell_FliJ flagellar export protein FliJ

Probab=83.21  E-value=23  Score=28.80  Aligned_cols=43  Identities=14%  Similarity=0.273  Sum_probs=30.3

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHH
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~mek  206 (285)
                      .-+..|...|...++.+..++..++.-+..-.+-.-..++|||
T Consensus        68 ~f~~~l~~~i~~q~~~l~~~~~~~e~~r~~l~~a~~~~k~lek  110 (141)
T TIGR02473        68 RFIRQLDQRIQQQQQELALLQQEVEAKRERLLEARRELKALEK  110 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3356677777777777777777777777766666666666654

Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.

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

Probab=82.96  E-value=6.9  Score=35.84  Aligned_cols=28  Identities=21%  Similarity=0.215  Sum_probs=17.7

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEK  191 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ek  191 (285)
                      +|...+..|.+.|..+.++++..|+-.-
T Consensus       186 Kq~e~~~~EydrLlee~~~Lq~~i~~~~  213 (216)
T KOG1962|consen  186 KQSEGLQDEYDRLLEEYSKLQEQIESGG  213 (216)
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHhccC
Confidence            3445566667777777777777666443

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=82.84  E-value=89  Score=35.24  Aligned_cols=85  Identities=11%  Similarity=0.039  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHH---HHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHH
Q 023255          138 LCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQE---IHKGRAAIECEKKNRASNHEQREIMEKNIISVA  212 (285)
Q Consensus       138 l~~~rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqE---l~~~ra~~e~ekk~~~e~~eq~q~meknli~ma  212 (285)
                      +...++.+..+++.+++.++.++..  .++..+.+.-++.....   ....-..+..|-..|.++.+.+..-.+++-.+.
T Consensus       206 ~~~q~dl~~~~~~~l~~~~~~Lq~~in~kR~~~se~~~~~~~~~~~~~~~~~~~i~~~~~~N~~Ls~~L~~~t~~~n~l~  285 (1109)
T PRK10929        206 ARLRSELAKKRSQQLDAYLQALRNQLNSQRQREAERALESTELLAEQSGDLPKSIVAQFKINRELSQALNQQAQRMDLIA  285 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444555566666665555544  33444444444433332   112222344444455555555555555555555


Q ss_pred             HHHHHHHHHH
Q 023255          213 QQIERLQAEL  222 (285)
Q Consensus       213 ~e~ekLrael  222 (285)
                      ++-...+..+
T Consensus       286 ~~~~~~~~~l  295 (1109)
T PRK10929        286 SQQRQAASQT  295 (1109)
T ss_pred             HHHHHHHHHH
Confidence            5444433333

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=82.76  E-value=20  Score=27.71  Aligned_cols=44  Identities=9%  Similarity=0.180  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023255           53 IQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASV   96 (285)
Q Consensus        53 ~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~   96 (285)
                      ....|+..+..+..........+...+...-.|++.+...+-.+
T Consensus         8 ~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eL   51 (79)
T PF08581_consen    8 AIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYEL   51 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444433333344444444444444444444444433

; PDB: 3VP9_B 3VP8_B.

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=82.61  E-value=4  Score=41.35  Aligned_cols=40  Identities=18%  Similarity=0.347  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHH---HHhhh-hccHHHHHHHHHHHHHHH
Q 023255          141 IKQEMIKDLNEINGDLA---KARDE-SKDMAAIKAEIETERQEI  180 (285)
Q Consensus       141 ~rqeL~aevq~LekDL~---~~~~d-~qkl~aLkaEIe~LrqEl  180 (285)
                      ...+|+.++..++++++   ....+ .+||++|+.|++.|+.++
T Consensus        77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql  120 (475)
T PRK13729         77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV  120 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444   22223 445555556666665555

>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=82.55  E-value=40  Score=31.05  Aligned_cols=71  Identities=15%  Similarity=0.256  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhh-hhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAA-IECEK  191 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d----~qkl~aLkaEIe~LrqEl~~~ra~-~e~ek  191 (285)
                      ++++++|+..|..|-.......+....+|..|+.-+....++    ...+..+..|+..|+.++.++|.. +..++
T Consensus        34 L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e~lgl~~  109 (230)
T PF10146_consen   34 LEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKEYLGLEP  109 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence            444444444444444444333333344444444444333333    223455566777777777777777 54444

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.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=82.51  E-value=92  Score=35.15  Aligned_cols=21  Identities=19%  Similarity=0.123  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 023255           75 LKQELSLAEQELRHLSSVAAS   95 (285)
Q Consensus        75 LqqEL~laqhEL~~l~~~i~~   95 (285)
                      ++.+++..+++++.|+..+..
T Consensus       213 ~~~~~~~l~~~~~~Lq~~in~  233 (1109)
T PRK10929        213 AKKRSQQLDAYLQALRNQLNS  233 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344444444455555444443

>PF14817 HAUS5: HAUS augmin-like complex subunit 5

Probab=82.25  E-value=22  Score=37.54  Aligned_cols=92  Identities=17%  Similarity=0.205  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023255          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (285)
Q Consensus       115 eaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~  194 (285)
                      |.++++...+.++|.+++++|..+....+.+..++..-+..+.+...+-+...-=..=++...+...+....|-.=.+.=
T Consensus        75 e~~~~~r~~L~~everLraei~~l~~~I~~~e~e~~~~e~~~~q~~~~~~~~~~k~~LL~Ay~q~c~~~~~~l~e~~~rl  154 (632)
T PF14817_consen   75 ENEARRRRELEKEVERLRAEIQELDKEIESREREVSRQEASREQMLDKISDSRHKQLLLEAYSQQCEEQRRILREYTKRL  154 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             hhhhHHHHHHHH
Q 023255          195 ASNHEQREIMEK  206 (285)
Q Consensus       195 ~e~~eq~q~mek  206 (285)
                      ...++|.|.|+.
T Consensus       155 ~~~~~~~q~~~R  166 (632)
T PF14817_consen  155 QGQVEQLQDIQR  166 (632)
T ss_pred             HHHHHHHHHHHh

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

Probab=82.24  E-value=28  Score=33.23  Aligned_cols=51  Identities=22%  Similarity=0.339  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      |++.++||+.|||=+...|+-+          .+.=+...|=+|.+.-+=-||..=|.++|
T Consensus       119 LKEARkEIkQLkQvieTmrssL----------~ekDkGiQKYFvDINiQN~KLEsLLqsME  169 (305)
T PF15290_consen  119 LKEARKEIKQLKQVIETMRSSL----------AEKDKGIQKYFVDINIQNKKLESLLQSME  169 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhh----------chhhhhHHHHHhhhhhhHhHHHHHHHHHH
Confidence            4555555555555555554433          33455666777777777777777776666

>COG1322 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]

Probab=82.18  E-value=61  Score=32.85  Aligned_cols=107  Identities=16%  Similarity=0.266  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------hh-hccH-HHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR--------DE-SKDM-AAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~--------~d-~qkl-~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      +...+.+.+..++.+.....+++.+.+.+-.+|.+-.        .+ .++| .-++..++++++.+.   .-+..+=+.
T Consensus        82 l~~~~~~~~eq~~~l~~~~~ql~~~~~~~~~~i~e~~~~~~~el~~~~~~~Ll~~~~~~~e~f~e~l~---~~~~~s~~~  158 (448)
T COG1322          82 LQQQLLQSREQLQLLIESLAQLSSEFQELANEIFEELNRRLAELNQQNLKQLLKPLREVLEKFREQLE---QRIHESAEE  158 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH
Confidence            3344444444455555555555555555555544322        11 2222 222233344444333   335556677


Q ss_pred             chhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh-HHHHH
Q 023255          194 RASNHEQREIMEKNIISVAQQIERLQAELANAEKR-ARAAA  233 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r-~~a~~  233 (285)
                      +..++++...|-.++-+|++|+-.|-+=|.+...| .||-.
T Consensus       159 ~~~~~~~i~~~lg~~~~la~e~~~Lt~~Lk~~ktrG~wGEv  199 (448)
T COG1322         159 RSTLLEEIDRLLGEIQQLAQEAGNLTAALKGNKTRGNWGEV  199 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccccHHHH
Confidence            88999999999999999999999999999997777 45544

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

Probab=82.12  E-value=42  Score=31.00  Aligned_cols=14  Identities=43%  Similarity=0.586  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHhHH
Q 023255          213 QQIERLQAELANAE  226 (285)
Q Consensus       213 ~e~ekLrael~n~e  226 (285)
                      .|++.|+.++..|.
T Consensus       103 ~Ea~~lq~el~~ar  116 (246)
T PF00769_consen  103 EEAEELQEELEEAR  116 (246)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            45556666655553

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

>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=82.09  E-value=49  Score=31.75  Aligned_cols=86  Identities=26%  Similarity=0.380  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~  123 (285)
                      +..|.+.|...+...++-+..|-.|-..-..|.-++...+..|--++..+...+-+.       -+|+.-+|..-+..+.
T Consensus        79 ~r~lk~~l~evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~-------~eK~~elEr~K~~~d~  151 (302)
T PF09738_consen   79 LRDLKDSLAEVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQREY-------REKIRELERQKRAHDS  151 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
Confidence            667888888888888888888988888888999999999999988888887555444       2333333444455555


Q ss_pred             HHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIE  136 (285)
Q Consensus       124 lk~El~qlr~eiq  136 (285)
                      ++.++..|+.++.
T Consensus       152 L~~e~~~Lre~L~  164 (302)
T PF09738_consen  152 LREELDELREQLK  164 (302)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555443

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.

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

Probab=82.07  E-value=37  Score=30.33  Aligned_cols=56  Identities=16%  Similarity=0.324  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          130 RVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       130 qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      .+...|.+|....-+|..+.+.+...+...   .+.+..|+.+++.+.+++..++-.|.
T Consensus       128 ~~e~~i~~Le~ki~el~~~~~~~~~~ke~~---~~ei~~lks~~~~l~~~~~~~e~~F~  183 (190)
T PF05266_consen  128 ELESEIKELEMKILELQRQAAKLKEKKEAK---DKEISRLKSEAEALKEEIENAELEFQ  183 (190)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444333333333322   45666777777777777777766554

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

Probab=82.03  E-value=23  Score=32.44  Aligned_cols=57  Identities=19%  Similarity=0.287  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ...+++++++|+.|+++.....|-..+-...+.-|.+..-+=+.....|-.+||.++
T Consensus       153 ~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i  209 (216)
T KOG1962|consen  153 NDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQI  209 (216)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555444555555555555555555666666655

>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=81.37  E-value=32  Score=32.51  Aligned_cols=43  Identities=19%  Similarity=0.313  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      .|.++..+.|+..+..++.+.....+++..+|..+..-|.++.
T Consensus       199 ~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~  241 (269)
T PF05278_consen  199 DRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELE  241 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555566666666655555555555555554444444433

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

Probab=81.33  E-value=50  Score=31.31  Aligned_cols=92  Identities=14%  Similarity=0.157  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHH
Q 023255          100 RDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQE  179 (285)
Q Consensus       100 ~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqE  179 (285)
                      +--++|..+.-+...|..   +.+.+.--..|..+|.+|..... -+.++..|+++|.+...+..   ..+++|..++.+
T Consensus       122 ~~d~yR~~LK~IR~~E~s---l~p~R~~r~~l~d~I~kLk~k~P-~s~kl~~LeqELvraEae~l---vaEAqL~n~kR~  194 (271)
T PF13805_consen  122 RLDQYRIHLKSIRNREES---LQPSRDRRRKLQDEIAKLKYKDP-QSPKLVVLEQELVRAEAENL---VAEAQLSNIKRQ  194 (271)
T ss_dssp             HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-T-TTTTHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH---HhHHHHHhHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHHHHhh---HHHHHHHHhhHH
Confidence            455667776667777776   44445555556677777665433 25567777777777665532   334566666554


Q ss_pred             HHhhhhhhhhhhhhchhhhHH
Q 023255          180 IHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       180 l~~~ra~~e~ekk~~~e~~eq  200 (285)
                        +++.+|.+.=.+-.|.-|.
T Consensus       195 --~lKEa~~~~f~Al~E~aEK  213 (271)
T PF13805_consen  195 --KLKEAYSLKFDALIERAEK  213 (271)
T ss_dssp             --HHHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHH
Confidence              5556666655555444443

>PRK13997 potassium-transporting ATPase subunit C; Provisional

Probab=81.29  E-value=2.3  Score=38.30  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=25.3

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023255            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (285)
Q Consensus         3 ifG~tli-------vtf~p~rsvTleGD~ydpeG~LsGGs~p~~~~~l   43 (285)
                      |-|+.||       -+|||.+|-|   + |||.+  ||||.-.++.|.
T Consensus        54 vvGS~LIgQ~Ft~~~YF~~RPSa~---~-y~~~~--SggSNl~psnp~   95 (193)
T PRK13997         54 VIGSKLIGQNFTDPRYFHGRVSSI---E-YKAEA--SGSNNYAPSNPD   95 (193)
T ss_pred             EEeeeeecCCCCCCCCccCCCCCC---C-CCccc--ccccCCCCCCHH
Confidence            5688888       8899997776   2 88765  788854445554

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

Probab=81.25  E-value=14  Score=28.01  Aligned_cols=60  Identities=23%  Similarity=0.267  Sum_probs=32.7

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRA  229 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~  229 (285)
                      +.+|..|+.|-+.|...-.+.+..|.--+....       ..|+.+..+...++++..++.+.+.|.
T Consensus        11 De~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~-------e~e~~~~~l~~~~~~~e~~~~~l~~~l   70 (74)
T PF12329_consen   11 DEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIK-------ELEKQIKELKKKLEELEKELESLEERL   70 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            556666666666666666666666654443333       334444445555555555555555443

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.

