Citrus Sinensis ID: 023704

---

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-------28
Protein Sequence
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVQGSAEHGHQ
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mniygnslhttlhnhsqftmsgrrvlrepplstralppqhspslhhleDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECekknrasnHEQREIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAvnpstsyaasygnpdpgfggslyadpysmhqvqgsaehghq
Flexible Loop (DISEMBL)
mniygnslhttlhnhsqftMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEkslkldaelRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIeterqeihkgraaiecekknrasnheqrEIMEKNIISVAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVQGSAEHGHQ
Low Complexity Region (SEG)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQaelanaekraraaaaaaavnpstsyaaSYGNPDPGFGGSLYADPYSMHQVQGSAEHGHQ
Disordered region (IsUnstruct)
*******************************************************************LAATHVAL******************************ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN*****************************************************************************************************************************
Disordered Region (DISOPRED)
**************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA********************YAASYGNPDPGFGGSLYADPYSMH***********
Disordered Region (DISPRO)
MNIYGNSLHTTLHNHS****************TRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA*AA************GNPDPGFGGSLYADPYS*************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNIYGNSLHTTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIHKGRAAIECEKKNRASNHEQxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVQGSAEHGHQ
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

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	278
255560349	274	conserved hypothetical protein [Ricinus	0.931	0.945	0.551	5e-66
449454989	305	PREDICTED: uncharacterized protein LOC10	0.809	0.737	0.605	1e-61
224103867	288	predicted protein [Populus trichocarpa]	0.794	0.767	0.582	4e-61
359478523	314	PREDICTED: uncharacterized protein LOC10	0.942	0.834	0.518	1e-60
449531685	270	PREDICTED: uncharacterized LOC101204259,	0.791	0.814	0.605	2e-59
224059867	284	predicted protein [Populus trichocarpa]	0.917	0.897	0.537	5e-59
357491069	286	hypothetical protein MTR_5g072760 [Medic	0.809	0.786	0.545	8e-57
255580849	315	conserved hypothetical protein [Ricinus	0.856	0.755	0.467	3e-54
116782366	309	unknown [Picea sitchensis] gi|116787652|	0.884	0.796	0.470	2e-52
224285820	309	unknown [Picea sitchensis]	0.884	0.796	0.462	3e-51

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

 Score =  256 bits (655), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 149/270 (55%), Positives = 196/270 (72%), Gaps = 11/270 (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 GNPDPGFGGSLYADPYSMHQVQGSAEHGHQ 278
            NP+  +GG+L  D Y++HQVQG  + G Q
Sbjct: 241 SNPEVSYGGNLGPDLYAIHQVQGGTDAGPQ 270

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 =  242 bits (618), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 138/228 (60%), Positives = 177/228 (77%), Gaps = 3/228 (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-ADPYSMHQVQGSA 273
           K  RA AAAA  +P + Y A+YG+PD  +GGS Y  DPY MHQVQG +
Sbjct: 230 K--RARAAAAVTSPFSGYTAAYGHPDIRYGGSSYPPDPYGMHQVQGGS 275

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 130/223 (58%), Positives = 172/223 (77%), Gaps = 2/223 (0%)

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 KRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQV 269
           KRARAAAAA   NPS  Y  +YG+ +  +GGS Y DP  + Q 
Sbjct: 241 KRARAAAAAG--NPSPGYGRNYGSAEVRYGGSSYPDPIGLQQC 281

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  239 bits (610), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 140/270 (51%), Positives = 193/270 (71%), Gaps = 8/270 (2%)

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 GNPDPGFGGSLYADPYSMHQVQGSAEHGHQ 278
           GN D G+GGS Y DPY+MHQ  G  + G Q
Sbjct: 265 GNSDMGYGGSFYHDPYAMHQAHGGPDAGPQ 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  234 bits (598), 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|224059867|ref|XP_002300004.1| predicted protein [Populus trichocarpa] gi|222847262|gb|EEE84809.1| predicted protein [Populus trichocarpa]

 Score =  233 bits (595), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 144/268 (53%), Positives = 189/268 (70%), Gaps = 13/268 (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 GNPDPGFGGSLYADPYSMHQVQGSAEHG 276
           G+ + G GGS Y DPY + QVQ  ++ G
Sbjct: 239 GSAEVGCGGSSYPDPYGLQQVQVGSDSG 266

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 =  226 bits (576), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 125/229 (54%), Positives = 171/229 (74%), Gaps = 4/229 (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-DPYSMHQVQGSAE 274
           KRARAA  AAA+ PS  Y A+  NP+ GFGG  Y  D YSMHQ+QG  E
Sbjct: 217 KRARAAMVAAAI-PSPGYHAN--NPEMGFGGITYPQDSYSMHQIQGGVE 262

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 =  218 bits (554), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 114/244 (46%), Positives = 171/244 (70%), Gaps = 6/244 (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 VAQQIERLQAELANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGSLYADPYSMHQVQ 270
           +A+++E+L+AE+ANAEKRARAA A    NP  +Y A+YGN + G+ G+ Y   Y M+ VQ
Sbjct: 230 MARELEKLRAEIANAEKRARAAVAVG--NPGATYNANYGNSEAGYAGNPYPIGYGMNPVQ 287

Query: 271 GSAE 274
            +AE
Sbjct: 288 ANAE 291

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 =  212 bits (539), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 119/253 (47%), Positives = 176/253 (69%), Gaps = 7/253 (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 MHQVQGSAEHGHQ 278
           +H  QG AE G Q
Sbjct: 277 VHPAQGGAESGGQ 289

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224285820|gb|ACN40624.1| unknown [Picea sitchensis]

 Score =  208 bits (529), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 117/253 (46%), Positives = 174/253 (68%), Gaps = 7/253 (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 + AEL ++RAD +K+  I+QEM
Sbjct: 102 LQHMNHMAANMHADKEHHLRELYDKSMKLEADLRANEPIKAELMQLRADNQKMGAIRQEM 161

Query: 146 IKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME 205
              +  +  D  +AR + + + A++AEIE+  QE+ + R AIE EKK RA   EQ + ME
Sbjct: 162 TAQVQALTQDFVRARADMQQVGAMRAEIESMHQELQRARTAIEYEKKARADQLEQGQAME 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 MHQVQGSAEHGHQ 278
           +H  QG AE G Q
Sbjct: 277 VHPAQGGAESGGQ 289

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	278
TAIR|locus:2089616	331	AT3G14750 "AT3G14750" [Arabido	0.859	0.722	0.373	2e-40
TAIR|locus:2060848	288	AT2G30120 [Arabidopsis thalian	0.798	0.770	0.414	5.5e-38
TAIR|locus:2035751	283	AT1G55170 "AT1G55170" [Arabido	0.755	0.742	0.339	1.6e-29
TAIR|locus:2033681	359	AT1G67170 "AT1G67170" [Arabido	0.687	0.532	0.321	7.3e-27
TAIR|locus:2156146	238	AT5G61920 "AT5G61920" [Arabido	0.647	0.756	0.276	6.7e-17
FB|FBgn0264695	1962	Mhc "Myosin heavy chain" [Dros	0.600	0.085	0.251	4.5e-06
WB|WBGene00003515	1969	myo-3 [Caenorhabditis elegans	0.607	0.085	0.254	3.8e-05
UNIPROTKB|P12844	1969	myo-3 "Myosin-3" [Caenorhabdit	0.607	0.085	0.254	3.8e-05
UNIPROTKB|A7E2Y1	1941	MYH7B "Myosin-7B" [Homo sapien	0.607	0.087	0.269	4.8e-05
UNIPROTKB|G3V6P7	1960	Myh9 "Myosin-9" [Rattus norveg	0.683	0.096	0.220	4.9e-05

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

 Score = 430 (156.4 bits), Expect = 2.0e-40, P = 2.0e-40
 Identities = 92/246 (37%), Positives = 147/246 (59%)

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 SMHQVQ 270
             +M+  Q
Sbjct:   287 TMNPAQ 292

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 = 4.5e-06, P = 4.5e-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 = 3.8e-05, P = 3.8e-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 = 3.8e-05, P = 3.8e-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 = 4.8e-05, P = 4.8e-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 = 4.9e-05, P = 4.9e-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	278
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-06
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
pfam08317	321	pfam08317, Spc7, Spc7 kinetochore protein	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
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	2e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	3e-04
PRK11281	1113	PRK11281, PRK11281, hypothetical protein; Provisio	4e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	8e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.003
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.003

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

 Score = 53.5 bits (129), Expect = 5e-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 = 50.9 bits (122), 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 = 49.3 bits (118), Expect = 1e-06
 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 = 47.0 bits (112), 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 = 44.7 bits (106), 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 = 43.2 bits (102), 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|219791 pfam08317, Spc7, Spc7 kinetochore protein

 Score = 42.3 bits (100), Expect = 1e-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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.4 bits (100), 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 = 42.4 bits (100), 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 = 42.0 bits (99), 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|197874 smart00787, Spc7, Spc7 kinetochore protein

 Score = 41.9 bits (99), Expect = 2e-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|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 41.5 bits (97), Expect = 3e-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|236892 PRK11281, PRK11281, hypothetical protein; Provisional

 Score = 41.1 bits (97), Expect = 4e-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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.8 bits (96), Expect = 7e-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 = 40.5 bits (95), Expect = 8e-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 = 40.4 bits (95), Expect = 8e-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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 39.7 bits (93), 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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 39.3 bits (92), Expect = 0.002
 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 = 39.3 bits (92), Expect = 0.002
 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 = 38.5 bits (90), 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 = 38.1 bits (89), Expect = 0.003
 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	278
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	99.37
KOG0964	1200	consensus Structural maintenance of chromosome pro	98.89
KOG0996	1293	consensus Structural maintenance of chromosome pro	98.88
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.7
KOG0018	1141	consensus Structural maintenance of chromosome pro	98.4
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.37
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.27
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	98.26
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.11
PRK11637	428	AmiB activator; Provisional	98.04
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.77
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.77
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.67
PRK11637	428	AmiB activator; Provisional	97.66
PRK09039	343	hypothetical protein; Validated	97.63
PRK03918	880	chromosome segregation protein; Provisional	97.61
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.61
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.55
PRK02224	880	chromosome segregation protein; Provisional	97.51
PRK03918	880	chromosome segregation protein; Provisional	97.49
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.44
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.38
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.33
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.31
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.3
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.29
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.25
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.23
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.2
PRK02224	880	chromosome segregation protein; Provisional	97.18
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.16
PHA02562	562	46 endonuclease subunit; Provisional	97.15
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	97.11
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.08
PRK04778	569	septation ring formation regulator EzrA; Provision	97.06
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	97.06
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.98
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.96
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	96.87
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	96.87
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.84
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.84
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.79
COG4372	499	Uncharacterized protein conserved in bacteria with	96.76
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.74
PHA02562	562	46 endonuclease subunit; Provisional	96.74
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.74
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.74
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.68
KOG0996	1293	consensus Structural maintenance of chromosome pro	96.67
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.65
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.64
PRK09039	343	hypothetical protein; Validated	96.62
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.62
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.54
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	96.52
PRK04863	1486	mukB cell division protein MukB; Provisional	96.52
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.52
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.51
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	96.5
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.5
PF13514	1111	AAA_27: AAA domain	96.44
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.42
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.41
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.4
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.38
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	96.34
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	96.33
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	96.32
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.31
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	96.29
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	96.25
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.25
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	96.23
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.21
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.19
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.17
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.14
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.14
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	96.11
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	96.09
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	96.04
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.04
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.0
PRK01156	895	chromosome segregation protein; Provisional	96.0
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	95.99
COG4372	499	Uncharacterized protein conserved in bacteria with	95.99
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.89
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	95.75
PRK04863	1486	mukB cell division protein MukB; Provisional	95.73
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.72
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.71
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	95.7
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.68
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	95.66
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.65
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.65
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.63
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.56
COG5185	622	HEC1 Protein involved in chromosome segregation, i	95.55
PRK04778	569	septation ring formation regulator EzrA; Provision	95.54
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.52
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.47
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.46
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.4
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.4
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	95.35
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.32
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.3
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	95.25
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	95.2
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	95.19
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	95.19
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	95.17
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.17
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	95.14
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.13
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.11
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.08
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	95.07
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	95.07
COG2433	652	Uncharacterized conserved protein [Function unknow	95.05
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	94.98
COG5185	622	HEC1 Protein involved in chromosome segregation, i	94.96
PF15294	278	Leu_zip: Leucine zipper	94.9
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.85
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	94.84
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	94.79
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	94.77
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	94.7
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	94.68
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	94.64
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.6
KOG0979	1072	consensus Structural maintenance of chromosome pro	94.56
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	94.5
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	94.42
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	94.41
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	94.35
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	94.33
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	94.31
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	94.27
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	94.23
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	94.22
COG4477	570	EzrA Negative regulator of septation ring formatio	94.19
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	94.18
PF13514	1111	AAA_27: AAA domain	94.17
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	94.13
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.13
KOG0018	1141	consensus Structural maintenance of chromosome pro	94.04
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	94.0
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	93.88
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	93.88
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	93.82
KOG4807	593	consensus F-actin binding protein, regulates actin	93.79
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	93.75
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	93.7
PRK10884	206	SH3 domain-containing protein; Provisional	93.67
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	93.67
PRK10884	206	SH3 domain-containing protein; Provisional	93.67
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	93.62
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	93.61
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	93.39
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	93.36
PRK11519	719	tyrosine kinase; Provisional	93.36
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	93.35
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	93.35
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	93.34
PF10186	302	Atg14: UV radiation resistance protein and autopha	93.31
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	93.24
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	93.23
KOG0963	629	consensus Transcription factor/CCAAT displacement	93.15
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	93.15
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	93.11
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	93.08
PRK03947	140	prefoldin subunit alpha; Reviewed	93.07
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	93.02
PF04626	132	DEC-1_C: Dec-1 protein, C terminal region; InterPr	93.0
PRK10361	475	DNA recombination protein RmuC; Provisional	92.98
PRK10361	475	DNA recombination protein RmuC; Provisional	92.96
PF07246	264	Phlebovirus_NSM: Phlebovirus nonstructural protein	92.88
KOG1937	521	consensus Uncharacterized conserved protein [Funct	92.86
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	92.84
COG4942	420	Membrane-bound metallopeptidase [Cell division and	92.84
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	92.81
KOG2991	330	consensus Splicing regulator [RNA processing and m	92.78
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	92.74
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	92.74
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	92.66
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.66
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.65
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	92.65
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	92.6
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	92.6
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	92.55
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	92.54
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	92.45
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	92.44
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	92.43
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	92.32
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	92.23
KOG0249	916	consensus LAR-interacting protein and related prot	92.1
PF15294	278	Leu_zip: Leucine zipper	92.07
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	92.05
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	92.02
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	91.99
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	91.92
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	91.87
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	91.75
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	91.66
PRK11546	143	zraP zinc resistance protein; Provisional	91.39
PRK12704	520	phosphodiesterase; Provisional	91.33
PF13094	160	CENP-Q: CENP-Q, a CENPA-CAD centromere complex sub	91.22
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	91.11
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	90.98
COG4913	1104	Uncharacterized protein conserved in bacteria [Fun	90.95
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	90.92
PRK10869	553	recombination and repair protein; Provisional	90.88
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	90.85
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	90.7
KOG0288	459	consensus WD40 repeat protein TipD [General functi	90.64
KOG4807	593	consensus F-actin binding protein, regulates actin	90.62
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	90.61
PF07139	302	DUF1387: Protein of unknown function (DUF1387); In	90.6
KOG0979	1072	consensus Structural maintenance of chromosome pro	90.54
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	90.53
PRK03598	331	putative efflux pump membrane fusion protein; Prov	90.52
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	90.52
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	90.44
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	90.41
KOG2391	365	consensus Vacuolar sorting protein/ubiquitin recep	90.37
KOG0971	1243	consensus Microtubule-associated protein dynactin	90.3
PRK00106	535	hypothetical protein; Provisional	90.3
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	90.29
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	90.27
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	90.21
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	90.12
PRK10698	222	phage shock protein PspA; Provisional	89.98
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	89.94
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	89.91
PF14992	280	TMCO5: TMCO5 family	89.89
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	89.87
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	89.83
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	89.83
PF07794	790	DUF1633: Protein of unknown function (DUF1633); In	89.77
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	89.6
PRK10476	346	multidrug resistance protein MdtN; Provisional	89.52
PF10186	302	Atg14: UV radiation resistance protein and autopha	89.51
cd07632	215	BAR_APPL2 The Bin/Amphiphysin/Rvs (BAR) domain of	89.39
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	89.33
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	89.16
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	89.13
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.12
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	88.93
smart00503	117	SynN Syntaxin N-terminal domain. Three-helix domai	88.79
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.72
PF01544	292	CorA: CorA-like Mg2+ transporter protein; InterPro	88.71
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	88.65
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	88.64
PRK10476	346	multidrug resistance protein MdtN; Provisional	88.63
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	88.61
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	88.54
PRK00409	782	recombination and DNA strand exchange inhibitor pr	88.34
KOG3433	203	consensus Protein involved in meiotic recombinatio	88.26
KOG4687	389	consensus Uncharacterized coiled-coil protein [Fun	88.26
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	88.2
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	88.13
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	88.03
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	87.99
KOG3478	120	consensus Prefoldin subunit 6, KE2 family [Posttra	87.97
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	87.8
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	87.7
KOG4677	554	consensus Golgi integral membrane protein [Intrace	87.68
PRK10246	1047	exonuclease subunit SbcC; Provisional	87.67
COG2433	652	Uncharacterized conserved protein [Function unknow	87.53
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	87.51
KOG0993	542	consensus Rab5 GTPase effector Rabaptin-5 [Intrace	87.49
KOG4572	1424	consensus Predicted DNA-binding transcription fact	87.43
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	87.41
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	87.38
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	87.22
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	87.16
PRK10246	1047	exonuclease subunit SbcC; Provisional	87.08
cd07651	236	F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology	87.07
PRK09343	121	prefoldin subunit beta; Provisional	87.04
PRK14001	189	potassium-transporting ATPase subunit C; Provision	86.9
PRK12704	520	phosphodiesterase; Provisional	86.86
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	86.65
PF14992	280	TMCO5: TMCO5 family	86.6
TIGR00414	418	serS seryl-tRNA synthetase. This model represents	86.54
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	86.54
KOG1962	216	consensus B-cell receptor-associated protein and r	86.49
PRK05431	425	seryl-tRNA synthetase; Provisional	86.48
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	86.46
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	86.42
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	86.34
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	86.26
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	85.86
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	85.81
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	85.76
KOG4657	246	consensus Uncharacterized conserved protein [Funct	85.74
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	85.59
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	85.46
cd07672	240	F-BAR_PSTPIP2 The F-BAR (FES-CIP4 Homology and Bin	85.43
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	85.43
COG3206	458	GumC Uncharacterized protein involved in exopolysa	85.31
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	85.31
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	85.17
PF14182	79	YgaB: YgaB-like protein	85.04
COG5293	591	Predicted ATPase [General function prediction only	84.9
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	84.85
TIGR02231	525	conserved hypothetical protein. This family consis	84.62
PF07439	112	DUF1515: Protein of unknown function (DUF1515); In	84.58
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	84.49
TIGR02473	141	flagell_FliJ flagellar export protein FliJ. Member	84.42
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	84.02
KOG4403	575	consensus Cell surface glycoprotein STIM, contains	83.97
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	83.94
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	83.93
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	83.76
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	83.59
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	83.58
KOG1937	521	consensus Uncharacterized conserved protein [Funct	83.2
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	83.13
KOG1962	216	consensus B-cell receptor-associated protein and r	82.95
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	82.93
PRK13997	193	potassium-transporting ATPase subunit C; Provision	82.72
COG3352	157	FlaC Putative archaeal flagellar protein C [Cell m	82.62
PRK10929	1109	putative mechanosensitive channel protein; Provisi	82.41
PF14817	632	HAUS5: HAUS augmin-like complex subunit 5	82.31
cd07657	237	F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin	82.07
PF13805	271	Pil1: Eisosome component PIL1; PDB: 3PLT_B.	82.05
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	81.94
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	81.85
PRK10929	1109	putative mechanosensitive channel protein; Provisi	81.83
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	81.78
KOG4687	389	consensus Uncharacterized coiled-coil protein [Fun	81.77
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	81.55
PRK00315	193	potassium-transporting ATPase subunit C; Reviewed	81.52
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	81.5
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	81.47
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	81.32
PRK11281	1113	hypothetical protein; Provisional	81.27
PLN02678	448	seryl-tRNA synthetase	81.25
PRK13995	203	potassium-transporting ATPase subunit C; Provision	81.22
PF05276	239	SH3BP5: SH3 domain-binding protein 5 (SH3BP5); Int	81.2
COG1322	448	Predicted nuclease of restriction endonuclease-lik	81.19
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	81.05
PF05837	106	CENP-H: Centromere protein H (CENP-H); InterPro: I	80.93
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	80.88
PF12592	57	DUF3763: Protein of unknown function (DUF3763); In	80.76
KOG4637	464	consensus Adaptor for phosphoinositide 3-kinase [S	80.75
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	80.62
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	80.6
PF04799	171	Fzo_mitofusin: fzo-like conserved region; InterPro	80.44
TIGR03495	135	phage_LysB phage lysis regulatory protein, LysB fa	80.38
PRK00409	782	recombination and DNA strand exchange inhibitor pr	80.37
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	80.36
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	80.26
TIGR02231	525	conserved hypothetical protein. This family consis	80.18
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	80.13