>cd07657 F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases

Probab=81.10  E-value=45  Score=30.64  Aligned_cols=97  Identities=10%  Similarity=0.150  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh---------
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK---------  192 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk---------  192 (285)
                      ..+.+++..+..++.+....-..+-.++....+-..+...+..   .-++++++.+..++.......-=|+         
T Consensus       115 ~kl~~el~~~~~el~k~Kk~Y~~~~~e~e~Ar~k~e~a~~~~~---~~~~~~eKak~k~~~~~~k~~~akNeY~l~l~~a  191 (237)
T cd07657         115 QQIDEQYKKLTDEVEKLKSEYQKLLEDYKAAKSKFEEAVVKGG---RGGRKLDKARDKYQKACRKLHLCHNDYVLALLEA  191 (237)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc---cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555555555555555555444433321   1244444444444443333333222         


Q ss_pred             ----------hchhhhHHHHHHHHhHHHHHHHHHHHHHH
Q 023255          193 ----------NRASNHEQREIMEKNIISVAQQIERLQAE  221 (285)
Q Consensus       193 ----------~~~e~~eq~q~meknli~ma~e~ekLrae  221 (285)
                                .=+++++.+|.|+.++|.+-+++=.-=++
T Consensus       192 N~~q~~yY~~~lP~ll~~lQ~l~E~ri~~~k~~l~~~~~  230 (237)
T cd07657         192 QEHEEDYRTLLLPGLLNSLQSLQEEFITQWKKILQEYLR  230 (237)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                      23578899999999999998877443333

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), and Fer (Fes related) are cytoplasmic (or nonreceptor) tyrosine kinases that play roles in haematopoiesis, inflammation and immunity, growth factor signaling, cytoskeletal regulation, cell migration and adhesion, and the regulation of cell-cell interactions. Although Fes and Fer show redundancy in their biological functions, they show differences in their expression patterns. Fer is ubiquitously expressed while Fes is expressed predominantly in myeloid and endothelial cells. Fes and Fer contain an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a posit

>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA)

Probab=80.86  E-value=25  Score=32.84  Aligned_cols=12  Identities=17%  Similarity=0.523  Sum_probs=9.1

Q ss_pred             CCcccCCCC-CCC
Q 023255          241 STSYAASYG-NPD  252 (285)
Q Consensus       241 ~~~y~~~~g-n~~  252 (285)
                      +|-||||+. -|+
T Consensus       275 aGiyGMNf~~mP~  287 (318)
T TIGR00383       275 AGIYGMNFKFMPE  287 (318)
T ss_pred             HHHHhCCcccCcc
Confidence            578999996 454

The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.

>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]

Probab=80.78  E-value=53  Score=31.22  Aligned_cols=91  Identities=10%  Similarity=0.164  Sum_probs=44.5

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc-----hhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH----
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNR-----ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA----  233 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~-----~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~~----  233 (285)
                      ..++-.|+..+=.+|.-+...+.++-.-.+..     .+.-++.+-.--.+.++...++-++..+.+.-.=.-+-.    
T Consensus       179 l~~l~~l~~~l~~lr~~l~~~~~~l~~l~~~~~~~~~~~~~~~l~dv~~~~~~~~~~~~~~~~~l~~l~d~~~s~is~~~  258 (322)
T COG0598         179 LERLGELRRSLVYLRRALAPLRDVLLRLARRPLDWLSEEDREYLRDVLDHLTQLIEMLEALRERLSSLLDAYLSLINNNQ  258 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555455555555444444444332     344444444455555555556666555544321111111    


Q ss_pred             ---------HhhhcCC----CCcccCCCCC-CCC
Q 023255          234 ---------AAAAVNP----STSYAASYGN-PDP  253 (285)
Q Consensus       234 ---------~a~~~~~----~~~y~~~~gn-~~~  253 (285)
                               .+.+.-|    .|-||||+++ |+.
T Consensus       259 N~imk~LTi~s~iflPpTlIagiyGMNf~~mPel  292 (322)
T COG0598         259 NEIMKILTIVSTIFLPPTLITGFYGMNFKGMPEL  292 (322)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHcccccCCCCCcCC
Confidence                     1333333    5799999985 654

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

Probab=80.73  E-value=28  Score=28.04  Aligned_cols=69  Identities=20%  Similarity=0.265  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023255          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEK  191 (285)
Q Consensus       119 r~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ek  191 (285)
                      ..+-.+..+|..++.+.-.+...-+++..++..+.++......    -+.+..+|+.++++++..|.-..--|
T Consensus        10 ~~~~~l~~~L~~v~~~~l~l~~~n~el~~el~~l~~~~~~~~~----~~~~~~~l~~~~~~lk~~r~~~~v~k   78 (106)
T PF05837_consen   10 QESRSLQEKLSDVEKKRLRLKRRNQELAQELLELAEKQKSQRE----DEELSEKLEKLEKELKKSRQRWRVMK   78 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc----chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556666666666667777777777777777766555333    45677777777777776666554444

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

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=80.62  E-value=5  Score=32.68  Aligned_cols=39  Identities=23%  Similarity=0.280  Sum_probs=25.1

Q ss_pred             hhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          184 RAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       184 ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ..|+++-++.-..+-+++..+++++.....++..+.+.+
T Consensus        85 ~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l  123 (126)
T TIGR00293        85 EEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQEA  123 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555556556666666777777777777776666655

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>PRK11519 tyrosine kinase; Provisional

Probab=80.39  E-value=84  Score=33.34  Aligned_cols=113  Identities=16%  Similarity=0.249  Sum_probs=64.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI---  141 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~---  141 (285)
                      ..-+..+...++++|..++..|+........+..+.  +.+.+++....++++          +.+++....++...   
T Consensus       269 ~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~vd~~~--ea~~~l~~~~~l~~q----------l~~l~~~~~~l~~~y~~  336 (719)
T PRK11519        269 LAFLAQQLPEVRSRLDVAENKLNAFRQDKDSVDLPL--EAKAVLDSMVNIDAQ----------LNELTFKEAEISKLYTK  336 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchH--HHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhcc
Confidence            345777888899999999999999887766543332  233454444444443          33333322222211   


Q ss_pred             ----HHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          142 ----KQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       142 ----rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                          .+.|..+.+.|.+++.+++.....++..+.++..|..+..-.+.-++.
T Consensus       337 ~hP~v~~l~~~~~~L~~~~~~l~~~~~~lp~~e~~~~~L~Re~~~~~~lY~~  388 (719)
T PRK11519        337 EHPAYRTLLEKRKALEDEKAKLNGRVTAMPKTQQEIVRLTRDVESGQQVYMQ  388 (719)
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence                234445555666666666655666666666666666555555554433

>PRK00315 potassium-transporting ATPase subunit C; Reviewed

Probab=80.11  E-value=2.4  Score=38.13  Aligned_cols=38  Identities=16%  Similarity=0.164  Sum_probs=26.7

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023255            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (285)
Q Consensus         3 ifG~tli-------vtf~p~rsvTleGD~ydpeG~LsGGs~p~~~~~l   43 (285)
                      |.|+.||       -+|||.+|-+ +.+-||+.+  ||||.-.++.|.
T Consensus        50 vvGS~LIgQ~F~~~~yF~~RPSa~-~~~~y~~~~--SggSNl~psnp~   94 (193)
T PRK00315         50 VVGSALIGQNFTGPGYFHGRPSAT-APMPYNPQA--SGGSNLAPSNPA   94 (193)
T ss_pred             EeeehhcCCCCCCCCCcCCCCCcC-CCCCCCccc--ccccCCCCCCHH
Confidence            5688888       8899997775 444688765  788854445553

>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases

Probab=80.08  E-value=11  Score=33.24  Aligned_cols=43  Identities=5%  Similarity=0.226  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023255          143 QEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       143 qeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      .+|..+|..|+++++....--.+.+.|+.+..-|..||.....
T Consensus       123 ~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~eL~~F~~  165 (171)
T PF04799_consen  123 NELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLESELERFQE  165 (171)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555444444444555555555555555544433

Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	285
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	8e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 59.1 bits (143), Expect = 5e-10
 Identities = 34/186 (18%), Positives = 72/186 (38%), Gaps = 6/186 (3%)

Query: 47   LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRE 106
            +ED I I       L ++ + L      L   L+  E++ ++L+ +    ++    E+  
Sbjct: 988  MEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMIS-ELEV 1046

Query: 107  LYEKSLKLDAEL-RVIESMHAELDRVRADIEKLCVIKQEMIKDL----NEINGDLAKARD 161
              +K  K   EL ++   +  E   +   I +L     E+   L     E+   LA+  D
Sbjct: 1047 RLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLED 1106

Query: 162  ESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE 221
            E+        +I      I   +  +E EK  R    +Q+  + + + ++  ++E     
Sbjct: 1107 ETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDT 1166

Query: 222  LANAEK 227
             A  ++
Sbjct: 1167 TATQQE 1172

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 51.0 bits (122), Expect = 2e-07
 Identities = 30/181 (16%), Positives = 71/181 (39%), Gaps = 6/181 (3%)

Query: 50   RIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYE 109
            ++  + + +Q  LQ    L A    ++  L+  +QEL  +     +   E +   ++L  
Sbjct: 889  QLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQA 948

Query: 110  KSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAI 169
            +  K+  ++  +E    E +  R  ++   V     IK + +   D+    D++  +   
Sbjct: 949  EKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMED---DILIMEDQNNKLTKE 1005

Query: 170  KAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRA 229
            +  +E    ++    A  E EK    +  + +   E  I  +  ++++ +      EK  
Sbjct: 1006 RKLLEERVSDLTTNLAEEE-EKAKNLTKLKNK--HESMISELEVRLKKEEKSRQELEKIK 1062

Query: 230  R 230
            R
Sbjct: 1063 R 1063

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 40.6 bits (95), Expect = 5e-04
 Identities = 26/137 (18%), Positives = 60/137 (43%), Gaps = 13/137 (9%)

Query: 98  AERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA 157
             +D E++   E+  K +AEL+ +E  H +L   +  +++    + E+  +  E+   LA
Sbjct: 860 QAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLA 919

Query: 158 KARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIER 217
             +   +++  I  E+E   +E  +    ++ EKK           M++ ++ + +Q+E 
Sbjct: 920 AKK---QELEEILHEMEARIEEEEERSQQLQAEKKK----------MQQQMLDLEEQLEE 966

Query: 218 LQAELANAEKRARAAAA 234
            +A     +     A  
Sbjct: 967 EEAARQKLQLEKVTADG 983

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 50.5 bits (121), Expect = 3e-07
 Identities = 27/183 (14%), Positives = 72/183 (39%), Gaps = 12/183 (6%)

Query: 48   EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL 107
              ++ I+   ++   + +  L    + L++++    +E + L     +++     E  +L
Sbjct: 906  LKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL 965

Query: 108  YEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMA 167
                      LR+ E              ++  +++E+ K   E++    + +   +   
Sbjct: 966  ----RSDVERLRMSEEEAKNAT------NRVLSLQEEIAKLRKELHQTQTEKKTIEEWAD 1015

Query: 168  AIKAEIETERQEIHKGRAAI--ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA 225
              K E E    E+ +    +  E E+ NR  + + +EI E     + ++ ++L+ +L + 
Sbjct: 1016 KYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDE 1075

Query: 226  EKR 228
              R
Sbjct: 1076 RLR 1078

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

 Score = 44.5 bits (104), Expect = 3e-05
 Identities = 28/241 (11%), Positives = 70/241 (29%), Gaps = 67/241 (27%)

Query: 45  HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEV 104
           HH++          + +L   +       A          + + +  +  S+ +    E+
Sbjct: 5   HHMDFETGEHQYQYKDILSVFED------AFVDNF-----DCKDVQDMPKSILS--KEEI 51

Query: 105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD--LAKARDE 162
             +      +   LR+  ++ ++ +           + Q+ ++++  IN    ++  + E
Sbjct: 52  DHIIMSKDAVSGTLRLFWTLLSKQEE----------MVQKFVEEVLRINYKFLMSPIKTE 101

Query: 163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL 222
            +  + +      +R               +R  N  Q  +  K  +S  Q   +L+  L
Sbjct: 102 QRQPSMMTRMYIEQR---------------DRLYNDNQ--VFAKYNVSRLQPYLKLRQAL 144

Query: 223 ANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVSALTCLSTVLELQ 282
                                     G    G G +  A            CLS  ++ +
Sbjct: 145 LELR--------------PAKNVLIDG--VLGSGKTWVA---------LDVCLSYKVQCK 179

Query: 283 F 283
            
Sbjct: 180 M 180

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 38.4 bits (88), Expect = 8e-04
 Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 9/37 (24%)

Query: 205 EKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPS 241
           EK      Q +++LQA L   +  A  +A A A+  +
Sbjct: 18  EK------QALKKLQASL---KLYADDSAPALAIKAT 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	285
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.71
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.61
1gxl_A	213	SMC, chromosome segregation SMC protein; SMC dimer	97.49
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.48
2wd5_B	213	Structural maintenance of chromosomes protein 3; D	97.43
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.25
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	97.14
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.89
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.85
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	96.68
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	96.33
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.29
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.22
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.2
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.07
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.89
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	95.89
2wd5_A	233	Structural maintenance of chromosomes protein 1A;	95.54
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	95.51
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.28
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	95.0
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	94.98
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	94.91
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	94.79
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	94.77
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	94.74
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	94.73
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	94.4
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	94.0
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	93.77
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	93.66
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	93.54
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	93.53
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	93.45
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	93.14
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	93.09
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	93.07
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	93.02
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	92.94
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.89
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	92.81
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	92.79
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	92.39
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	92.16
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	92.07
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	91.76
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	91.69
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	91.49
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	91.33
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	90.41
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	90.37
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	90.06
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	89.95
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	89.89
2efk_A	301	CDC42-interacting protein 4; EFC domain, structura	89.4
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	89.23
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	88.79
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	88.79
2w6b_A	56	RHO guanine nucleotide exchange factor 7; X-RAY cr	88.77
3lay_A	175	Zinc resistance-associated protein; salmonella typ	88.76
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	88.72
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	88.34
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	88.3
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	88.16
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	88.06
1ez3_A	127	Syntaxin-1A; three helix bundle, endocytosis/exocy	88.02
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	87.97
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	87.88
2pih_A	151	Protein YMCA; regulate community development, stru	87.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.52
3bas_A	89	Myosin heavy chain, striated muscle/general contro	87.35
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	87.34
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	86.75
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	86.65
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	86.53
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	86.45
4ad8_A	517	DNA repair protein RECN; DNA binding protein, ATPa	86.31
3haj_A	486	Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR,	86.17
1t3j_A	96	Mitofusin 1; coiled coil antiparallel, dimer, memb	85.73
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	85.55
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	85.39
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	84.42
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	83.92
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	83.53
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	83.31
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	83.23
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	82.14
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	81.61
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	80.88

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

Probab=97.71  E-value=0.0039  Score=56.14  Aligned_cols=104  Identities=11%  Similarity=0.093  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHH------HHHH
Q 023255           50 RIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELR------VIES  123 (285)
Q Consensus        50 ~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr------~~e~  123 (285)
                      +|......+..+-.....+-+....++..+...+.++.-+...+...    +..+..+-.++.+.+..+.      ...+
T Consensus        19 ~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~----e~~i~~~~~ri~~~~~~l~~v~~~kE~~a   94 (256)
T 3na7_A           19 EIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKN----EQTLQDTNAKIASIQKKMSEIKSERELRS   94 (256)
T ss_dssp             HHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHCSSSSHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHccCCHHHHHH
Confidence            33333333333333333344444444444444444444444443322    3333445555555555543      2344


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~  157 (285)
                      +..||..+..++..+.....++..++..++.++.
T Consensus        95 L~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~  128 (256)
T 3na7_A           95 LNIEEDIAKERSNQANREIENLQNEIKRKSEKQE  128 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444433

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

Probab=97.61  E-value=0.0016  Score=69.81  Aligned_cols=123  Identities=13%  Similarity=0.124  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQE  144 (285)
Q Consensus        65 nqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqe  144 (285)
                      +..|-.....|++.|.....+...|...+.......+.++-+|-.....||......+..++++..+..++.++....++
T Consensus       923 ~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~ 1002 (1080)
T 2dfs_A          923 HIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQ 1002 (1080)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444445555555555555555555554444443444444443333333333333444444555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          145 MIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       145 L~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      +..+...+++.+.+.+.+ ..++..|++|...|++++..+...+
T Consensus      1003 ~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~qq~~~l~~~~ 1046 (1080)
T 2dfs_A         1003 TQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRI 1046 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555444 4556666666666666666655433

>1gxl_A SMC, chromosome segregation SMC protein; SMC dimerisation domain, anti parallel coiled coil, SMC proteins; 3.0A {Thermotoga maritima} SCOP: d.215.1.1

Probab=97.49  E-value=2.9e-05  Score=66.78  Aligned_cols=53  Identities=9%  Similarity=0.060  Sum_probs=37.6

Q ss_pred             cccCceEE---------Eeec--CC-CcccccCCccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHH
Q 023255            2 NIYGNSLH---------TTLH--NH-SQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHS   56 (285)
Q Consensus         2 ~ifG~tli---------vtf~--p~-rsvTleGD~ydpeG~LsGGs~p~~~~~l~n~Lee~L~~q~~   56 (285)
                      .+||+++|         +.+.  |+ ++||++||+++|+|.++||+.+..++++  ....+|...+.
T Consensus       140 ~~lg~~~vv~~l~~A~~~~~~~~~~~~~VT~~G~~~~~~G~~~gg~~~~~~~~l--~~~~el~~l~~  204 (213)
T 1gxl_A          140 FLFGNSVVVETLDDAIRMKKKYRLNTRIATLDGELISGRGAITGGREERSSNVF--ERRIKLKHLEQ  204 (213)
T ss_dssp             HHSSSEEEESSHHHHHHHHHHTCSSCEEECTTSCEECTTSCEEECCCSSCCCTT--HHHHHHHHHHH
T ss_pred             HHhCCEEEECCHHHHHHHHHhcCCCceEEecCCeEEcCCceEECCCCccccchh--hHHHHHHHHHH
Confidence            36899999         3443  33 8999999999999999999864445555  33444444433

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.48  E-value=0.00045  Score=74.46  Aligned_cols=10  Identities=0%  Similarity=0.159  Sum_probs=3.9

Q ss_pred             HHHHHHHHHH
Q 023255           47 LEDRIAIQHS   56 (285)
Q Consensus        47 Lee~L~~q~~   56 (285)
                      +++++.....
T Consensus       862 L~~eL~el~~  871 (1184)
T 1i84_S          862 KDEELQRTKE  871 (1184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3334443333

>2wd5_B Structural maintenance of chromosomes protein 3; DNA damage, cell cycle, cell division; 2.70A {Mus musculus}

Probab=97.43  E-value=2.3e-05  Score=68.02  Aligned_cols=42  Identities=17%  Similarity=0.226  Sum_probs=31.4

Q ss_pred             cccCceEE---------EeecCC-CcccccCCccCCCCCCCCCCCCCCCCch
Q 023255            2 NIYGNSLH---------TTLHNH-SQFTMSGRRVLREPPLSTRALPPQHSPS   43 (285)
Q Consensus         2 ~ifG~tli---------vtf~p~-rsvTleGD~ydpeG~LsGGs~p~~~~~l   43 (285)
                      .+||+++|         +.+.++ ++||++||+++|+|.++||+.+..++.+
T Consensus       142 ~~l~~~~vv~~l~~A~~l~~~~~~~~VTldG~~~~~~G~~tgG~~~~~~~~l  193 (213)
T 2wd5_B          142 HVFGKTLICRSMEVSTQLARAFTMDCITLEGDQVSHRGALTGGYYDTRKSRL  193 (213)
T ss_dssp             HHHTTEEEESSHHHHHHHHHHSSCEEECTTCCEECTTSCEEECCCCCC---H
T ss_pred             HHcCCEEEECCHHHHHHHHHhcCceEEeCCCcEECCCeEEECCCCCCCccHh
Confidence            36899999         444434 8999999999999999999866443444

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

Probab=97.25  E-value=0.055  Score=48.56  Aligned_cols=41  Identities=12%  Similarity=0.109  Sum_probs=20.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023255           59 QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (285)
Q Consensus        59 q~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae   99 (285)
                      |.+-....++......|..+|...+.++..+...+.....+
T Consensus        14 Q~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~   54 (256)
T 3na7_A           14 SHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEE   54 (256)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444445555555555555555555544444

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

Probab=96.89  E-value=0.022  Score=61.13  Aligned_cols=85  Identities=8%  Similarity=0.054  Sum_probs=49.0

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHHhhhh
Q 023255          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD-MAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       107 L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qk-l~aLkaEIe~LrqEl~~~ra  185 (285)
                      +.+...+|..++...+...+|+.++.+.+..|..+..++..+++.+.++........++ ...|+..|..|++|.+++|.
T Consensus       958 ~~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~q 1037 (1080)
T 2dfs_A          958 YSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKT 1037 (1080)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555666666666666666666666666666666665544222 24566666667777666666


Q ss_pred             hhhhhh
Q 023255          186 AIECEK  191 (285)
Q Consensus       186 ~~e~ek  191 (285)
                      .++.-.
T Consensus      1038 q~~~l~ 1043 (1080)
T 2dfs_A         1038 EKEELN 1043 (1080)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665543

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

Probab=96.85  E-value=0.19  Score=43.01  Aligned_cols=44  Identities=9%  Similarity=0.197  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM  166 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl  166 (285)
                      .+...|.+-+.+-........+|...|..|..||.+.....+++
T Consensus        73 ~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~  116 (168)
T 3o0z_A           73 QLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKV  116 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444445566667777777766665444443

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

Probab=96.68  E-value=0.15  Score=44.34  Aligned_cols=38  Identities=8%  Similarity=0.054  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      .++....+++..|.+|...-.+|.........-+.+|.
T Consensus        99 ~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e  136 (189)
T 2v71_A           99 QTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFE  136 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHH
Confidence            33333333444444444433344333333333333333

>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=96.33  E-value=0.034  Score=55.03  Aligned_cols=78  Identities=3%  Similarity=0.199  Sum_probs=48.8

Q ss_pred             hhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhccHHHHHHH
Q 023255           94 ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI-KQEMIKDLNEINGDLAKARDESKDMAAIKAE  172 (285)
Q Consensus        94 ~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~-rqeL~aevq~LekDL~~~~~d~qkl~aLkaE  172 (285)
                      ..+..+.+.+++.+             .+.++..+.+.. +....... -.+|...++.|+..|..   ..++|..|+.-
T Consensus        77 sKnsKdseqy~k~~-------------~E~Lr~rq~q~~-dNdNtynE~S~ELRRrIqyLKekVdn---QlsnIrvLQsn  139 (562)
T 3ghg_A           77 QKNNKDSHSLTTNI-------------MEILRGDFSSAN-NRDNTYNRVSEDLRSRIEVLKRKVIE---KVQHIQLLQKN  139 (562)
T ss_dssp             HHHHHHHHHHHHHH-------------HHTTSSHHHHHH-HHHHHHHHTTHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HhhchhHHHHHHHH-------------HHHHHHHHHhhh-ccchhHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence            34445555566666             445555554444 33333223 33666666667666554   45788888888


Q ss_pred             HHHHHHHHHhhhhhhh
Q 023255          173 IETERQEIHKGRAAIE  188 (285)
Q Consensus       173 Ie~LrqEl~~~ra~~e  188 (285)
                      |+.++.+|+|++.+|+
T Consensus       140 Ledq~~kIQRLEvDId  155 (562)
T 3ghg_A          140 VRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            8888888888888875

>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=96.29  E-value=0.037  Score=54.32  Aligned_cols=20  Identities=15%  Similarity=0.071  Sum_probs=7.8

Q ss_pred             HHHHHHHHHhhhhhhhhhhh
Q 023255          173 IETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       173 Ie~LrqEl~~~ra~~e~ekk  192 (285)
                      ++.+++|..+.+..++..|+
T Consensus       539 ~~~~~~~~~~le~~~~~~~~  558 (597)
T 3oja_B          539 TEDLEQENIALEKQLDNKRA  558 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHhhhHHHHHHHhhhhh
Confidence            33333333333433333333