>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=1.2e-26  Score=237.95  Aligned_cols=210  Identities=18%  Similarity=0.242  Sum_probs=192.9

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCCCCCCch-----HHHHHHHHHHHHH---HHHHH
Q 023704            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALPPQHSPS-----LHHLEDRIAIQHS---DIQSL   61 (278)
Q Consensus         2 ~ifG~tli---------vtfhp~---~svTleGD~ydpeG~LsGGs~p~~~~~l-----~~~Le~~L~~q~~---eIq~l   61 (278)
                      +|||||||         |||||.   |||||+||+|||+|||||||++.+..+|     ++.++.+|..++.   .+.+.
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 023704           62 LQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI  141 (278)
Q Consensus        62 l~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~  141 (278)
                      |...+..+..+..|+++|++..|+|.++..++..++..+      +          +..++.++.++..++++|.+....
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-hccHHHHHHHHHHHHHHHHhh--------------hhhhhhhhhhchhhHHHHHHHHH
Q 023704          142 KQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKG--------------RAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       142 rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~--------------raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      .+....+|..|+++|.++.++ ..++++|.++|+.+++.+...              ...+|..++....+-.|+..|++
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 999999999998887766544              44556667777778889999999


Q ss_pred             hHHHHHHHHHHHHHHHHhHHh
Q 023704          207 NIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       207 nl~~m~~e~eklrael~n~~~  227 (278)
                      ++-++..|+..|++.+.+++.
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=5.4e-11  Score=126.69  Aligned_cols=33  Identities=12%  Similarity=0.275  Sum_probs=27.9

Q ss_pred             cccCceEEE---------eecCCCcccccCCccCCCCCCCCCC
Q 023704            2 NIYGNSLHT---------TLHNHSQFTMSGRRVLREPPLSTRA   35 (278)
Q Consensus         2 ~ifG~tliv---------tfhp~~svTleGD~ydpeG~LsGGs   35 (278)
                      .+||++|||         + ++-++||++||+++|.|+++||+
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=99.37  E-value=2.3e-10  Score=124.06  Aligned_cols=55  Identities=18%  Similarity=0.209  Sum_probs=39.1

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCCCCCCch----HHHHHHHHHHHHH
Q 023704            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALPPQHSPS----LHHLEDRIAIQHS   56 (278)
Q Consensus         2 ~ifG~tli---------vtfhp~---~svTleGD~ydpeG~LsGGs~p~~~~~l----~~~Le~~L~~q~~   56 (278)
                      ++||+|+|         ++|...   |.|||+||+++|+|+++||++...+++.    +..|+.++.....
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

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

Probab=98.89  E-value=4.9e-07  Score=94.64  Aligned_cols=155  Identities=17%  Similarity=0.266  Sum_probs=90.8

Q ss_pred             cccCceEEE------ee---cCC-CcccccCCccCCCCCCCCCCCCCCCCch-------------------HHHHHHHHH
Q 023704            2 NIYGNSLHT------TL---HNH-SQFTMSGRRVLREPPLSTRALPPQHSPS-------------------LHHLEDRIA   52 (278)
Q Consensus         2 ~ifG~tliv------tf---hp~-~svTleGD~ydpeG~LsGGs~p~~~~~l-------------------~~~Le~~L~   52 (278)
                      .|||+|+||      +.   .-. .||||+||..+.-|+|+||-.....+-|                   ++.++.+|.
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      11   111 8999999999999999999653222222                   444555555


Q ss_pred             HHHHHHHHHHHHhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH---HHHHHHHHHHhhhhHHH-----
Q 023704           53 IQHSDIQSLLQDNQRL-------AATHVALKQELSLAEQELRHLSSVAASVKAER---DAEVRELYEKSLKLDAE-----  117 (278)
Q Consensus        53 ~q~~eIq~ll~dnqrl-------a~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~---e~~~r~l~~k~~kleae-----  117 (278)
                      ...++|..+..+.|++       -..|..|+++++..+.+.+.++..+.-..-.-   ....+.+-+..--+|++     
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            5555555555555554       45566666666666666555554443222111   11222233333333444     


Q ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 --------LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (278)
Q Consensus       118 --------lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL  156 (278)
                              ..++..+..+|.+++.++..+...+.++...+..++..|
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

>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=98.88  E-value=4.1e-07  Score=96.64  Aligned_cols=34  Identities=9%  Similarity=0.143  Sum_probs=29.5

Q ss_pred             ccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCC
Q 023704            3 IYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRAL   36 (278)
Q Consensus         3 ifG~tli---------vtfhp~---~svTleGD~ydpeG~LsGGs~   36 (278)
                      +.+||||         |+|-+.   |-|||+|-..+++||||||..
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         889887   799999999999999999843

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.70  E-value=1.4e-05  Score=85.31  Aligned_cols=11  Identities=18%  Similarity=-0.100  Sum_probs=6.9

Q ss_pred             ccCCccCCCCC
Q 023704           20 MSGRRVLREPP   30 (278)
Q Consensus        20 leGD~ydpeG~   30 (278)
                      ++|+++.|+|.
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=98.40  E-value=8.2e-05  Score=79.09  Aligned_cols=36  Identities=14%  Similarity=0.142  Sum_probs=32.4

Q ss_pred             cccCceEE---------EeecCC---CcccccCCccCCCCCCCCCCCC
Q 023704            2 NIYGNSLH---------TTLHNH---SQFTMSGRRVLREPPLSTRALP   37 (278)
Q Consensus         2 ~ifG~tli---------vtfhp~---~svTleGD~ydpeG~LsGGs~p   37 (278)
                      .+|||+||         ++|...   +.|||||-.|--+|.+||||..
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   8999999999999999999955

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.37  E-value=0.00014  Score=77.67  Aligned_cols=57  Identities=16%  Similarity=0.101  Sum_probs=33.5

Q ss_pred             ccCceEEEee------------cCCCcccccCCccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHH
Q 023704            3 IYGNSLHTTL------------HNHSQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSL   61 (278)
Q Consensus         3 ifG~tlivtf------------hp~~svTleGD~ydpeG~LsGGs~p~~~~~l~~~Le~~L~~q~~eIq~l   61 (278)
                      +||++.|||-            ..+..||.+|+...+.|..+||++.......  .++.++.....++..+
T Consensus       621 ~~~~~~ivt~l~~a~~~~~~~~~~g~~v~~~G~~~~~gg~~~~~~~~~~~~~~--~l~~e~~~l~~~~~~l  689 (1179)
T TIGR02168       621 LLGGVLVVDDLDNALELAKKLRPGYRIVTLDGDLVRPGGVITGGSAKTNSSIL--ERRREIEELEEKIEEL  689 (1179)
T ss_pred             HhCCceEeCCHHHHHHHHHHcCCCceEEecCCEEEcCCceEecCccccccchh--hHHHHHHHHHHHHHHH
Confidence            5777777771            1348899999988888888766532222222  4444444444433333

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=98.27  E-value=0.00095  Score=67.45  Aligned_cols=171  Identities=19%  Similarity=0.301  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 023704           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHA  126 (278)
Q Consensus        47 Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~  126 (278)
                      |+.++.....+...++..+..|-.....|+.++...+.+|.........+....    -++          ....+.++.
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            455666555666667777777777777777777777777766666555444432    123          223444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH----HHHHhhhhhh-------hhhhhhch
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETER----QEIHKGRAAI-------ECEKKNRA  195 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~Lr----qEl~~~raa~-------e~ekk~~~  195 (278)
                      |...+..+..++.....+|..+|..+++...+......++..+..+.+.++    +.|+..-..+       ..-+.-+.
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            555555555555555555555555555444333333334444444443333    2222221222       12223334


Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH-hhHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAELANAE-KRARA  231 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael~n~~-~r~~a  231 (278)
                      .+.+|++.++.-+-+-=++++.|+.||..+- .|.|.
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 [].

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

Probab=98.26  E-value=0.00087  Score=69.89  Aligned_cols=204  Identities=22%  Similarity=0.322  Sum_probs=133.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhhhhhHhH----------HHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAAT-------HVALKQELSLAEQELRHLSSVAASVKAER----------DAEVRE  106 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~-------~~~L~qEL~laqhEL~~l~~~i~~~~ae~----------e~~~r~  106 (278)
                      ...||..++.+..||+..-.-.+.|-.+       ...|+.+|...++|...|+.++..+...+          |-++++
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            3567777777776655443333333222       45677778888888887777777666554          333444


Q ss_pred             HHHHhhhhHHHHHH--------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          107 LYEKSLKLDAELRV--------------------------IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       107 l~~k~~kleaelr~--------------------------~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      .-++...+|+.|..                          .|..|....++..|+++|..+.+....++..+++|+.+++
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            44444444444411                          1335666677777777777777777777888887776554


Q ss_pred             h---h-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHH-------HHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023704          161 D---E-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE-------QREIMEKNIISVAQQIERLQAELANAEKRA  229 (278)
Q Consensus       161 ~---d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e-------q~q~meknl~~m~~e~eklrael~n~~~r~  229 (278)
                      .   + ..-...|...|..|+.+-.+++...-.|.+.+.|+..       |+..-+.-+..==+||.-|++.|+-.-   
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 3457888999999999999999999999999988864       556666667666779999999885432   


Q ss_pred             HHHHHhhhcCCCCccccCCCCCCCCCCC
Q 023704          230 RAAAAAAAVNPSTSYAASYGNPDPGFGG  257 (278)
Q Consensus       230 ~a~~~a~~~~~~~~y~~~~gn~~~~~~~  257 (278)
                       |.      -|+.+|+.+.+.|...|..
T Consensus       657 -av------~p~~~~~~~~~~~~~~~~~  677 (697)
T PF09726_consen  657 -AV------MPSDSYCSAITPPTPHYSS  677 (697)
T ss_pred             -hc------CCccccccCCCCCCccchh
Confidence             22      3566677555544445543

; GO: 0016021 integral to membrane

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.11  E-value=0.002  Score=69.25  Aligned_cols=101  Identities=20%  Similarity=0.297  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      .++..+..++..+......+..++..++.++.+++.+    .+++..++.+++.++.++..+...++...+...+.-.+.
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    123344444444444444444444444443334444444


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          202 EIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       202 q~meknl~~m~~e~eklrael~n~~  226 (278)
                      ..+...+-.+..++.+++.++...+
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.