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

Probab=96.22  E-value=0.69  Score=54.82  Aligned_cols=32  Identities=6%  Similarity=0.199  Sum_probs=16.0

Q ss_pred             hhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          195 ASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       195 ~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      .+.-+.++.++.++-...+|.++|..|+..++
T Consensus      2038 ~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~ 2069 (3245)
T 3vkg_A         2038 TALEKSIATYKEEYATLIRETEQIKTESSKVK 2069 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555555555555555555444

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

Probab=96.20  E-value=0.81  Score=54.23  Aligned_cols=57  Identities=9%  Similarity=0.083  Sum_probs=33.0

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHH
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQA  220 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLra  220 (285)
                      .++.+++++|..+..+|..+...|+.-.+....+-.+++.+++.|.+-.+=|..|-.
T Consensus      2028 ~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~ 2084 (3245)
T 3vkg_A         2028 LKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNS 2084 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            445555666666666666666666555555555666666666666655544444433

>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=96.07  E-value=0.091  Score=51.48  Aligned_cols=57  Identities=12%  Similarity=0.093  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023255          170 KAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (285)
Q Consensus       170 kaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e  226 (285)
                      ..+++..+++++.....++..++...+.-.+.+.|.+.+..+.+|+.++++|+...+
T Consensus       522 ~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~  578 (597)
T 3oja_B          522 LRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLE  578 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444544455556666666777777777778888888876655

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=95.89  E-value=0.15  Score=38.85  Aligned_cols=79  Identities=11%  Similarity=0.232  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           74 ALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (285)
Q Consensus        74 ~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~Le  153 (285)
                      .||++|..+..+-.++...+.+.+..-       -+=-.|.|.|+.....+..++..++.++..+.-.+.+|.++|.+|.
T Consensus         4 eLr~qi~~l~~e~~~l~~e~dn~~~~~-------edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~   76 (86)
T 3swk_A            4 ELRRQVDQLTNDKARVEVERDNLAEDI-------MRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQ   76 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            456666666666666655555443331       1223466777777888888888888888888888888888888888


Q ss_pred             HHHHHH
Q 023255          154 GDLAKA  159 (285)
Q Consensus       154 kDL~~~  159 (285)
                      .+|.=+
T Consensus        77 eEl~fL   82 (86)
T 3swk_A           77 EEIAFL   82 (86)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777643

>2wd5_A Structural maintenance of chromosomes protein 1A; DNA damage, cell cycle, cell division; 2.70A {Mus musculus}

Probab=95.54  E-value=0.0014  Score=57.87  Aligned_cols=34  Identities=18%  Similarity=0.237  Sum_probs=28.4

Q ss_pred             cccCceEE---------EeecC--C-CcccccCCccCCCCCCCCCC
Q 023255            2 NIYGNSLH---------TTLHN--H-SQFTMSGRRVLREPPLSTRA   35 (285)
Q Consensus         2 ~ifG~tli---------vtf~p--~-rsvTleGD~ydpeG~LsGGs   35 (285)
                      .+||+++|         +.|..  . +.||++||+++|+|.++||+
T Consensus       151 ~~Lg~~~vv~dl~~A~~l~~~~~~~~r~VTldG~~~~~~G~~tGG~  196 (233)
T 2wd5_A          151 YACGNALVCDNVEDARRIAFGGHQRHKTVALDGTLFQKSGVISGGA  196 (233)
T ss_dssp             HHTTTCEEESSHHHHHHHHHSSSSCCCEEETTCCEECTTSCEEECH
T ss_pred             HHhCCEEEECCHHHHHHHHHhcCCCceEEecCCEEEeCCeeEeCCC
Confidence            36899999         44442  3 99999999999999999997

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=95.51  E-value=0.55  Score=39.56  Aligned_cols=81  Identities=14%  Similarity=0.262  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      .....|..+|..+.++|.....++..+...++ +++.+          .........|+..+..++.+-...|.+.....
T Consensus        13 n~qs~LeD~L~~~R~el~~~~~ri~~lE~~r~-~~~~l----------~~~~~~~~~e~~~L~~~l~~E~~~R~~aE~~~   81 (154)
T 2ocy_A           13 DKQSHLEEQLNKSLKTIASQKAAIENYNQLKE-DYNTL----------KRELSDRDDEVKRLREDIAKENELRTKAEEEA   81 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHH-HHHHH----------HTHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH----------HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556777777777777777777777666653 33334          22345677888888888888888888888888


Q ss_pred             HHHHHHHHHHhh
Q 023255          150 NEINGDLAKARD  161 (285)
Q Consensus       150 q~LekDL~~~~~  161 (285)
                      ..+++||.++.+
T Consensus        82 ~~ie~ElEeLTa   93 (154)
T 2ocy_A           82 DKLNKEVEDLTA   93 (154)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888888653

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=95.28  E-value=0.092  Score=40.01  Aligned_cols=81  Identities=15%  Similarity=0.299  Sum_probs=58.6

Q ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023255           86 LRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD  165 (285)
Q Consensus        86 L~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qk  165 (285)
                      |+-|..++.....++           .+++.+   ++.++..+...+...+.-...|+.+.+++..+.+|+....-.  |
T Consensus         2 i~eLr~qi~~l~~e~-----------~~l~~e---~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~--r   65 (86)
T 3swk_A            2 MRELRRQVDQLTNDK-----------ARVEVE---RDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLA--R   65 (86)
T ss_dssp             CHHHHHHHHHHHHHH-----------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHH--H
T ss_pred             HHHHHHHHHHHHhhH-----------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH--H
Confidence            445666666666655           366666   777888889999999999999999999999999998875411  1


Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 023255          166 MAAIKAEIETERQEIHKG  183 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~  183 (285)
                       -.|...|++|+.||.=+
T Consensus        66 -~dLE~kvesL~eEl~fL   82 (86)
T 3swk_A           66 -LDLERKVESLQEEIAFL   82 (86)
T ss_dssp             -HHHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHHH
Confidence             35666666666665433

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

Probab=95.00  E-value=1.6  Score=37.85  Aligned_cols=11  Identities=27%  Similarity=0.283  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q 023255           78 ELSLAEQELRH   88 (285)
Q Consensus        78 EL~laqhEL~~   88 (285)
                      ++..+++++.-
T Consensus        25 ~~~~le~El~E   35 (189)
T 2v71_A           25 SFQEARDELVE   35 (189)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>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=94.98  E-value=0.44  Score=38.37  Aligned_cols=70  Identities=13%  Similarity=0.256  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      ++.+|-+.+.-+.+..+.---+..-|-.|...|.+-.+- -+++.+|+.||+.|.++|+.+.+.+|.-++.
T Consensus        30 Lq~qLTqAQe~l~~~eaQAaTCNqTV~tL~~SL~~ekaq~q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~  100 (121)
T 3mq7_A           30 LQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLRRE  100 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344444444444444444444445555555555554444 4467888888888888887776655444433

>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=94.91  E-value=0.2  Score=37.42  Aligned_cols=68  Identities=19%  Similarity=0.418  Sum_probs=46.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 023255           56 SDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADI  135 (285)
Q Consensus        56 ~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~ei  135 (285)
                      .+++.++.+|..|..++    +.|+..+.+|                               |.+++++--|-..++.++
T Consensus         9 kevEnLi~EN~eLl~TK----NaLnvvk~DL-------------------------------I~rvdELt~E~e~l~~El   53 (77)
T 2w83_C            9 REVENLILENTQLLETK----NALNIVKNDL-------------------------------IAKVDELTCEKDVLQGEL   53 (77)
T ss_dssp             HHHHHHHHHHHHHHHHH----HHHHHHHHHH-------------------------------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH----HHHHHHHHHH-------------------------------HHHHHHHHhHHHHHHHHH
Confidence            47888999999888887    6777777653                               666777777777788888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 023255          136 EKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       136 q~l~~~rqeL~aevq~LekDL~~  158 (285)
                      ..+...+..+..++..++.++.+
T Consensus        54 ~s~~~~~~r~~~ri~elEeElkr   76 (77)
T 2w83_C           54 EAVKQAKLKLEEKNRELEEELRK   76 (77)
T ss_dssp             HHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhc
Confidence            88888888888888888777764

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=94.79  E-value=0.85  Score=36.05  Aligned_cols=84  Identities=17%  Similarity=0.234  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK-ARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~-~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e  196 (285)
                      ||.+.++-+.|-.++....++...+++|..++..++.+-.. +.....++..|+.+|..=+.|+.++..+++--......
T Consensus         7 LRK~aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~~~~~~k~~eq~~~le~lk~eL~~~~~el~~lq~~l~~~~~~~~~   86 (107)
T 2no2_A            7 LRKNAEVTKQVSMARQAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQVLQGSLETSAQSEAN   86 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999999999999999999999998744443 33337788888888888888888877766555555555


Q ss_pred             hhHHH
Q 023255          197 NHEQR  201 (285)
Q Consensus       197 ~~eq~  201 (285)
                      +..+.
T Consensus        87 l~~~~   91 (107)
T 2no2_A           87 WAAEF   91 (107)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44444

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

Probab=94.77  E-value=0.91  Score=43.25  Aligned_cols=29  Identities=21%  Similarity=0.363  Sum_probs=24.0

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIECEK  191 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~ek  191 (285)
                      .+|+.+|+.||..+.++|+.+++.|+..|
T Consensus       442 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  470 (471)
T 3mq9_A          442 QKKVEELEGEITTLNHKLQDASAEVERLR  470 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35788899999999999999998888654

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

Probab=94.74  E-value=0.97  Score=37.21  Aligned_cols=15  Identities=7%  Similarity=0.138  Sum_probs=10.9

Q ss_pred             CcccccCCccCCCCC
Q 023255           16 SQFTMSGRRVLREPP   30 (285)
Q Consensus        16 rsvTleGD~ydpeG~   30 (285)
                      =+|++.|..|--.|+
T Consensus        10 V~V~I~Gk~Y~i~g~   24 (138)
T 3hnw_A           10 AEVILGGKVIKLGGY   24 (138)
T ss_dssp             EEEEETTEEEEECSC
T ss_pred             eEEEECCEEEEecCC
Confidence            367888998876554

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

Probab=94.73  E-value=1.3  Score=35.63  Aligned_cols=97  Identities=14%  Similarity=0.203  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHH-----------HHHHHHhhhhhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIET-----------ERQEIHKGRAAIEC  189 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~-----------LrqEl~~~ra~~e~  189 (285)
                      +..+..++.+++..+.+....+++|..+...+..+.+++....+...++-++.+.           |-..|..+..-++.
T Consensus        15 ~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~rlee   94 (129)
T 2fxo_A           15 MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLED   94 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445566666777777777777777777777777766655443333333333333           33445555555666


Q ss_pred             hhhhchhhhHHHHHHHHhHHHHHHHHHH
Q 023255          190 EKKNRASNHEQREIMEKNIISVAQQIER  217 (285)
Q Consensus       190 ekk~~~e~~eq~q~meknli~ma~e~ek  217 (285)
                      +...+.++....+-|+..+-.+-..++-
T Consensus        95 eee~~~~L~~~kkkle~e~~~Lk~~led  122 (129)
T 2fxo_A           95 EEEMNAELTAKKRKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666655554444444443

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

Probab=94.40  E-value=0.55  Score=44.82  Aligned_cols=73  Identities=18%  Similarity=0.269  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          144 EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       144 eL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ++..-.+-|.++|.+.+.+-   +.+++.-.....-+..+...+|-++  .. .....+..|--+-....+++.+||++
T Consensus       394 e~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (471)
T 3mq9_A          394 EARNVTHLLQQELTEAQKGF---QDVEAQAATANHTVMALMASLDAEK--AQ-GQKKVEELEGEITTLNHKLQDASAEV  466 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH--HH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHhhhH---HHHHHHhhhcchhHHHHHHHHHHHH--HH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555666666555432   2233333333333333333332222  22 22355666666667777888888877

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

Probab=94.00  E-value=1.2  Score=35.51  Aligned_cols=47  Identities=13%  Similarity=0.256  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          116 AELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       116 aelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      +++..+.-+++.+.--+.|...-.+.|..+..++..|..++..++..
T Consensus        59 ~~lE~I~vLkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~q  105 (110)
T 2v4h_A           59 IVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQRE  105 (110)
T ss_dssp             HHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHHH
Confidence            33444555555555555555555555555555555555555554443

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

Probab=93.66  E-value=1.2  Score=35.76  Aligned_cols=77  Identities=9%  Similarity=0.164  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e  199 (285)
                      ..|.||..++..|+.|....+.+.....+|+..|.+.... ...+..+...|..|..++.++|..++---..|.+++.
T Consensus        33 ~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r~e~~~ql~EYq~Lln  110 (129)
T 3tnu_B           33 NTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEEALQKAKQDMARLLREYQELMN  110 (129)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            3456666667777777777777777777777777776666 6666667777777777777776666544444444443

>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=93.54  E-value=0.74  Score=45.64  Aligned_cols=94  Identities=11%  Similarity=0.205  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH-hhhhhhhhhhhhchhhhHH
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH-KGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~-~~ra~~e~ekk~~~e~~eq  200 (285)
                      ..++.-|..++..+.++...+++...-+..+...|.+-      +.... +.+....|+. .+|..|.|-|..=..++.+
T Consensus        60 rDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~r------q~q~~-dNdNtynE~S~ELRRrIqyLKekVdnQlsn  132 (562)
T 3ghg_A           60 QDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGD------FSSAN-NRDNTYNRVSEDLRSRIEVLKRKVIEKVQH  132 (562)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSH------HHHHH-HHHHHHHHTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHH------HHhhh-ccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555444444444444443333221      11111 3333344444 4455555555555556666


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHH
Q 023255          201 REIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       201 ~q~meknli~ma~e~ekLrael  222 (285)
                      ++++++||-..-.+|.||.-+|
T Consensus       133 IrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          133 IQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6777777777777777776666

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

Probab=93.53  E-value=0.57  Score=37.32  Aligned_cols=84  Identities=10%  Similarity=0.232  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq  200 (285)
                      ++.++..|..+..-+......+.+|..++.+...++              ..|.-|++++.--+.+|+-|..++-.+-+.
T Consensus        26 i~~L~~~L~~AEeaL~~Kq~~idelk~ei~q~~~~l--------------E~I~vLkaQv~IY~~DF~aERadREkl~~e   91 (110)
T 2v4h_A           26 LEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKIVM--------------ETVPVLKAQADIYKADFQAERHAREKLVEK   91 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------THHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHccchhhHHHHHhH
Confidence            455666666666666665555555555555544444              235555555555667777777777766666


Q ss_pred             HHHHHHhHHHHHHHHHHH
Q 023255          201 REIMEKNIISVAQQIERL  218 (285)
Q Consensus       201 ~q~meknli~ma~e~ekL  218 (285)
                      ...++..+-.+-+++.+|
T Consensus        92 Ke~L~~ql~~Lq~q~~~l  109 (110)
T 2v4h_A           92 KEYLQEQLEQLQREFNKL  109 (110)
T ss_dssp             HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            666666666665555443

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

Probab=93.45  E-value=1.1  Score=34.91  Aligned_cols=33  Identities=15%  Similarity=0.291  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      +++..++.++..|.........++..|..++.+
T Consensus         5 ~~~e~lre~l~~le~~~~~~~~e~~~L~~~l~e   37 (97)
T 2eqb_B            5 SNYNQLKEDYNTLKRELSDRDDEVKRLREDIAK   37 (97)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444444444444455555555554444

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

Probab=93.14  E-value=2.8  Score=33.71  Aligned_cols=32  Identities=16%  Similarity=0.259  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      .+.........|.+.++.|..++..+.+++.+
T Consensus        91 rleeeee~~~~L~~~kkkle~e~~~Lk~~led  122 (129)
T 2fxo_A           91 RLEDEEEMNAELTAKKRKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333334444444444444444444433

>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=93.09  E-value=2.8  Score=33.64  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAAS   95 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~   95 (285)
                      ..+.-|+++|..++.-|+..+.+...
T Consensus        25 N~T~lLq~qLTqAQe~l~~~eaQAaT   50 (121)
T 3mq7_A           25 NVTHLLQQELTEAQKGFQDVEAQAAT   50 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556777777777777776655543

>3iox_A AGI/II, PA; alpha helix, PPII helix, supersandwich fold, surface adhesin WALL, peptidoglycan-anchor, cell adhesion; HET: PMS; 1.80A {Streptococcus mutans} PDB: 3ipk_A* 1jmm_A

Probab=93.07  E-value=2.8  Score=41.23  Aligned_cols=101  Identities=21%  Similarity=0.220  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEI  152 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~L  152 (285)
                      ..-|-+|+.-|.||-+.+......+++-|.-+.+.-.+.+.++||   ++++++.=.+.+++-+.   ......+++...
T Consensus         5 a~yq~~la~yq~elarvqkana~aka~Ye~~~ae~~a~n~~i~ae---NeaikkrNa~aka~Ye~---~l~kY~~dlakY   78 (497)
T 3iox_A            5 ADYQAKLTAYQTELARVQKANADAKAAYEAAVAANNAANAALTAE---NTAIKKRNADAKADYEA---KLAKYQADLAKY   78 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH---HHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            345678999999999999999999999988888887777777777   55555444333333222   122233333344


Q ss_pred             HHHHHHHhhhhccHHHHHHHHHHHHHHHHh
Q 023255          153 NGDLAKARDESKDMAAIKAEIETERQEIHK  182 (285)
Q Consensus       153 ekDL~~~~~d~qkl~aLkaEIe~LrqEl~~  182 (285)
                      .+|+.+++   .++.+-+.++....+++..
T Consensus        79 ~~~~AeY~---~kl~aYe~~~~~~~k~lae  105 (497)
T 3iox_A           79 QKDLADYP---VKLKAYEDEQTSIKAALAE  105 (497)
T ss_dssp             HHHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence            44444333   3455555555555555443

>3hhm_B NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_B 2rd0_B 4a55_B* 3mtt_A

Probab=93.02  E-value=2.9  Score=39.62  Aligned_cols=130  Identities=15%  Similarity=0.232  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhHHHHHHH
Q 023255           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLDAELRVI  121 (285)
Q Consensus        45 n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~~ae---~e~~~r~L~~k~~kleaelr~~  121 (285)
                      ..+-++|...+...+....+.+++...+..++|||+.++.-+.-....+.-.+-.   +|..+.+-+++-.        .
T Consensus       122 e~~~~~l~e~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~a~~af~~~~~~f~~q~~~~e~~~~~~~~~~~--------~  193 (373)
T 3hhm_B          122 EAVGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQMKRTAIEAFNETIKIFEEQCQTQERYSKEYIEKFK--------R  193 (373)
T ss_dssp             CGGGC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--------T
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh--------h
Confidence            3455667777778888888999999999999999998888777666655544332   2222223322221        1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      ++-..|+..+..-.+.|++..+++....+.|+++|....   .....+..++.+|+=++..++.
T Consensus       194 ~~~~~e~~~~~~n~~~l~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~lkp~l~ql~k  254 (373)
T 3hhm_B          194 EGNEKEIQRIMHNYDKLKSRISEIIDSRRRLEEDLKKQA---AEYREIDKRMNSIKPDLIQLRK  254 (373)
T ss_dssp             TTCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcChHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccChHHHHHHH
Confidence            112235555555555666666666666666666665533   2334556666666666655554

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

Probab=92.94  E-value=3  Score=33.56  Aligned_cols=16  Identities=6%  Similarity=0.287  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023255          143 QEMIKDLNEINGDLAK  158 (285)
Q Consensus       143 qeL~aevq~LekDL~~  158 (285)
                      ..|..+++.+..||.+
T Consensus        87 ~~lE~eL~~~r~em~~  102 (131)
T 3tnu_A           87 GSVEEQLAQLRCEMEQ  102 (131)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3344444444444444

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

Probab=92.89  E-value=3  Score=33.43  Aligned_cols=14  Identities=21%  Similarity=0.442  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHH
Q 023255          145 MIKDLNEINGDLAK  158 (285)
Q Consensus       145 L~aevq~LekDL~~  158 (285)
                      |.++++.+..||.+
T Consensus        87 lE~eL~~~r~e~~~  100 (129)
T 3tnu_B           87 LEEALQKAKQDMAR  100 (129)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHH
Confidence            33333333333333

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

Probab=92.81  E-value=1.1  Score=36.13  Aligned_cols=77  Identities=14%  Similarity=0.229  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e  199 (285)
                      ..|.||..++..|+.|....+.+.....+|+..|.+.... ...+..+...|..|..++.++|..++---.-|.+++.
T Consensus        35 ~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~r~em~~ql~EYq~Ll~  112 (131)
T 3tnu_A           35 SGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEEQLAQLRCEMEQQNQEYKILLD  112 (131)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666666666666666667777777766666 5566666667777777777766666544444444443

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=92.79  E-value=0.71  Score=34.84  Aligned_cols=48  Identities=13%  Similarity=0.320  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCV-------IKQEMIKDLNEINGDLAKARD  161 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~-------~rqeL~aevq~LekDL~~~~~  161 (285)
                      |++||++-..+..||-+++.+...+..       ..++|..+++.+.++|.++++
T Consensus        19 LeaEIqAKQ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq~   73 (81)
T 1wt6_A           19 LEEEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQA   73 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            566666666666666666665555444       344444444444444444433

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

Probab=92.39  E-value=0.49  Score=38.22  Aligned_cols=51  Identities=24%  Similarity=0.497  Sum_probs=28.6

Q ss_pred             hHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255           97 KAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus        97 ~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      +.++|.+|..|          -+.++.++.++..+..+.+.   ...+|...|..|+.||..-+
T Consensus        10 ~d~rD~~Ie~L----------kreie~lk~ele~l~~E~q~---~v~ql~~~i~~Le~eL~e~r   60 (120)
T 3i00_A           10 KDEKDHLIERL----------YREISGLKAQLENMKTESQR---VVLQLKGHVSELEADLAEQQ   60 (120)
T ss_dssp             CCTHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence            34555555555          55555566555555443333   34456666666666666644

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=92.16  E-value=1.6  Score=34.80  Aligned_cols=93  Identities=16%  Similarity=0.251  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~e  199 (285)
                      .+.+..++.+++.++.++...+++|...       +.+-..| ..++..|..-+..--+.|..++.+|.--|.   +--+
T Consensus         8 ~~~lq~~~~ql~~qL~k~~~~r~~Le~~-------w~~k~E~~k~qV~~L~~~~q~sE~~L~~Lqq~fsq~q~---~vq~   77 (112)
T 1x79_B            8 VKKLQLMLRQANDQLEKTMKDKQELEDF-------IKQSSEDSSHQISALVLRAQASEILLEELQQGLSQAKR---DVQE   77 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH
Confidence            4566677777777777777777777766       5555556 788888888888888888888888876554   3455


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHH
Q 023255          200 QREIMEKNIISVAQQIERLQAELA  223 (285)
Q Consensus       200 q~q~meknli~ma~e~ekLrael~  223 (285)
                      |++..-..-=.+..|+.+|.+|=.
T Consensus        78 qL~~Lt~~Re~V~~eL~rLQ~eNd  101 (112)
T 1x79_B           78 QMAVLMQSREQVSEELVRLQKDND  101 (112)
T ss_dssp             HHHHHHHHHHHHHTC---------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcc
Confidence            666666666667777777777643

>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=92.07  E-value=2.2  Score=33.05  Aligned_cols=84  Identities=17%  Similarity=0.253  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           74 ALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (285)
Q Consensus        74 ~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~Le  153 (285)
                      .|...|..+..-|...+..|..           |-+.+.++++++..+.-+++.+.--+.|...-.+.|..+..+.+.|.
T Consensus         6 ~L~~~L~~aEeaL~~kq~~id~-----------lke~~~q~~~~~E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~   74 (94)
T 3jsv_C            6 DLRQQLQQAEEALVAKQELIDK-----------LKEEAEQHKIVMETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQ   74 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            3455555555555554444443           33344566667778888888888888888888888888888888877


Q ss_pred             HHHHHHhhhhccHHH
Q 023255          154 GDLAKARDESKDMAA  168 (285)
Q Consensus       154 kDL~~~~~d~qkl~a  168 (285)
                      .++..++...++|..
T Consensus        75 ~ql~~lq~q~~~L~~   89 (94)
T 3jsv_C           75 EQLEQLQREFNKLKV   89 (94)
T ss_dssp             HHHHHHHHTTC----
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777777666555543

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

Probab=91.76  E-value=1.2  Score=37.03  Aligned_cols=63  Identities=16%  Similarity=0.197  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       122 e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ..++.++...++....+....+.+.+++..++.++..+..+.+-..+.+   .+|+.+|.-.|.+-
T Consensus        69 ~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeEekQIseASR---qgLrRDLeASReAK  131 (146)
T 2xnx_M           69 EAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEEEKQISDASR---QSLRRDLDASREAK  131 (146)
T ss_dssp             TTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTC---------------------
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHH---HHHHHHHHHHHHHH
Confidence            3334444444444444444444445555555555555443333322222   45555555555543