>PRK11637 AmiB activator; Provisional

Probab=98.04  E-value=0.016  Score=56.82  Aligned_cols=73  Identities=14%  Similarity=0.186  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhH
Q 023704          136 EKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNI  208 (278)
Q Consensus       136 ~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl  208 (278)
                      ..+...+.+|..+.+.++.++.+.......+..-+++|+..+.+.+.....++-+++.....+.+++.-++.|
T Consensus       173 ~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L  245 (428)
T PRK11637        173 AELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRL  245 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444433333334444444444444444444444444444444444444444443

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

Probab=97.77  E-value=0.007  Score=65.02  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=16.8

Q ss_pred             Eeec--CC---CcccccCCccCCCCC
Q 023704           10 TTLH--NH---SQFTMSGRRVLREPP   30 (278)
Q Consensus        10 vtfh--p~---~svTleGD~ydpeG~   30 (278)
                      ++|+  |.   ...|++||.-.-.|+
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   899999998775666

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

Probab=97.77  E-value=0.012  Score=54.89  Aligned_cols=103  Identities=17%  Similarity=0.320  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           71 THVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (278)
Q Consensus        71 ~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq  150 (278)
                      .+..+..+|..+.+.|..+......+..+.+....++-+=-.|++.+......++.++..++.++......+.+|..+|+
T Consensus        48 ~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~  127 (312)
T PF00038_consen   48 IKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQ  127 (312)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHH
Confidence            44455666666666666666666666666666666666667788888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhh-hccHHHHHHHH
Q 023704          151 EINGDLAKARDE-SKDMAAIKAEI  173 (278)
Q Consensus       151 ~LekDL~~~~~d-~~kl~~LkaEI  173 (278)
                      .|..||.-.... .+.+.+|+..+
T Consensus       128 ~L~eEl~fl~~~heeEi~~L~~~~  151 (312)
T PF00038_consen  128 SLKEELEFLKQNHEEEIEELREQI  151 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSTT-
T ss_pred             HHHHHHHHHHhhhhhhhhhhhhcc
Confidence            999998866654 45455554433

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=97.67  E-value=0.047  Score=51.97  Aligned_cols=110  Identities=25%  Similarity=0.360  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHH-HHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMA-AIKAEIETERQEIHKGRAAIECEKKNRASN  197 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~-~LkaEIe~LrqEl~~~raa~e~ekk~~~e~  197 (278)
                      +..+.|+.+...+...+..+.....++...-+.|+.++..++.-...+. .-..+|+.+|++|......|+.-|+.-.++
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            4456666777777777777777777777777777777776665432222 335677888888888888888888888888


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023704          198 HEQREIMEKNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       198 ~eq~q~meknl~~m~~e~eklrael~n~~~r  228 (278)
                      -.+++..+..+-.+..+..+|+++|+++++.
T Consensus       236 ~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~  266 (325)
T PF08317_consen  236 QEELEELEEKIEELEEQKQELLAEIAEAEKI  266 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999999998844

>PRK11637 AmiB activator; Provisional

Probab=97.66  E-value=0.072  Score=52.32  Aligned_cols=54  Identities=15%  Similarity=0.177  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHH----HHHhHHHHHHHHHHHHHHHH
Q 023704          170 KAEIETERQEIHKGRAAIECEKKNRASNHEQREI----MEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       170 kaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~----meknl~~m~~e~eklrael~  223 (278)
                      +++++.+..++......++-+++.+...+.+++.    -+.-+..+.++..+|.+.|+
T Consensus       193 ~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~  250 (428)
T PRK11637        193 QSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIA  250 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444443333333322    22334444445555555544

>PRK09039 hypothetical protein; Validated

Probab=97.63  E-value=0.005  Score=59.16  Aligned_cols=81  Identities=12%  Similarity=0.229  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHH----HH
Q 023704          142 KQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV----AQ  213 (278)
Q Consensus       142 rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m----~~  213 (278)
                      ..++..++..+..+|...+..    ..++..|+.+|+.||.++..+.++++.-+....+.-.+...+++.|-..    ..
T Consensus       111 ~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~  190 (343)
T PRK09039        111 GAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQ  190 (343)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            335566666677777665543    5678999999999999999999999999999999999999999888766    44


Q ss_pred             HHHHHHHHH
Q 023704          214 QIERLQAEL  222 (278)
Q Consensus       214 e~eklrael  222 (278)
                      |++++|.++
T Consensus       191 ~l~~~~~~~  199 (343)
T PRK09039        191 ELNRYRSEF  199 (343)
T ss_pred             HHHHhHHHH
Confidence            778888777

>PRK03918 chromosome segregation protein; Provisional

Probab=97.61  E-value=0.037  Score=58.47  Aligned_cols=97  Identities=21%  Similarity=0.276  Sum_probs=56.9

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          108 YEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR--DESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       108 ~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~--~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      +++..+++......+.+..++..++.++..+.....++..++..+...+.+..  -+...+..++.+++.++.++..++.
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  2234444455555555444444444


Q ss_pred             hhhhhhhhchhhHHHHHHH
Q 023704          186 AIECEKKNRASNHEQREIM  204 (278)
Q Consensus       186 a~e~ekk~~~e~~eq~q~m  204 (278)
                      .++..++.--++.++.+..
T Consensus       681 ~~~~l~~~i~~l~~~i~~~  699 (880)
T PRK03918        681 ELEELEKRREEIKKTLEKL  699 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444443333333333333

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

Probab=97.61  E-value=0.0092  Score=56.77  Aligned_cols=33  Identities=12%  Similarity=0.287  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        67 rla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                      .|...+..|+++.......+..+......+...
T Consensus       153 ~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~  185 (325)
T PF08317_consen  153 GLEENLELLQEDYAKLDKQLEQLDELLPKLRER  185 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555444433

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

Probab=97.55  E-value=0.037  Score=59.67  Aligned_cols=102  Identities=15%  Similarity=0.272  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~  197 (278)
                      +....++.++..+...++++......|..+|..+.++.   ..+ .++++++..+++.|++++.+++..+.-.+....+.
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            34444444444445555555555555555555444444   112 45566666666666666666666666555555666


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          198 HEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       198 ~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      .+-...++.++-+.-.++-.||--+.
T Consensus       428 ~~~~~~~~ee~~~i~~~i~~l~k~i~  453 (1074)
T KOG0250|consen  428 KEKAKEEEEEKEHIEGEILQLRKKIE  453 (1074)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            66666666666444444444444433

>PRK02224 chromosome segregation protein; Provisional

Probab=97.51  E-value=0.062  Score=57.02  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           72 HVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        72 ~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      ...+++++.....++..+...+..
T Consensus       208 l~~~~~~l~el~~~i~~~~~~~~~  231 (880)
T PRK02224        208 LNGLESELAELDEEIERYEEQREQ  231 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.49  E-value=0.076  Score=56.14  Aligned_cols=64  Identities=17%  Similarity=0.387  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETE  176 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~L  176 (278)
                      .++.++...+..+.++..+..+++.+......+..++..+++++.++.....++..+..+++.+
T Consensus       225 ~~~~~l~~l~~~~~~~~~l~~~~~~l~~~~~~l~~~i~~l~~el~~l~~~l~~l~~~~~~~~~l  288 (880)
T PRK03918        225 KLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKEL  288 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444455555555555555555555555555555555555554444444444444433333

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

Probab=97.44  E-value=0.04  Score=55.80  Aligned_cols=116  Identities=22%  Similarity=0.321  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus        70 ~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      .....|+.+|..+..++..|+..+....... +....  +...+....-..+..++.||.+++..+++.......|...+
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            3444555555555555555555555444311 00000  00001111112256666677777777776666666666666


Q ss_pred             HHHHHHHHHHhhh-----------hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          150 NEINGDLAKARDE-----------SKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       150 q~LekDL~~~~~d-----------~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      .+|..||.+.+.+           ...+..|..++..++.+|.-++....
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           22345556666666666655444443

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

>TIGR00606 rad50 rad50

Probab=97.38  E-value=0.046  Score=60.87  Aligned_cols=106  Identities=8%  Similarity=0.119  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhh---hh-hhhhhhch
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRA---AI-ECEKKNRA  195 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~ra---a~-e~ekk~~~  195 (278)
                      ++.++.++.+++.+++++......|..++..+..+..++... ..+...+..++..++..+..+..   .| +|...+..
T Consensus       890 L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~y~~~~~~  969 (1311)
T TIGR00606       890 LVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIENKIQDGKD  969 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCH
Confidence            666667777777777777777777777777777777776666 66677777777766665554433   33 34544433


Q ss_pred             hhHH-----------HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          196 SNHE-----------QREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       196 e~~e-----------q~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +.++           ++..++..+-.+..++..|+.+|.+..
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            3332           233444444555555555555555554

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

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

Probab=97.33  E-value=0.033  Score=51.18  Aligned_cols=39  Identities=26%  Similarity=0.333  Sum_probs=23.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      .|+.+-....|+.......+.+|..++-++..++..+..
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~   49 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEA   49 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666666666666666666666555543

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

Probab=97.31  E-value=0.13  Score=56.84  Aligned_cols=37  Identities=16%  Similarity=0.409  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      +.++.++..+..++.........+..+++.++..+.+
T Consensus       379 ~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~  415 (1163)
T COG1196         379 EALREELAELEAELAEIRNELEELKREIESLEERLER  415 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333444444443333333

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

Probab=97.30  E-value=0.1  Score=49.19  Aligned_cols=125  Identities=18%  Similarity=0.245  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           81 LAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIE---SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (278)
Q Consensus        81 laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e---~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~  157 (278)
                      ..+.+++.|.....+..-.- ..-+.+++++..|+.++....   ....++..+.+++..+.....++..+|+.|..+.+
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            44555555544444333322 122568888888888876554   45566777778888888888888888888888888


Q ss_pred             HHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHH
Q 023704          158 KARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       158 ~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      +++.+    -++..+++.+.+.|+.++...+..++..............-.++
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            88766    47789999999999999999999999888877776666665554

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

Probab=97.29  E-value=0.16  Score=51.80  Aligned_cols=58  Identities=17%  Similarity=0.288  Sum_probs=48.6

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHH----HHHHHHHH
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ----QIERLQAE  221 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~----e~eklrae  221 (278)
                      ..+..|++|+..|+.+|.++|+.++-|.-.+.++.-+.|.+.+.|--|-+    ||.-+|.-
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

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.25  E-value=0.13  Score=45.76  Aligned_cols=106  Identities=15%  Similarity=0.191  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHH----HHHHHHHHHHHHHHhhhhhh-hhhh----
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMA----AIKAEIETERQEIHKGRAAI-ECEK----  191 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~----~LkaEIe~LrqEl~~~raa~-e~ek----  191 (278)
                      ++.+|..+..+..+-..|.+....+..+.+.|..+|..++..+.|+.    -|+..++.|..+-..+...+ +||.    
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            44455555555555555555555555556666666666655544432    22222222222222222222 4443    


Q ss_pred             --hhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          192 --KNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       192 --k~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                        ..-.+..-+.....+-+.....=.+-||+|+...+
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              22234455556666666666666777777776554

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

Probab=97.23  E-value=0.13  Score=47.90  Aligned_cols=118  Identities=25%  Similarity=0.423  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQEL--------SLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE  117 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL--------~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleae  117 (278)
                      .|.++|+..-..++.+=.+|..|-.....++..-        .....+|.-+...+..+..++           .+|+.+
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            5667777776677777777777777776666552        122333444444444333333           455666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---h-hccHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD---E-SKDMAAIKAEIETER  177 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~---d-~~kl~~LkaEIe~Lr  177 (278)
                         ++.++.++..++..+......++.+..++..+.+++.....   + ..++..|+.||+-++
T Consensus        77 ---~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~  137 (312)
T PF00038_consen   77 ---IDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLK  137 (312)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHH
Confidence               77788888888888888888888888888888888776442   2 344455555444443

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

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

Probab=97.20  E-value=0.37  Score=51.59  Aligned_cols=183  Identities=13%  Similarity=0.210  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHHH----------HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhh
Q 023704           44 LHHLEDRIAIQHS----------DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLK  113 (278)
Q Consensus        44 ~~~Le~~L~~q~~----------eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~k  113 (278)
                      +.-|.++|+....          |+.+---+++.+-.=...+.+.....+.+|.+...........+|...+++.|-.--
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            5667777766554          222222223322222223333334444444444444444455556666666555444


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----ccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDES-----KDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       114 leaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~-----~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      ||.--=.-|-.+...+.|+.|+..++....+|+.++.-|..||.+-.+|+     -+++.|+..-..||.-+.|+|----
T Consensus       313 iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA  392 (1243)
T KOG0971|consen  313 IEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSA  392 (1243)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcch
Confidence            44321111222334455788888888899999999999999999977774     3567788888889999999988888


Q ss_pred             hhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          189 CEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       189 ~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      .||--+......+...-.-+--+-|--|+|..++.++|
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            88766666555444433344445556667777777766

>PRK02224 chromosome segregation protein; Provisional

Probab=97.18  E-value=0.14  Score=54.35  Aligned_cols=27  Identities=15%  Similarity=0.190  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704           67 RLAATHVALKQELSLAEQELRHLSSVA   93 (278)
Q Consensus        67 rla~~~~~L~qEL~laqhEL~~l~~~i   93 (278)
                      .+-.....++.++...+.++..+...+
T Consensus       210 ~~~~~l~el~~~i~~~~~~~~~l~~~l  236 (880)
T PRK02224        210 GLESELAELDEEIERYEEQREQARETR  236 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444443333

>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=97.16  E-value=0.17  Score=51.46  Aligned_cols=158  Identities=20%  Similarity=0.292  Sum_probs=81.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhh--------HH--HH------------
Q 023704           61 LLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKL--------DA--EL------------  118 (278)
Q Consensus        61 ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kl--------ea--el------------  118 (278)
                      +..++..+-.....++..|++.+++...|..-+.++.+-+|.-|.+|+.-.+..        ++  ++            
T Consensus       281 ~~~e~e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt~aeLh~aRLe~aql~~qLad~~l~lke~~~q~~qEk~  360 (546)
T PF07888_consen  281 LQQENEALKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRTMAELHQARLEAAQLKLQLADASLELKEGRSQWAQEKQ  360 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555566666666666666666666666655555554332211        00  11            


Q ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          119 ---RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDES-KDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       119 ---r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~-~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                         ...+..+.+|.+|..+++.+....++=..+-+.|+++|.+.+.-+ -+|.+.+.+|..|+..+.-+-..       .
T Consensus       361 ~l~~~~e~~k~~ie~L~~el~~~e~~lqEer~E~qkL~~ql~ke~D~n~vqlsE~~rel~Elks~lrv~qkE-------K  433 (546)
T PF07888_consen  361 ALQHSAEADKDEIEKLSRELQMLEEHLQEERMERQKLEKQLGKEKDCNRVQLSENRRELQELKSSLRVAQKE-------K  433 (546)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH-------H
Confidence               123444455556666666666555555666666666666544113 24555555555555544433322       2


Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a~  232 (278)
                      -.+.+..|.       +.+.|++|+..|....---|..
T Consensus       434 Eql~~EkQe-------L~~yi~~Le~r~~~~~~~~~~~  464 (546)
T PF07888_consen  434 EQLQEEKQE-------LLEYIERLEQRLDKVADEKWKE  464 (546)
T ss_pred             HHHHHHHHH-------HHHHHHHHHHHHHHhhhhhhhc
Confidence            223333333       4566777777775554334443

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 [].

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.15  E-value=0.22  Score=49.94  Aligned_cols=15  Identities=33%  Similarity=0.434  Sum_probs=6.7

Q ss_pred             HHHHHHHHhhhhHHH
Q 023704          103 EVRELYEKSLKLDAE  117 (278)
Q Consensus       103 ~~r~l~~k~~kleae  117 (278)
                      ++.++..+...++.+
T Consensus       221 e~~~l~~~~~~l~~~  235 (562)
T PHA02562        221 KYDELVEEAKTIKAE  235 (562)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344444444444444

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

Probab=97.11  E-value=0.12  Score=46.42  Aligned_cols=57  Identities=23%  Similarity=0.450  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHH-------hhhhhhhhhhhhchhhHHHH----HHHHHhHHHHHHHHHHHHHHH
Q 023704          166 MAAIKAEIETERQEIH-------KGRAAIECEKKNRASNHEQR----EIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~-------~~raa~e~ekk~~~e~~eq~----q~meknl~~m~~e~eklrael  222 (278)
                      +..|+.+++.|+.||.       ..+..|+.|+..-.+--+.+    +-+-.|+|-|-+--..|-.+|
T Consensus       133 ~~~l~~e~erL~aeL~~er~~~e~q~~~Fe~ER~~W~eEKekVi~YQkQLQ~nYvqMy~rn~~LE~~l  200 (202)
T PF06818_consen  133 LGSLRREVERLRAELQRERQRREEQRSSFEQERRTWQEEKEKVIRYQKQLQQNYVQMYQRNQALEREL  200 (202)
T ss_pred             chhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4556667777766666       45568999988876665544    556789999987555554443

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

>TIGR00606 rad50 rad50

Probab=97.08  E-value=0.27  Score=54.99  Aligned_cols=57  Identities=21%  Similarity=0.263  Sum_probs=42.0

Q ss_pred             HHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH
Q 023704          175 TERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA  233 (278)
Q Consensus       175 ~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a~~  233 (278)
                      .++++..+++..+..-...++.+..+++.++..+-.+-.|++.  .+..|+++|.+-+.
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            4445555555555566677888889999999999999999855  67788887766554

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.06  E-value=0.1  Score=53.24  Aligned_cols=154  Identities=12%  Similarity=0.217  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHhH-HHHHHHHHHHhhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           75 LKQELSLAEQELRHLSSVAASVKAER-DAEVRELYEKSLK----LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus        75 L~qEL~laqhEL~~l~~~i~~~~ae~-e~~~r~l~~k~~k----leaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      +..+|...+..|......+.+..-+. +..+..+-+++-.    ||.+..+...+......+...+..+....++|..++
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            34455555555555444444444332 2222223333322    355556666666666666666666666666777777


Q ss_pred             HHHHHH-------HHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          150 NEINGD-------LAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       150 q~LekD-------L~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ..+.+.       +..++.=..++..+...++.+...+......|..-++...++.+++..+++....+...+..||.+.
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       3333333455666666666677777777777777778888888888899999999999999999888


Q ss_pred             HhHHhh
Q 023704          223 ANAEKR  228 (278)
Q Consensus       223 ~n~~~r  228 (278)
                      ..|.++
T Consensus       414 ~eAr~k  419 (569)
T PRK04778        414 LEAREK  419 (569)
T ss_pred             HHHHHH
Confidence            777643

>smart00787 Spc7 Spc7 kinetochore protein

Probab=97.06  E-value=0.099  Score=49.80  Aligned_cols=30  Identities=23%  Similarity=0.359  Sum_probs=11.9

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           63 QDNQRLAATHVALKQELSLAEQELRHLSSV   92 (278)
Q Consensus        63 ~dnqrla~~~~~L~qEL~laqhEL~~l~~~   92 (278)
                      .+.+.+-.-.-.|++..+..++++..|.+.
T Consensus       165 ~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~  194 (312)
T smart00787      165 KELELLNSIKPKLRDRKDALEEELRQLKQL  194 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333333333333444444444444444333

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.98  E-value=0.46  Score=54.83  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=11.9

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHhH
Q 023704          203 IMEKNIISVAQQIERLQAELANA  225 (278)
Q Consensus       203 ~meknl~~m~~e~eklrael~n~  225 (278)
                      -+|+..-.+++|++.|+.+|...
T Consensus      1122 K~ek~r~dL~~ele~l~~~Lee~ 1144 (1930)
T KOG0161|consen 1122 KAERQRRDLSEELEELKEELEEQ 1144 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555555555444

>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=96.96  E-value=0.44  Score=50.60  Aligned_cols=168  Identities=20%  Similarity=0.329  Sum_probs=87.6

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh---HhHHHHHHHHHHHhh-------------hhHHHHHHH
Q 023704           58 IQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVK---AERDAEVRELYEKSL-------------KLDAELRVI  121 (278)
Q Consensus        58 Iq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~---ae~e~~~r~l~~k~~-------------kleaelr~~  121 (278)
                      |..+-.+-.++......|+..+.....++..|...|.++.   .++|-++.++-++..             +||--+...
T Consensus       366 ~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~~ek  445 (775)
T PF10174_consen  366 IEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEALREK  445 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHH
Confidence            3333344445555556666667777777777777765544   355666666665555             222222112