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

Probab=91.69  E-value=1.5  Score=33.04  Aligned_cols=56  Identities=13%  Similarity=0.245  Sum_probs=40.5

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023255          103 EVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD  161 (285)
Q Consensus       103 ~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~  161 (285)
                      .|...+|.+..|..+   ++++|.+-..|..+.+.+...+..|..+.+++..|...|+.
T Consensus        14 KIq~avdtI~lLqmE---ieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~   69 (81)
T 2jee_A           14 KVQQAIDTITLLQME---IEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQE   69 (81)
T ss_dssp             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            344466666666666   67777777777788888888888888888888888777664

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

Probab=91.49  E-value=3.9  Score=31.62  Aligned_cols=28  Identities=11%  Similarity=0.245  Sum_probs=15.4

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          165 DMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                      |+..+..+++.+...+..+...++...|
T Consensus        52 k~~~lE~eld~~ee~L~ea~~kLee~ek   79 (101)
T 3u1c_A           52 QLRVTEDSRDQVLEELHKSEDSLLFAEE   79 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444556666666666655555554444

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

Probab=91.33  E-value=0.9  Score=35.22  Aligned_cols=43  Identities=5%  Similarity=0.250  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       120 ~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      .++.++.++.+++.++.+|...+.++..++..+.+.+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l~~~   46 (112)
T 1l8d_A            4 LLEELETKKTTIEEERNEITQRIGELKNKIGDLKTAIEELKKA   46 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            3566677888888999999999999999999999999998764

>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=90.41  E-value=1.3  Score=34.35  Aligned_cols=51  Identities=12%  Similarity=0.285  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHH
Q 023255          171 AEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE  221 (285)
Q Consensus       171 aEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrae  221 (285)
                      ..|.-|++++.--+.+|.-|+..+-.+-+..+.+...+-.+-+++.+|.+|
T Consensus        40 E~i~vLk~Qv~IY~~DF~aERadREkl~~eKe~L~~ql~~lq~q~~~L~~~   90 (94)
T 3jsv_C           40 ETVPVLKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQREFNKLKVG   90 (94)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHTTC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            444455555555555666666665555555555555555555666665543

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=90.37  E-value=8.8  Score=37.52  Aligned_cols=68  Identities=15%  Similarity=0.214  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      +..++..+.+.+..+..+....+++..+++.+.+-+++.-..  .+.|..|+..++.++..|+++...+.
T Consensus       123 i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~~~~i~~L~~~~~~l~~ki~~l~~~~~  192 (464)
T 1m1j_B          123 VNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNIPSSLRVLRAVIDSLHKKIQKLENAIA  192 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556666666666666666666666666666666666554332  56777788888888877777766653

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

Probab=90.06  E-value=3.6  Score=33.07  Aligned_cols=38  Identities=13%  Similarity=0.309  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      +..|+..|.+|++++..-...+++...+...|..++..
T Consensus        42 v~ql~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~   79 (120)
T 3i00_A           42 VLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDE   79 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444443

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=89.95  E-value=7.3  Score=32.10  Aligned_cols=101  Identities=19%  Similarity=0.278  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           71 THVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (285)
Q Consensus        71 ~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq  150 (285)
                      ....|+-|+..++..+......+..+...+-.|.-++ -|...||||++.-+.|-..|      .+.....|++|..+--
T Consensus        61 Ei~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDi-RKLrELEADLKEKDsMVe~L------T~TiG~LrKELEdEkl  133 (167)
T 4gkw_A           61 EIGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDM-RKLGELEADLKEKDSMVESL------TETIGILRKELENEKL  133 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTHHHHHTHHHHHHHHHHH------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhH-HHHHHHHhHHhhhhHHHHHH------HHHHHHHHHHHHHHHH
Confidence            3445566666666666666666666666665555444 34455566655444442111      1122223333333333


Q ss_pred             HHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023255          151 EINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (285)
Q Consensus       151 ~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra  185 (285)
                      .+..-|..|       ..|+-|-+.+++.|..-|+
T Consensus       134 K~~E~MdSF-------E~LkvENE~vkerl~mYR~  161 (167)
T 4gkw_A          134 KAAENMDSF-------EKLSMENENLKEKIAHYRA  161 (167)
T ss_dssp             HHHHHHHHH-------HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHH-------HHHhhhhHhHHHHHHHHHH
Confidence            333223222       3456666666666665553

>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=89.89  E-value=1.7  Score=34.06  Aligned_cols=61  Identities=13%  Similarity=0.263  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhh----hccH------------HHHHHHHHHHHHHHHhhhhhh
Q 023255          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAK--ARDE----SKDM------------AAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       127 El~qlr~eiq~l~~~rqeL~aevq~LekDL~~--~~~d----~qkl------------~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      ++..++.+|..|...+..|..++..|+-.|..  .+.|    .-|+            ...+.+++.|+.|+.++|..+
T Consensus        13 ~~~~lr~ei~~Le~E~~rLr~~~~~LE~~Le~~~l~Gd~~~~~TKVlH~~~NPa~~a~~~~~~~~e~Lq~E~erLr~~v   91 (100)
T 1go4_E           13 EADTLRLKVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSVARQRLREDHSQLQAECERLRGLL   91 (100)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCCSCCCTTTEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCccCeeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555555555555555555555555555  1222    2222            245566666666666666543

>2efk_A CDC42-interacting protein 4; EFC domain, structural genomics, NPPSFA, national project on structural and functional analyses; 2.30A {Homo sapiens} SCOP: a.238.1.4

Probab=89.40  E-value=11  Score=33.26  Aligned_cols=19  Identities=5%  Similarity=0.004  Sum_probs=11.6

Q ss_pred             hhhhHHHHHHHHhHHHHHH
Q 023255          195 ASNHEQREIMEKNIISVAQ  213 (285)
Q Consensus       195 ~e~~eq~q~meknli~ma~  213 (285)
                      ...++++|.||...+..-+
T Consensus       208 p~~~~~lQ~lee~r~~~lk  226 (301)
T 2efk_A          208 PQIFDKLQDMDERRATRLG  226 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4456777777766554443

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=88.79  E-value=2.1  Score=35.47  Aligned_cols=67  Identities=15%  Similarity=0.257  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023255          130 RVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (285)
Q Consensus       130 qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d--~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e  196 (285)
                      .|..+.+.|.....+|+.-|..|.+|+..-...  -.++..+..+|+.++.+|..+...|.-||-.--.
T Consensus        18 kL~~~sd~LvtkVDDLQD~VE~LRkDV~~RgvrP~~~ql~~v~kdi~~a~~eL~~m~~~i~~ekP~WKK   86 (141)
T 3okq_A           18 ELGDLSDTLLSKVDDLQDVIEIMRKDVAERRSQPAKKKLETVSKDLENAQADVLKLQEFIDTEKPHWKK   86 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHH
Confidence            456777888888999999999999999887766  8889999999999999999999999999865443

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

Probab=88.79  E-value=5.1  Score=33.57  Aligned_cols=77  Identities=12%  Similarity=0.110  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHH
Q 023255          136 EKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQI  215 (285)
Q Consensus       136 q~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~  215 (285)
                      ..|...+..+..+|..++.+|..   ..+-+..++.|+..|+-++..+.....--++-|.++++..      |-.|++|.
T Consensus        71 ~~L~~El~~l~~ki~dLeeel~e---K~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RW------M~rk~qEA  141 (152)
T 3a7p_A           71 AILQKELKSKEQEIRRLKEVIAL---KNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARW------LKKTEKET  141 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH
Confidence            33333333444444444444433   2333455777888888888887777777777777776653      44577788


Q ss_pred             HHHHHH
Q 023255          216 ERLQAE  221 (285)
Q Consensus       216 ekLrae  221 (285)
                      ++|-.+
T Consensus       142 e~MN~a  147 (152)
T 3a7p_A          142 EAMNSE  147 (152)
T ss_dssp             HHC---
T ss_pred             HHHHHh
Confidence            777544

>2w6b_A RHO guanine nucleotide exchange factor 7; X-RAY crystallography, phosphoprotein, guanine-nucleotide releasing factor, GIT, PAK, PIX, COOL; 2.80A {Rattus norvegicus}

Probab=88.77  E-value=0.91  Score=31.77  Aligned_cols=39  Identities=23%  Similarity=0.297  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHH
Q 023255          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~m  204 (285)
                      +=+|+.++..|++|..++..++|.|.+++-++=.=+.-|
T Consensus        12 VYaLkDqV~eL~qe~k~m~k~lEeEqkARk~LE~~vrk~   50 (56)
T 2w6b_A           12 VYALKDEVQELRQDNKKMKKSLEEEQRARKDLEKLVRKV   50 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            457999999999999999999999999986654433333

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=88.76  E-value=2.4  Score=36.18  Aligned_cols=27  Identities=19%  Similarity=0.337  Sum_probs=20.6

Q ss_pred             hhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023255          161 DESKDMAAIKAEIETERQEIHKGRAAI  187 (285)
Q Consensus       161 ~d~qkl~aLkaEIe~LrqEl~~~ra~~  187 (285)
                      -|..++.+|-+||..|+.++...|..+
T Consensus       110 ~DeakI~aL~~Ei~~Lr~qL~~~R~k~  136 (175)
T 3lay_A          110 PDTAKINAVAKEMESLGQKLDEQRVKR  136 (175)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            357889999999999988877655443

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

Probab=88.72  E-value=3.5  Score=31.57  Aligned_cols=34  Identities=15%  Similarity=0.334  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~  158 (285)
                      ..+|..++..|..+...+..|..++..+..|+.+
T Consensus        55 e~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~~   88 (93)
T 3s4r_A           55 EEEMRELRRQVDQLTNDKARVEVERDNLAEDIMR   88 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444333

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

Probab=88.34  E-value=4.1  Score=30.67  Aligned_cols=66  Identities=14%  Similarity=0.139  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023255          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (285)
Q Consensus       167 ~aLkaEIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r~~a~  232 (285)
                      ..|.+.|+.+=..|.-++--|+..|-.|..+..+.+....+-....+|.++|+.|..+-..|=++-
T Consensus         9 eqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A            9 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555666666666667777766777778888999999988888777654

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=88.30  E-value=4.1  Score=30.13  Aligned_cols=29  Identities=14%  Similarity=0.337  Sum_probs=15.3

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          164 KDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                      .|+..|..+++.....+..+-.-++...|
T Consensus        48 kKiq~lE~eld~~ee~l~~a~~kLeeaek   76 (81)
T 1ic2_A           48 KKLKGTEDELDKYSESLKDAQEKLELADK   76 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555554443

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

Probab=88.16  E-value=2.3  Score=32.00  Aligned_cols=54  Identities=15%  Similarity=0.268  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023255          135 IEKLCVIKQEMIKDLNEINGDLAK---ARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (285)
Q Consensus       135 iq~l~~~rqeL~aevq~LekDL~~---~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e  188 (285)
                      +..|-.....|.+++..|+..|.+   |..|..++..+.++++.+.++|..+-..-+
T Consensus        24 le~le~~Ie~LE~~i~~le~~ladp~~y~~d~~~~~~l~~~l~~~e~eLe~~~erWe   80 (89)
T 2lw1_A           24 LEQLPQLLEDLEAKLEALQTQVADASFFSQPHEQTQKVLADMAAAEQELEQAFERWE   80 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445566667777777776   345788899999999999999988766554

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=88.06  E-value=6.7  Score=29.23  Aligned_cols=24  Identities=8%  Similarity=0.350  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          124 MHAELDRVRADIEKLCVIKQEMIK  147 (285)
Q Consensus       124 lk~El~qlr~eiq~l~~~rqeL~a  147 (285)
                      ++.+|.+++.++......-++|..
T Consensus        38 lE~eL~~~r~e~~~q~~EYq~Lln   61 (84)
T 1gk4_A           38 LQDEIQNMKEEMARHLREYQDLLN   61 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444443333333333

>1ez3_A Syntaxin-1A; three helix bundle, endocytosis/exocytosis complex; 1.90A {Rattus norvegicus} SCOP: a.47.2.1 PDB: 1br0_A 3lg7_A*

Probab=88.02  E-value=8  Score=30.08  Aligned_cols=65  Identities=11%  Similarity=0.299  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHh
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIK---DLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHK  182 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~a---evq~LekDL~~~~~d-~qkl~aLkaEIe~LrqEl~~  182 (285)
                      +..++.++.+|..++..+.++.........   ....+.++|...-.+ ......++..|+.|.++..+
T Consensus        11 ~~~v~~I~~~i~~i~~~v~~l~~~~~~~L~~~~~~~~~~~~l~~l~~~i~~~a~~ik~~Lk~l~~~~~~   79 (127)
T 1ez3_A           11 FEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQ   79 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666666666666666666555544322   113455555555555 44455666666666665543

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

Probab=87.97  E-value=7.9  Score=31.67  Aligned_cols=18  Identities=22%  Similarity=0.163  Sum_probs=9.5

Q ss_pred             hHHHHHHHHHHHHHHHHH
Q 023255           65 NQRLAATHVALKQELSLA   82 (285)
Q Consensus        65 nqrla~~h~~LqqEL~la   82 (285)
                      +..+.....++=--|+++
T Consensus        50 ~~~l~~~r~aVLaALNia   67 (138)
T 3hnw_A           50 YRRMSAELRTDMMYLNIA   67 (138)
T ss_dssp             HHTSCHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHH
Confidence            455555555555555554

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=87.88  E-value=10  Score=36.43  Aligned_cols=43  Identities=9%  Similarity=0.076  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL   89 (285)
Q Consensus        47 Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l   89 (285)
                      |.+-|..++..+..-|.+.+.+..+...+..+.....+.|+..
T Consensus        25 i~d~L~k~e~~V~~~l~~LE~~l~elsn~ts~v~~Lvk~iq~~   67 (409)
T 1m1j_C           25 IADFFNKYRLTTDGELLEIEGLLQQATNSTGSIEYLIQHIKTI   67 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555555555555555555544444444444444444444443

>2pih_A Protein YMCA; regulate community development, structural genomics, PSI-2, protein structure initiative; 2.10A {Bacillus subtilis} SCOP: a.281.1.1

Probab=87.66  E-value=4.9  Score=33.16  Aligned_cols=104  Identities=11%  Similarity=0.192  Sum_probs=75.3

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc--HHHHHHHHHHHHHHHH
Q 023255          104 VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD--MAAIKAEIETERQEIH  181 (285)
Q Consensus       104 ~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qk--l~aLkaEIe~LrqEl~  181 (285)
                      +..++|++-.|...|+..++++ ++.++...+.. ...-+.|-.+.+.+.+++..++.-++.  ..+...+++.+..++.
T Consensus         6 ~~~I~d~A~eL~~aI~eseeyk-~yk~A~~~i~~-D~eaq~li~eF~~~Q~~~~~~q~~Gk~~~~~e~~~el~~l~~~l~   83 (151)
T 2pih_A            6 KKDIVQQARNLAKMISETEEVD-FFKRAEAQINE-NDKVSTIVNQIKALQKQAVNLKHYEKHEALKQVEAKIDALQEELE   83 (151)
T ss_dssp             HHHHHHHHHHHHHHHTTBHHHH-HHHHHHHHHHH-CHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCHHHH-HHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHHHHcCCccchHHHHHHHHHHHHHHH
Confidence            3458899999999999999886 78788777765 445567777788888888888876654  5788888888888887


Q ss_pred             hhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHH
Q 023255          182 KGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE  221 (285)
Q Consensus       182 ~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrae  221 (285)
                      .--...+|            ..-|..|-.|-.+|-+.=++
T Consensus        84 ~np~V~~y------------~~Ae~~l~~LL~~I~~iI~~  111 (151)
T 2pih_A           84 EIPVIQEF------------RDSQMEVNDLLQLVAHTISN  111 (151)
T ss_dssp             HSHHHHHH------------HHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHH------------HHHHHHHHHHHHHHHHHHHH
Confidence            76555544            33455666666666655444

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.52  E-value=16  Score=34.65  Aligned_cols=31  Identities=6%  Similarity=-0.041  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhhhhhhhhhhhhchhhhHHHH
Q 023255          172 EIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (285)
Q Consensus       172 EIe~LrqEl~~~ra~~e~ekk~~~e~~eq~q  202 (285)
                      |-+.++.++...-.+++.=+-.+.+.+.+.+
T Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (487)
T 3oja_A          450 ENARLKKLNGEADLALASANATLQELVVREQ  480 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhhhhhhhHhcccHHHHHHHHHH
Confidence            4444444444444444444444444444433

>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=87.35  E-value=6.3  Score=29.72  Aligned_cols=48  Identities=15%  Similarity=0.214  Sum_probs=35.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255          112 LKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (285)
Q Consensus       112 ~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d  162 (285)
                      .+.|.+   +..+..++..++..+.+....+++|..+...+.++-+++...
T Consensus        10 ~~~eeE---m~~~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~q   57 (89)
T 3bas_A           10 ARQEEE---MKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGS   57 (89)
T ss_dssp             CHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555   445677888888888888888888888888888887776644

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=87.34  E-value=8.4  Score=29.57  Aligned_cols=26  Identities=4%  Similarity=0.178  Sum_probs=12.8

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023255          165 DMAAIKAEIETERQEIHKGRAAIECE  190 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~e~e  190 (285)
                      ++-.+..+++++...+......++--
T Consensus        68 ql~e~~dE~~Sl~~q~~~~~~qLdkL   93 (96)
T 3q8t_A           68 QQLELDDELKSVENQMRYAQMQLDKL   93 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34445555555555555554444433

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=86.75  E-value=10  Score=30.09  Aligned_cols=45  Identities=7%  Similarity=0.101  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH
Q 023255           73 VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE  117 (285)
Q Consensus        73 ~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleae  117 (285)
                      +.|+.+|.....+-..|.........+.-.+|-+|.+++..-|..
T Consensus        16 ~ql~~qL~k~~~~r~~Le~~w~~k~E~~k~qV~~L~~~~q~sE~~   60 (112)
T 1x79_B           16 RQANDQLEKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEIL   60 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444444443333333

>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A

Probab=86.65  E-value=23  Score=34.61  Aligned_cols=27  Identities=15%  Similarity=0.283  Sum_probs=23.0

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023255          163 SKDMAAIKAEIETERQEIHKGRAAIEC  189 (285)
Q Consensus       163 ~qkl~aLkaEIe~LrqEl~~~ra~~e~  189 (285)
                      .+.|..|+.-|+.++.+|+|++.+|.-
T Consensus       131 i~~IrvLq~~l~~q~skIQRLE~dI~~  157 (491)
T 1m1j_A          131 VNRIKALQNSIQEQVVEMKRLEVDIDI  157 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688889999999999999999888763

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=86.53  E-value=4.9  Score=30.22  Aligned_cols=20  Identities=5%  Similarity=0.064  Sum_probs=10.0

Q ss_pred             ccHHHHHHHHHHHHHHHHhh
Q 023255          164 KDMAAIKAEIETERQEIHKG  183 (285)
Q Consensus       164 qkl~aLkaEIe~LrqEl~~~  183 (285)
                      ++-.+|..||+.++.++..+
T Consensus        52 ~rn~eL~~e~~~l~~~~eel   71 (81)
T 1wt6_A           52 ARNRDLEAHVRQLQERMELL   71 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555443

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=86.45  E-value=11  Score=31.56  Aligned_cols=12  Identities=25%  Similarity=0.429  Sum_probs=6.4

Q ss_pred             HHHHHHHHHhHH
Q 023255          215 IERLQAELANAE  226 (285)
Q Consensus       215 ~ekLrael~n~e  226 (285)
                      +++|+..+..++
T Consensus       117 ~~~L~~ql~e~~  128 (154)
T 2ocy_A          117 NKRLTEQLREKD  128 (154)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            455555555444

>4ad8_A DNA repair protein RECN; DNA binding protein, ATPase domain; HET: DNA; 4.00A {Deinococcus radiodurans}

Probab=86.31  E-value=22  Score=34.21  Aligned_cols=17  Identities=6%  Similarity=0.024  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHHHh
Q 023255          166 MAAIKAEIETERQEIHK  182 (285)
Q Consensus       166 l~aLkaEIe~LrqEl~~  182 (285)
                      +..+....+.++.++..
T Consensus       287 ~~~l~~~~~~~~~~l~~  303 (517)
T 4ad8_A          287 LEDVVEFGAQAAEELAG  303 (517)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444444444444444

>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative splicing, coiled coil, cytoplasmic vesicle, endocytosis, phosphoprotein, polymorphism; 2.78A {Homo sapiens}

Probab=86.17  E-value=25  Score=33.84  Aligned_cols=48  Identities=17%  Similarity=0.257  Sum_probs=27.5

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhh------------hhhhhhchhhhHHHHHHHHhHHHHHH
Q 023255          165 DMAAIKAEIETERQEIHKGRAAI------------ECEKKNRASNHEQREIMEKNIISVAQ  213 (285)
Q Consensus       165 kl~aLkaEIe~LrqEl~~~ra~~------------e~ekk~~~e~~eq~q~meknli~ma~  213 (285)
                      ++..++..++..++++..++..|            +|+ ..-...++++|.||..-|..-+
T Consensus       186 ~~eK~~~k~~k~~~~~~~a~~~Y~~~v~~~n~~~~~y~-~~~~~~~~~lQ~lEeeRi~~lK  245 (486)
T 3haj_A          186 QLKKLQDKIEKCKQDVLKTKEKYEKSLKELDQGTPQYM-ENMEQVFEQCQQFEEKRLRFFR  245 (486)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHH-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555554443            222 3445567778888877666655

>1t3j_A Mitofusin 1; coiled coil antiparallel, dimer, membrane protein; 2.50A {Mus musculus} SCOP: h.4.16.1

Probab=85.73  E-value=2.6  Score=32.76  Aligned_cols=62  Identities=5%  Similarity=0.140  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhh
Q 023255          125 HAELDRVRADIEKLCVI-KQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA  186 (285)
Q Consensus       125 k~El~qlr~eiq~l~~~-rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~  186 (285)
                      .+||....+.+...... .++|..+|..|++++..+..-.++.+-|+.+-.-|..||......
T Consensus        31 QqELs~tfarLc~~Vd~t~~eL~~EI~~L~~eI~~LE~iqs~aK~LRnKA~~L~~eLe~F~~~   93 (96)
T 1t3j_A           31 QQEMATTFARLCQQVDMTQKHLEEEIARLSKEIDQLEKMQNNSKLLRNKAVQLESELENFSKQ   93 (96)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            33444444433333322 455566666666666665555555556666555555555554443

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=85.55  E-value=16  Score=31.05  Aligned_cols=53  Identities=11%  Similarity=0.201  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023255           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASV   96 (285)
Q Consensus        44 ~n~Lee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l~~~i~~~   96 (285)
                      ...+-.+|...|.+.+....+-+++...+..+.+|++....-+.-....+.=.
T Consensus        12 ve~v~~~L~e~h~qy~~ks~~yd~l~e~y~r~sqEiq~Kr~AieAF~E~ik~F   64 (170)
T 3l4q_C           12 VEAVGAQLKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIKIF   64 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            34667888889999999999999999999999999999988777776666533

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=85.39  E-value=14  Score=30.36  Aligned_cols=131  Identities=18%  Similarity=0.223  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (285)
Q Consensus        70 ~~h~~LqqEL~laqhEL~~l~~~i~~~~ae~e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aev  149 (285)
                      .....|+++|.-.+.||...-..+..-+              -|.+---+++..-.+||..+|++...++..-+.....+
T Consensus        18 ~D~~s~~~eleEnqeEL~iVgkML~EEq--------------gKVDQlqKRn~~HQKEi~~Lrae~~~~QRn~~K~~~~L   83 (167)
T 4gkw_A           18 QDTESLQKQLEENQEELEIVGNMLREEQ--------------GKVDQLQKRNVAHQKEIGKLRAELGTAQRNLEKADQLL   83 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------hhHHHHHHhccHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            3444555666666666665543333111              11111145566667788888888777666655555554


Q ss_pred             HHHHHHHHHHhhhhccHHHHHHHH-------HHHHHHHHhhhhhhhhhhhhchhhhHHHHHHHHhHHHHHHHHHHHHHHH
Q 023255          150 NEINGDLAKARDESKDMAAIKAEI-------ETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (285)
Q Consensus       150 q~LekDL~~~~~d~qkl~aLkaEI-------e~LrqEl~~~ra~~e~ekk~~~e~~eq~q~meknli~ma~e~ekLrael  222 (285)
                      ++-...-+.-.-|.-||.+|.+.+       ++|.+-|--+|..+|.||-.-.|.+.          |    .|||.-|-
T Consensus        84 krn~~qQnQQSlDiRKLrELEADLKEKDsMVe~LT~TiG~LrKELEdEklK~~E~Md----------S----FE~LkvEN  149 (167)
T 4gkw_A           84 KRNSQQQNQQSLDMRKLGELEADLKEKDSMVESLTETIGILRKELENEKLKAAENMD----------S----FEKLSMEN  149 (167)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------H----HHHHHHHH
T ss_pred             HhhhHHHhHhhhhHHHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------H----HHHHhhhh
Confidence            444433333334455666666665       56667777777777777755444332          2    35666665