Q ss_pred             HHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------------hh----hccHHHHHHHHHH
Q 023704          122 ESMHAELDR--------VRADIEKLCVIKQEMIKDLNEINGDLAKAR--------------DE----SKDMAAIKAEIET  175 (278)
Q Consensus       122 e~lk~El~q--------lr~ei~~l~~~rqeL~~evq~LekDL~~~~--------------~d----~~kl~~LkaEIe~  175 (278)
                      +-+...|..        ...++.......+++..++..|+++|.+..              +.    .+.|.-|.-+++.
T Consensus       446 er~~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~~~kee~s~l~s~~~K~~s~i~~l~I~lEk  525 (775)
T PF10174_consen  446 ERLQERLEEQRERAEKERQEELETYQKELKELKAKLESLQKELSEKELQLEDAKEEASKLASSQEKKDSEIERLEIELEK  525 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHhhccchhhhHHHHHHHHHHH
Confidence            111111111        123344444445555555555555555543              22    3445555566666


Q ss_pred             HHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHH-------HHHHHHHHHHhHH
Q 023704          176 ERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ-------QIERLQAELANAE  226 (278)
Q Consensus       176 LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~-------e~eklrael~n~~  226 (278)
                      .+.++.++.+.++-. ..+++.....+.+|+-......       |||+|+.-|-+++
T Consensus       526 ~rek~~kl~~ql~k~-~~~~e~~~r~~~Le~ev~~~~ee~~kaq~EVERLl~~L~~~E  582 (775)
T PF10174_consen  526 KREKHEKLEKQLEKL-RANAELRDRIQQLEQEVTRYREESEKAQAEVERLLDILREAE  582 (775)
T ss_pred             hhhHHHHHHHHHHHH-HhCHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666555541 2224555555566665444432       8888888777776

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 [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=96.87  E-value=0.32  Score=56.05  Aligned_cols=104  Identities=21%  Similarity=0.349  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q  202 (278)
                      .|..+...+++-...+.++......++.++..++..    ..+...|..++....-|+.++.+.++.|+..-..+..+++
T Consensus      1021 ~l~~le~~le~e~~~r~e~Ek~~rkle~el~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~ 1100 (1930)
T KOG0161|consen 1021 QLDDLEVTLEREKRIRMELEKAKRKLEGELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIK 1100 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            333344444444444455554444555555333322    2344555555556666666666667777666666666666


Q ss_pred             HHHHhHHHHHHHHHHHHHHHHhHHhhHH
Q 023704          203 IMEKNIISVAQQIERLQAELANAEKRAR  230 (278)
Q Consensus       203 ~meknl~~m~~e~eklrael~n~~~r~~  230 (278)
                      -++.-+.-...++|..|+-.+.+++.-|
T Consensus      1101 eL~~~i~el~e~le~er~~r~K~ek~r~ 1128 (1930)
T KOG0161|consen 1101 ELEARIKELEEELEAERASRAKAERQRR 1128 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666677777777766665443

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

Probab=96.87  E-value=0.27  Score=42.83  Aligned_cols=61  Identities=15%  Similarity=0.375  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHh
Q 023704          122 ESMHAELDRVRADIE-KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       122 e~lk~El~qlr~ei~-~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~  182 (278)
                      ..++.|+.+++++++ .+.-.+.+...+...++..+.+.+.. ...+..|+.+|+++|-++-+
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            345666666666665 23344556667777777777777766 66677777777777766544

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

Probab=96.84  E-value=0.095  Score=55.07  Aligned_cols=124  Identities=21%  Similarity=0.288  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      +-+....|++||......++-|..++.+++...--+--+|-.-.-..|-.+-.+..+.++|..++.-+.+|.-++++|..
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            55667788899999999999998888887776522222221111122222333444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          148 DLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       148 evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ++.....-...-....+.|.++..+-+.+++.|...--.++-|+
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            44443322211111123344444444555555554444444443

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

Probab=96.84  E-value=0.28  Score=45.12  Aligned_cols=81  Identities=17%  Similarity=0.302  Sum_probs=40.7

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023704          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (278)
Q Consensus       105 r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~r  184 (278)
                      +++=+|..+.+-.+.++... .++.+|..+++.+......|..++..+...+.+..   .++..++..+..+...+...+
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            44445555555555333333 25555666666666655555555555554444422   233444445555555555555


Q ss_pred             hhhhh
Q 023704          185 AAIEC  189 (278)
Q Consensus       185 aa~e~  189 (278)
                      ..++.
T Consensus       145 ~~~e~  149 (239)
T COG1579         145 ARLEE  149 (239)
T ss_pred             HHHHH
Confidence            54443

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

Probab=96.79  E-value=0.34  Score=49.44  Aligned_cols=111  Identities=18%  Similarity=0.229  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           77 QELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAEL----RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEI  152 (278)
Q Consensus        77 qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleael----r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~L  152 (278)
                      +++..+..++.....++..++++...    +--++.+||-|+    +.+.-+..+|..++..+..-...+.++..+++.|
T Consensus       134 k~~~~~re~~~~~~~~l~~leAe~~~----~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~L  209 (546)
T KOG0977|consen  134 KERRGAREKLDDYLSRLSELEAEINT----LKRRIKALEDELKRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTL  209 (546)
T ss_pred             HHHhhhHHHHHHHhhhhhhhhhHHHH----HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            33333344444444444444444322    333445555553    2234556666666666666667788888888888


Q ss_pred             HHHHHHHhhh-hccHHHHHHHH-------------HHHHHHHHhhhhhhhhhh
Q 023704          153 NGDLAKARDE-SKDMAAIKAEI-------------ETERQEIHKGRAAIECEK  191 (278)
Q Consensus       153 ekDL~~~~~d-~~kl~~LkaEI-------------e~LrqEl~~~raa~e~ek  191 (278)
                      .++|.=+... .+-|.+++.-.             ..|+..|...|+.||---
T Consensus       210 leel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F~~eL~~Ai~eiRaqye~~~  262 (546)
T KOG0977|consen  210 LEELAFLKRIHKQEIEEERRKARRDTTADNREYFKNELALAIREIRAQYEAIS  262 (546)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888877666 55555554433             456667777777666443

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

Probab=96.76  E-value=0.64  Score=45.61  Aligned_cols=156  Identities=20%  Similarity=0.247  Sum_probs=93.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           59 QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKL  138 (278)
Q Consensus        59 q~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l  138 (278)
                      +.--.+.+..-.....+++++.-++++|.++..+..+.++.-    .-|.+...++++++.+   +-++-.+|+..+..|
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            333344444555666777888888888888888777766653    3488888899999665   555555666667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHH-------HHHHHHhhhhhhhhhh---hhc----hhhHHHHHHH
Q 023704          139 CVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIET-------ERQEIHKGRAAIECEK---KNR----ASNHEQREIM  204 (278)
Q Consensus       139 ~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~-------LrqEl~~~raa~e~ek---k~~----~e~~eq~q~m  204 (278)
                      .....+|...-.+|+++-..+..-...+..+..|+-.       +.++++..-+.|..--   .++    .+.-+++|..
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            7777777777777776665555443344444444322       3333333333322111   111    2334566777


Q ss_pred             HHhHHHHHHHHHHHHHH
Q 023704          205 EKNIISVAQQIERLQAE  221 (278)
Q Consensus       205 eknl~~m~~e~eklrae  221 (278)
                      |.-...+-+||+.|.+=
T Consensus       265 Et~q~~leqeva~le~y  281 (499)
T COG4372         265 ETAQARLEQEVAQLEAY  281 (499)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777777776543

>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=96.74  E-value=0.38  Score=51.95  Aligned_cols=60  Identities=15%  Similarity=0.416  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      +.+.+.....+|..++...++.|......    ..+++.|++.|.+...++..+.+.+..+|+.
T Consensus       816 e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k  879 (1174)
T KOG0933|consen  816 EYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAK  879 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHH
Confidence            33333333444444444444433333222    3445555555555555566666666666544

>PHA02562 46 endonuclease subunit; Provisional

Probab=96.74  E-value=0.38  Score=48.23  Aligned_cols=52  Identities=19%  Similarity=0.173  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ekl  218 (278)
                      ...+..|+.+..++..++..++.-.....+..+.++..+..|..+-.++..+
T Consensus       347 ~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~  398 (562)
T PHA02562        347 STNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSEL  398 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444555555544445555555555555555544443333

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

Probab=96.74  E-value=0.56  Score=47.56  Aligned_cols=116  Identities=19%  Similarity=0.276  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Q 023704           69 AATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI-------  141 (278)
Q Consensus        69 a~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~-------  141 (278)
                      -..|...-.+|...++||..+...+.+.-.++..-....-+-...++...+.++.|..||..++..+......       
T Consensus       122 ~~q~~~~~~eL~~~k~EL~~lr~e~~~~~~~k~~A~~~aeea~~~a~~~~~kve~L~~Ei~~lke~l~~~~~a~~eAeee  201 (522)
T PF05701_consen  122 REQYASAVAELDSVKQELEKLRQELASALDAKNAALKQAEEAVSAAEENEEKVEELSKEIIALKESLESAKLAHIEAEEE  201 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666677888888888888888877666644444444445555666677777777777766666554322       


Q ss_pred             ------------------HHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhh
Q 023704          142 ------------------KQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       142 ------------------rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                                        ..+...++..|..++.. ..+ ..++.....+|..|+.++.....
T Consensus       202 ~~~~~~~~~~~~~~~~~~leeae~~l~~L~~e~~~-~k~Le~kL~~a~~~l~~Lq~El~~~~~  263 (522)
T PF05701_consen  202 RIEIAAEREQDAEEWEKELEEAEEELEELKEELEA-AKDLESKLAEASAELESLQAELEAAKE  263 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                              22233334444444421 222 45555666666666666655554

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

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

Probab=96.74  E-value=0.83  Score=48.79  Aligned_cols=114  Identities=17%  Similarity=0.238  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHhhhhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHH
Q 023704          101 DAEVRELYEKSLKLDAE----LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAE  172 (278)
Q Consensus       101 e~~~r~l~~k~~kleae----lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaE  172 (278)
                      +.++-.+-++..++..+    ++.++.+-+.+.-.+..+.++.....+|..++..+.....++...    ...+..++.|
T Consensus       423 e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~E  502 (980)
T KOG0980|consen  423 ENRYEKLKEKYTELRQEHADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQE  502 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            34444455555555444    466666666666666666677777777778888887777775432    5667888888


Q ss_pred             HHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHH
Q 023704          173 IETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQ  214 (278)
Q Consensus       173 Ie~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e  214 (278)
                      +..+..++.++...+..---.++..+.|.-..+++=++.+.+
T Consensus       503 l~~l~~e~~~lq~~~~~~~qs~~~~~~~l~~~l~~KD~~~~~  544 (980)
T KOG0980|consen  503 LALLLIELEELQRTLSNLAQSHNNQLAQLEDLLKQKDRLAAE  544 (980)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            888888888888887777777777888887777776665553

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

Probab=96.68  E-value=0.76  Score=45.48  Aligned_cols=45  Identities=20%  Similarity=0.150  Sum_probs=20.3

Q ss_pred             HHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          176 ERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       176 LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      +++|-++..+.++-+..+....++.+++=+.   ++..+|.+++++++
T Consensus       204 ~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~---~L~~~Ias~e~~aA  248 (420)
T COG4942         204 LLEERKKTLAQLNSELSADQKKLEELRANES---RLKNEIASAEAAAA  248 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH---HHHHHHHHHHHHHH
Confidence            3333344444444444444444444444332   34455666665555

>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=96.67  E-value=0.62  Score=51.09  Aligned_cols=34  Identities=15%  Similarity=0.322  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL  156 (278)
                      .+++|+..++.++..+.....+..++++..+.+|
T Consensus       476 ~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel  509 (1293)
T KOG0996|consen  476 GIREEIEKLEKELMPLLKQVNEARSELDVAESEL  509 (1293)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444433

>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=96.65  E-value=0.3  Score=40.55  Aligned_cols=76  Identities=17%  Similarity=0.222  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e  199 (278)
                      ....-+.|..++.++..+.....+|..++......+...... ..+-..|..+|+.++.       .|+....-|.=+..
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            333345777777777777777777777777777777665544 4444555555544444       44444445555555


Q ss_pred             HHHH
Q 023704          200 QREI  203 (278)
Q Consensus       200 q~q~  203 (278)
                      |++.
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=96.64  E-value=0.35  Score=41.03  Aligned_cols=36  Identities=25%  Similarity=0.309  Sum_probs=17.9

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           64 DNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        64 dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                      ....+-+....|.++|...+.++..+.....+.+++
T Consensus        18 e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~e   53 (140)
T PF10473_consen   18 EKDSLEDHVESLERELEMSQENKECLILDAENSKAE   53 (140)
T ss_pred             hHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            334444455555555555555555554444444443

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

>PRK09039 hypothetical protein; Validated

Probab=96.62  E-value=0.5  Score=45.47  Aligned_cols=40  Identities=18%  Similarity=0.212  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      ....+.+....+.++..|......|..++..|+..|...+
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            4444444444455555555555555555555555544433

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

Probab=96.62  E-value=1.5  Score=48.79  Aligned_cols=125  Identities=18%  Similarity=0.231  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           69 AATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELR-VIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        69 a~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr-~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      ..+...+.++|....+.|..............+.....+-....+++.+.. ....+..++..+.+++.........+..
T Consensus       255 ~~~l~~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~l~~~~~~L~~i~~  334 (1201)
T PF12128_consen  255 YRQLQALEQQLCHLHAELNADEQQLEQEQPELKEELNELNEELEKLEDEIKELRDELNKELSALNADLARIKSELDEIEQ  334 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444443333333333333333333333221 1233333444444444444444444444


Q ss_pred             HHHHHHH-HHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          148 DLNEING-DLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       148 evq~Lek-DL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      +-..-++ ||..+..+..++|.++.+++.++.++.-+.+.+..-...
T Consensus       335 ~~~~ye~~~i~~~~~~~~~l~~~~~~~~~l~~~~~~Lt~~~~di~~k  381 (1201)
T PF12128_consen  335 QKKDYEDADIEQLIARVDQLPEWRNELENLQEQLDLLTSKHQDIESK  381 (1201)
T ss_pred             HHHHHHHCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444333 455555666777777777777777777666665544433

>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=96.54  E-value=0.25  Score=41.98  Aligned_cols=54  Identities=22%  Similarity=0.350  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        47 Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      |+..|.....+......++.-.-+....|+.+|.....+++.|..-+.+++.++
T Consensus        29 LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk   82 (140)
T PF10473_consen   29 LERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEK   82 (140)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444443344444444444444444455555555555555554444444443

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

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

Probab=96.52  E-value=0.61  Score=42.38  Aligned_cols=107  Identities=21%  Similarity=0.347  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--h--hccHHHHHHHHHHHHHHHHhhhhhhh------
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD--E--SKDMAAIKAEIETERQEIHKGRAAIE------  188 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~--d--~~kl~~LkaEIe~LrqEl~~~raa~e------  188 (278)
                      .+++.+...+..+...+........+...++..++.+|.+...  +  .+++..|..+|..+...+..+....+      
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            3455555666666666666666666666666666666655432  2  46666666666666666665555443      


Q ss_pred             --hhhhhchhhHHH-------HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          189 --CEKKNRASNHEQ-------REIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       189 --~ekk~~~e~~eq-------~q~meknl~~m~~e~eklrael~n~~  226 (278)
                        ||.+. ..+.++       ....|++...+-++|++|..+|....
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       22345555555666666666665554

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 ....

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.52  E-value=1.2  Score=50.59  Aligned_cols=106  Identities=9%  Similarity=0.133  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhh---hhhh------
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKG---RAAI------  187 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~---raa~------  187 (278)
                      .+.+..++......+.++.....++..++..++.++..++..    .+.+..++.++..+++.+.++   +.-|      
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    233444444444444444333   3333      


Q ss_pred             -hhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          188 -ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       188 -e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                       +.-+......-++++.++..+-.+-+++.++.+++...+
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             222333333344555555555555555555555554444

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

Probab=96.52  E-value=1.1  Score=48.55  Aligned_cols=89  Identities=17%  Similarity=0.241  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHH
Q 023704          131 VRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       131 lr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      +|++|.++.....+.......|.+|+.++.++    ..++.+|...|+..+-.+...-+.+-..|...-+++..++.   
T Consensus       395 ir~ei~~l~~~i~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~---  471 (1200)
T KOG0964|consen  395 IRSEIEKLKRGINDTKEQENILQKEIEDLESELKEKLEEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKE---  471 (1200)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence            45556666666666666666666666665554    44567777777777777777777777777777777777776   


Q ss_pred             hHHHHHHHHHHHHHHHHhHH
Q 023704          207 NIISVAQQIERLQAELANAE  226 (278)
Q Consensus       207 nl~~m~~e~eklrael~n~~  226 (278)
                          ..||=-+||..|+|.+
T Consensus       472 ----lWREE~~l~~~i~~~~  487 (1200)
T KOG0964|consen  472 ----LWREEKKLRSLIANLE  487 (1200)
T ss_pred             ----HHHHHHHHHHHHHHHH
Confidence                5555555555555443

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

Probab=96.51  E-value=0.51  Score=48.13  Aligned_cols=146  Identities=18%  Similarity=0.239  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHHHH-HHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           73 VALKQELSLAEQELRH-LSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus        73 ~~L~qEL~laqhEL~~-l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~  151 (278)
                      ..+-+||...-.+.-. ....+.+.+.    .-|+|++++.-.|++=.+.+.+++....++.|+.+..+....+..+-+.
T Consensus       216 ~~~~~Elk~~l~~~~~~i~~~ie~l~~----~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~  291 (581)
T KOG0995|consen  216 SELEDELKHRLEKYFTSIANEIEDLKK----TNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQH  291 (581)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHH
Confidence            3444454433333222 3344444433    3467888877667777778888888888999999999999999999999


Q ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH----HHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          152 INGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR----EIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       152 LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~----q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +++.|...+.+   +.+-..|++.++++...++..|+.- +-..+-+++|    +..++++..|..++++|+-++=+.+
T Consensus       292 ~~~~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  292 MEKKLEMLKSE---IEEKEEEIEKLQKENDELKKQIELQ-GISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELK  366 (581)
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            99999887766   3344455666666666666666543 3444444443    5677788888888888887776555

>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=96.50  E-value=0.6  Score=49.24  Aligned_cols=62  Identities=21%  Similarity=0.362  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhh----hhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEK----KNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ek----k~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      +..|+.-|+.++..+.+.+..++..+    +...=--.|++.+...|-.++.+|..|.-++-+-.+
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            45556666666666665555554222    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 [].

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

Probab=96.50  E-value=0.35  Score=46.26  Aligned_cols=27  Identities=4%  Similarity=0.140  Sum_probs=16.4

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          200 QREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       200 q~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +....+..+..+..+++.++..+.+..
T Consensus       247 ~l~~~~~~l~~~~~~l~~~~~~l~~~~  273 (423)
T TIGR01843       247 ELTEAQARLAELRERLNKARDRLQRLI  273 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcE
Confidence            445555556666666677777775544

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.