Q ss_pred             HhHHhh
Q 023255          223 ANAEKR  228 (285)
Q Consensus       223 ~n~e~r  228 (285)
                      .+...|
T Consensus       150 E~vker  155 (167)
T 4gkw_A          150 ENLKEK  155 (167)
T ss_dssp             HHHHHH
T ss_pred             HhHHHH
Confidence            555544

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=84.42  E-value=7.1  Score=29.27  Aligned_cols=8  Identities=25%  Similarity=0.576  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 023255          128 LDRVRADI  135 (285)
Q Consensus       128 l~qlr~ei  135 (285)
                      +.+++.++
T Consensus        44 l~~~r~e~   51 (86)
T 1x8y_A           44 MAEMRARM   51 (86)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

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

Probab=83.92  E-value=19  Score=30.56  Aligned_cols=43  Identities=16%  Similarity=0.098  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          101 DAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMI  146 (285)
Q Consensus       101 e~~~r~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~  146 (285)
                      |...|+|-++...+++.   ...+.+++..+++.+..-...+...+
T Consensus        47 E~~~rELq~~~~~L~~~---k~~Leke~~~LQa~L~qEr~~r~q~s   89 (168)
T 3o0z_A           47 ESLNRELQERNRILENS---KSQTDKDYYQLQAILEAERRDRGHDS   89 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444   45555555555555554444443333

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

Probab=83.53  E-value=14  Score=28.69  Aligned_cols=38  Identities=18%  Similarity=0.351  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023255          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (285)
Q Consensus       123 ~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~  160 (285)
                      .+..|+..+..++.+-...|.+...+...|+++|.++.
T Consensus        23 ~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLT   60 (97)
T 2eqb_B           23 DRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35556666777777777777777777777777776654

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=83.31  E-value=23  Score=33.60  Aligned_cols=12  Identities=8%  Similarity=0.072  Sum_probs=4.3

Q ss_pred             HHHHHHHHhhhh
Q 023255          174 ETERQEIHKGRA  185 (285)
Q Consensus       174 e~LrqEl~~~ra  185 (285)
                      +.+...+..+++
T Consensus       459 ~~~~~~~~~~~~  470 (487)
T 3oja_A          459 GEADLALASANA  470 (487)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             hhhhhhhHhccc
Confidence            333333333333

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=83.23  E-value=13  Score=35.64  Aligned_cols=99  Identities=16%  Similarity=0.184  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023255          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (285)
Q Consensus       114 leaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk~  193 (285)
                      +..+++.+|.+-.+|.++..++..|....+..-.+-+         .....-....-...++|..++.+.++.+-     
T Consensus        36 V~~~l~~LE~~l~elsn~ts~v~~Lvk~iq~~~~~~Q---------~~~~d~~e~~tq~skkml~~~~~~e~~~~-----  101 (409)
T 1m1j_C           36 TDGELLEIEGLLQQATNSTGSIEYLIQHIKTIYPSEK---------QTLPQSIEQLTQKSKKIIEEIIRYENTIL-----  101 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSST---------TCCSSCHHHHHHHHHHHHHHHHHTHHHHH-----
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc---------CCCCCchhhHHHHHHHHHHHHHHHHHHhc-----
Confidence            3444566666666666666666665555555422100         00001112223344455555555543221     


Q ss_pred             chhhhHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023255          194 RASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e~ekLrael~n~e~r  228 (285)
                        ..-.+++.|+.-|-+....|+.|+..|..-+.+
T Consensus       102 --~~~~~i~~l~~~~~~~~~~i~~l~~~i~~l~~~  134 (409)
T 1m1j_C          102 --AHENTIQQLTDMHIMNSNKITQLKQKIAQLESH  134 (409)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             --chHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence              122455666666666677777777777665543

>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=82.14  E-value=7.1  Score=28.76  Aligned_cols=32  Identities=19%  Similarity=0.154  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          128 LDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus       128 l~qlr~eiq~l~~~rqeL~aevq~LekDL~~~  159 (285)
                      |.+...-|..+....++...+|+.|..++.+|
T Consensus        35 Lr~kd~~I~eLEk~L~ekd~eI~~LqseLDKf   66 (72)
T 3nmd_A           35 LRQRDALIDELELELDQKDELIQMLQNELDKY   66 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33333344444444444444444444444444

>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein metal transport, hydrolase; HET: NAG; 2.91A {Streptococcus pneumoniae} SCOP: h.4.19.1

Probab=81.61  E-value=11  Score=30.55  Aligned_cols=69  Identities=19%  Similarity=0.309  Sum_probs=38.6

Q ss_pred             HHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh-hchhhhHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023255          155 DLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK-NRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (285)
Q Consensus       155 DL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk-~~~e~~eq~q~meknli~ma~e~ekLrael~n  224 (285)
                      ||..-++...+|.+|...|+.|..++..+...+..-.. .+++- --..+.++.+..--.|.+|.+++|-.
T Consensus        52 ele~k~aeLe~leeL~~ki~eL~~kvA~le~e~~~~e~~~~~~~-~~~e~le~~la~KkAEleKtqa~Ld~  121 (125)
T 2pms_C           52 KLDAKKAKLSKLEELSDKIDELDAEIAKLEDQLKAAEENNNVED-YFKEGLEKTIAAKKAELEKTEADLKK  121 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----CH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhcccchH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333444555666666666666655555553222 22333 33667788887777788888888743

>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=80.88  E-value=7.5  Score=26.69  Aligned_cols=42  Identities=26%  Similarity=0.286  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255           48 EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL   89 (285)
Q Consensus        48 ee~L~~q~~EIq~lL~dnqrla~~h~~LqqEL~laqhEL~~l   89 (285)
                      ++++.....++..+-..|.+|+.....-+++|...+.+|..|
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            778888888889999999999999999999998888888765

---

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	285
d1f5na1	300	Interferon-induced guanylate-binding protein 1 (GB	89.86
d2efla1	288	Formin-binding protein 1, FNBP1 {Human (Homo sapie	89.26
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	89.01
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	86.49
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	85.57
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	84.75
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	84.07
d2piha1	123	Uncharacterized protein YmcA {Bacillus subtilis [T	80.79
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	80.14

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.86  E-value=4.3  Score=33.18  Aligned_cols=13  Identities=23%  Similarity=0.342  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHH
Q 023255          209 ISVAQQIERLQAE  221 (285)
Q Consensus       209 i~ma~e~ekLrae  221 (285)
                      -.|-+|+++|+.+
T Consensus       287 ~~l~~ei~~Lk~~  299 (300)
T d1f5na1         287 RIMKNEIQDLQTK  299 (300)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            3344455555443

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.26  E-value=4.6  Score=32.65  Aligned_cols=21  Identities=14%  Similarity=0.061  Sum_probs=14.3

Q ss_pred             chhhhHHHHHHHHhHHHHHHH
Q 023255          194 RASNHEQREIMEKNIISVAQQ  214 (285)
Q Consensus       194 ~~e~~eq~q~meknli~ma~e  214 (285)
                      -...++++|.||...+...++
T Consensus       209 ~~~~~~~~q~~e~~r~~~~k~  229 (288)
T d2efla1         209 IPNIFQKIQEMEERRIVRMGE  229 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            356677788888777666553

>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=89.01  E-value=2.6  Score=30.72  Aligned_cols=30  Identities=17%  Similarity=0.158  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023255           66 QRLAATHVALKQELSLAEQELRHLSSVAAS   95 (285)
Q Consensus        66 qrla~~h~~LqqEL~laqhEL~~l~~~i~~   95 (285)
                      -.+-..+..++.+++..+++-..+...++.
T Consensus        31 ~~ld~~rr~l~~~~e~l~~~rN~~sk~i~k   60 (110)
T d1seta1          31 LALDREVQELKKRLQEVQTERNQVAKRVPK   60 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666777666666666666653

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=86.49  E-value=2.6  Score=30.72  Aligned_cols=34  Identities=21%  Similarity=0.340  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (285)
Q Consensus       126 ~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~  159 (285)
                      .++.+++.+++.+...++.|..++...+.=+.++
T Consensus         8 ~~~q~lq~el~~~~~q~~~le~q~~E~~~vl~eL   41 (107)
T d1fxka_           8 AQFQQLQQQAQAISVQKQTVEMQINETQKALEEL   41 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555555555555444444444333

>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=85.57  E-value=0.76  Score=33.86  Aligned_cols=33  Identities=9%  Similarity=0.313  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (285)
Q Consensus       118 lr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq  150 (285)
                      +..+-.+..+...+..+++.|.+.+..++.+|.
T Consensus        27 ld~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i~   59 (110)
T d1seta1          27 LEALLALDREVQELKKRLQEVQTERNQVAKRVP   59 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666777777777777766664

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=84.75  E-value=3.7  Score=29.86  Aligned_cols=24  Identities=4%  Similarity=0.166  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 023255          121 IESMHAELDRVRADIEKLCVIKQE  144 (285)
Q Consensus       121 ~e~lk~El~qlr~eiq~l~~~rqe  144 (285)
                      ...+..++..+...++.+....+|
T Consensus        10 ~q~lq~el~~~~~q~~~le~q~~E   33 (107)
T d1fxka_          10 FQQLQQQAQAISVQKQTVEMQINE   33 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444443333

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=84.07  E-value=5.5  Score=35.44  Aligned_cols=52  Identities=8%  Similarity=0.271  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023255          141 IKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (285)
Q Consensus       141 ~rqeL~aevq~LekDL~~~~~d~qkl~aLkaEIe~LrqEl~~~ra~~e~ekk  192 (285)
                      ....+..+...++...........++..|+.+|+.++.++..+....++++-
T Consensus       290 el~~lee~~~~L~~~w~~ek~~l~~i~~Lk~~Le~lr~~le~A~r~gd~e~A  341 (387)
T d1qvra2         290 EIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRA  341 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHH
Confidence            3333334444444444443333556677777777777777777666666664

>d2piha1 a.281.1.1 (A:2-124) Uncharacterized protein YmcA {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: YheA-like
superfamily: YheA/YmcA-like
family: YmcA-like
domain: Uncharacterized protein YmcA
species: Bacillus subtilis [TaxId: 1423]

Probab=80.79  E-value=7  Score=28.83  Aligned_cols=83  Identities=12%  Similarity=0.232  Sum_probs=60.1

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc--HHHHHHHHHHHHHHHHhh
Q 023255          106 ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD--MAAIKAEIETERQEIHKG  183 (285)
Q Consensus       106 ~L~~k~~kleaelr~~e~lk~El~qlr~eiq~l~~~rqeL~aevq~LekDL~~~~~d~qk--l~aLkaEIe~LrqEl~~~  183 (285)
                      ++++++..|...|+..++++ ++..+...+.. ...-+.|-.+.+.+..++..++..++.  ..+...+++.++.++..-
T Consensus         7 ~I~d~A~eL~~~I~~s~ey~-~~~~a~~~v~~-d~ea~~li~~f~~~q~~~q~~q~~g~~~~~~e~~~el~~l~~~l~~n   84 (123)
T d2piha1           7 DIVQQARNLAKMISETEEVD-FFKRAEAQINE-NDKVSTIVNQIKALQKQAVNLKHYEKHEALKQVEAKIDALQEELEEI   84 (123)
T ss_dssp             HHHHHHHHHHHHHTTBHHHH-HHHHHHHHHHH-CHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCHHHH-HHHHHHHHHHc-CHHHHHHHHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHhcC
Confidence            47888888888888888886 67777666643 444556666778888888887766543  367778889998888877


Q ss_pred             hhhhhhh
Q 023255          184 RAAIECE  190 (285)
Q Consensus       184 ra~~e~e  190 (285)
                      ...-+|-
T Consensus        85 p~v~~y~   91 (123)
T d2piha1          85 PVIQEFR   91 (123)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665553

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=80.14  E-value=8.8  Score=34.03  Aligned_cols=39  Identities=18%  Similarity=0.272  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhh----------hccHHHHHHHHHHHH
Q 023255          139 CVIKQEMIKDLNEINGDLAKARDE----------SKDMAAIKAEIETER  177 (285)
Q Consensus       139 ~~~rqeL~aevq~LekDL~~~~~d----------~qkl~aLkaEIe~Lr  177 (285)
                      ....++|..++..+..++..++.+          ...+|.++++++.+.
T Consensus       312 l~~i~~Lk~~Le~lr~~le~A~r~gd~e~AaeL~y~~ip~le~el~~l~  360 (387)
T d1qvra2         312 LRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALS  360 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHhhchHHHHHHHHHHHH
Confidence            344455555555556555554433          133455555555443