>PF13514 AAA_27: AAA domain

Probab=96.44  E-value=1.6  Score=48.01  Aligned_cols=132  Identities=21%  Similarity=0.301  Sum_probs=72.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHH-----HHHHHHHHHhhhhHHHHHH-----------
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD-----AEVRELYEKSLKLDAELRV-----------  120 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e-----~~~r~l~~k~~kleaelr~-----------  120 (278)
                      ++++.+.+......++..+++++..+++++..+...+.....+..     .....++.....+++++..           
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            445555555666677777777777777777777777776666642     2233345555555555432           


Q ss_pred             ----------HHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH
Q 023704          121 ----------IESMHAELDRVRADIEKLCVIKQ---------EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH  181 (278)
Q Consensus       121 ----------~e~lk~El~qlr~ei~~l~~~rq---------eL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~  181 (278)
                                ......++..++.++..+.....         .....|..|......+......++.+..++..++.++.
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                      22222233333333333332222         12333444455555555556667777778877777777


Q ss_pred             hhhhhhh
Q 023704          182 KGRAAIE  188 (278)
Q Consensus       182 ~~raa~e  188 (278)
                      .+...+.
T Consensus       321 ~~~~~lg  327 (1111)
T PF13514_consen  321 ALLAQLG  327 (1111)
T ss_pred             HHHHhcC
Confidence            7766665

>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=96.42  E-value=0.48  Score=48.41  Aligned_cols=158  Identities=15%  Similarity=0.234  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHhH-HHHHHHHHHHhh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           74 ALKQELSLAEQELRHLSSVAASVKAER-DAEVRELYEKSL----KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKD  148 (278)
Q Consensus        74 ~L~qEL~laqhEL~~l~~~i~~~~ae~-e~~~r~l~~k~~----kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~e  148 (278)
                      .+..+|...+..|..+...+....-+. +..+..+.+++-    .||.|+.+...+.+.+..+...+..+...-+.|..+
T Consensus       249 ~i~~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e  328 (560)
T PF06160_consen  249 DIEEEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEE  328 (560)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555554443332 122222222222    347777777888888888888888888777778777


Q ss_pred             HHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH-
Q 023704          149 LNEINGDLAKARD-ESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE-  226 (278)
Q Consensus       149 vq~LekDL~~~~~-d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~-  226 (278)
                      +..+.+-- .+.. +......+..+|+.+...+......++..+..+.+..+.++.+.++|..+-.+...+...|.+.. 
T Consensus       329 ~~~v~~sY-~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~  407 (560)
T PF06160_consen  329 LERVSQSY-TLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRK  407 (560)
T ss_pred             HHHHHHhc-CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777654 3333 37788889999999999999999999999999999988888888888888777777776666653 


Q ss_pred             --hhHHHH
Q 023704          227 --KRARAA  232 (278)
Q Consensus       227 --~r~~a~  232 (278)
                        ++||-.
T Consensus       408 dE~~Ar~~  415 (560)
T PF06160_consen  408 DEKEAREK  415 (560)
T ss_pred             HHHHHHHH
Confidence              445443

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

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

Probab=96.41  E-value=1.5  Score=48.82  Aligned_cols=65  Identities=26%  Similarity=0.303  Sum_probs=36.5

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH---HHHH-HHhHHHHHHHHHHHHHHHHhHHhhH
Q 023704          165 DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ---REIM-EKNIISVAQQIERLQAELANAEKRA  229 (278)
Q Consensus       165 kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq---~q~m-eknl~~m~~e~eklrael~n~~~r~  229 (278)
                      ...++...|+.+++++...+..++-+++..-..+.+   .+.. +.-+....++|+.|..+|...+.+.
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            345555566666666666666666555443332221   0111 2245556678888888887777543

>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=96.40  E-value=0.93  Score=43.15  Aligned_cols=163  Identities=21%  Similarity=0.278  Sum_probs=94.1

Q ss_pred             HH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hhhHhHHH--------------HHHHHHHHhhhh
Q 023704           57 DI-QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-------SVKAERDA--------------EVRELYEKSLKL  114 (278)
Q Consensus        57 eI-q~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~-------~~~ae~e~--------------~~r~l~~k~~kl  114 (278)
                      .| +.++..|+.|......|.++|..+...+..|++.+.       -.....|.              .......+...+
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 888888999988888888888777666666655443       11100000              000001122233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       115 eaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      ++=-+++..++.|-.++|.++..|......+..+-+.|..|..+--++ ++++..|..||..-..+..+....|      
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 6666666666644444443333333      


Q ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          194 RASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       194 ~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                       ..++.|+-.+++.+=..+.|-|+|+.-|..+.
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             34455555555555556666666666655543

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 [].

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

Probab=96.38  E-value=1.9  Score=49.62  Aligned_cols=87  Identities=11%  Similarity=0.233  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHH
Q 023704          142 KQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQA  220 (278)
Q Consensus       142 rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklra  220 (278)
                      ++.+..+|..|+.+|.++..+ .++...++.-...+...+..+...|+-+++.+...+..+...++|+-.|-.++.-|-.
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            334444444444444444444 3333444444444444444455555555555555555555555555555555555555


Q ss_pred             HHHhHHhh
Q 023704          221 ELANAEKR  228 (278)
Q Consensus       221 el~n~~~r  228 (278)
                      .|...+.|
T Consensus       880 ~l~~~~~~  887 (1822)
T KOG4674|consen  880 RLKSAKTQ  887 (1822)
T ss_pred             HHHHhHHH
Confidence            55444433

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=96.34  E-value=0.9  Score=42.31  Aligned_cols=15  Identities=27%  Similarity=0.310  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHhHH
Q 023704          212 AQQIERLQAELANAE  226 (278)
Q Consensus       212 ~~e~eklrael~n~~  226 (278)
                      .-|.--||-||+--.
T Consensus       170 kdEardlrqelavr~  184 (333)
T KOG1853|consen  170 KDEARDLRQELAVRT  184 (333)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            348888888887665

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

Probab=96.33  E-value=0.78  Score=46.71  Aligned_cols=154  Identities=19%  Similarity=0.302  Sum_probs=92.6

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH----------HHHHHHHHHHhhhhHHHHHHHH----
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER----------DAEVRELYEKSLKLDAELRVIE----  122 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~----------e~~~r~l~~k~~kleaelr~~e----  122 (278)
                      +|...-.++++|......|+.+|.-+..-+--++....++.+.-          |+-+-.--+++.|||++|....    
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            78888899999999999999998888877777777777666653          3333334478889998874332    


Q ss_pred             ------HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023704          123 ------SMHAELDRVRADIEK---LCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (278)
Q Consensus       123 ------~lk~El~qlr~ei~~---l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk  192 (278)
                            .+-..|.++..++..   +...-+.+....=.|.++......| ..|+.+|.-.+..-....+.+-----.|||
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                  222233333333333   3333333333344466667767777 778877765444333333333333344566


Q ss_pred             hchhhHHHHHHHHHhHHH
Q 023704          193 NRASNHEQREIMEKNIIS  210 (278)
Q Consensus       193 ~~~e~~eq~q~meknl~~  210 (278)
                      .++-.++....=|-++.+
T Consensus       492 k~aq~lee~rrred~~~d  509 (654)
T KOG4809|consen  492 KNAQLLEEVRRREDSMAD  509 (654)
T ss_pred             HHHHHHHHHHHHHhhhcc
Confidence            666666555555555443

>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=96.32  E-value=1.7  Score=45.37  Aligned_cols=165  Identities=15%  Similarity=0.257  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Q 023704           51 IAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDR  130 (278)
Q Consensus        51 L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~q  130 (278)
                      +......-.+.+..-+.|-.+-..|+++|+..+.++..-...+..---.+|.-.|.+.--..+.+..   +..++..+..
T Consensus       522 i~~~k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~Ev~~kl~ksEen~r~~e~e~~~k~kq---~k~lenk~~~  598 (786)
T PF05483_consen  522 INNSKKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGEEVKCKLDKSEENARSIECEILKKEKQ---MKILENKCNN  598 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHHhhhHHH---HHHHHHHHHH
Confidence            3333333444555555566666667777777777776665554443334444444443333333333   4455556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHH
Q 023704          131 VRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS  210 (278)
Q Consensus       131 lr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~  210 (278)
                      ++..+........+|..+-..|.+.+.-   +..|+..+.-.|..|+.|+..+..-++.+...+..-++.-.+-|-||. 
T Consensus       599 LrKqvEnk~K~ieeLqqeNk~LKKk~~a---E~kq~~~~eikVn~L~~E~e~~kk~~eE~~~~~~keie~K~~~e~~L~-  674 (786)
T PF05483_consen  599 LRKQVENKNKNIEELQQENKALKKKITA---ESKQSNVYEIKVNKLQEELENLKKKHEEETDKYQKEIESKSISEEELL-  674 (786)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhhhHHHHH-
Confidence            6666666666666677777776666543   578888888888999999999999999998888888888888776654 


Q ss_pred             HHHHHHHHHHHHHh
Q 023704          211 VAQQIERLQAELAN  224 (278)
Q Consensus       211 m~~e~eklrael~n  224 (278)
                        -||+|+|.-..-
T Consensus       675 --~EveK~k~~a~E  686 (786)
T PF05483_consen  675 --GEVEKAKLTADE  686 (786)
T ss_pred             --HHHHHHHHHHHH
Confidence              477777765443

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.31  E-value=1.1  Score=42.85  Aligned_cols=107  Identities=18%  Similarity=0.291  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHH-HHHHHHHHHHHHHhhhhhhhhhhhhchhhHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAA-IKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~-LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e  199 (278)
                      ++.|+.+-..+...++.+....-+|....+.|+.++..++.-...+.. -..+++.+|.+|...-..++.-++.-.+.-+
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 0223344444444444444444444445555


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          200 QREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       200 q~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      |++..+..+-....+...++.+|+.+++
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.

>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=96.29  E-value=0.086  Score=43.58  Aligned_cols=72  Identities=17%  Similarity=0.338  Sum_probs=59.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      +|-+.||   .+..|+..++.++..+...|..+..+|-.++.+..++.+..++++.|+.+++.|.+.+..+---+
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   44578899999999999999999999999999999988888999999999999988777665444

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 [].

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=96.25  E-value=1.4  Score=43.67  Aligned_cols=126  Identities=18%  Similarity=0.220  Sum_probs=80.3

Q ss_pred             hHhHHHHHHHHHHHhhhhHHH--HHHH--HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhh----------
Q 023704           97 KAERDAEVRELYEKSLKLDAE--LRVI--ESMHAELDRVRADIEKLC-VIKQEMIKDLNEINGDLAKARD----------  161 (278)
Q Consensus        97 ~ae~e~~~r~l~~k~~kleae--lr~~--e~lk~El~qlr~ei~~l~-~~rqeL~~evq~LekDL~~~~~----------  161 (278)
                      ..++|-++-.|+.|+.|+|++  ++.+  +.++.|..++..-+++-+ +....|-..+++|++|-.-++.          
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            356677888899999999987  3444  667777766665554322 2244444455555544322221          


Q ss_pred             ---h--------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHH-HHHHHHHHHHHH
Q 023704          162 ---E--------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIIS-VAQQIERLQAEL  222 (278)
Q Consensus       162 ---d--------~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~-m~~e~eklrael  222 (278)
                         |        +.--.+++.-|+.|+.|+.|+|+.+--=.|-+.+.+-|..+=|+++-. -.|+-+||.-|+
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        122246677788888888888888887778888888777777766543 344555666665

>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=96.25  E-value=2.1  Score=45.64  Aligned_cols=180  Identities=19%  Similarity=0.293  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      +..++-+|..-..||..+-..++-+...+..+++.|++.+..|...+.+..-+.++.|.-.-.|=++..-++.-=..++.
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            33444444444457777888888888888888888888888888888888888887765555554444444333333444


Q ss_pred             HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH-----------Hh--hhhccHHHHHHHHHHHHHHHHhh
Q 023704          124 MHAELDRVRADIEKLCV-------IKQEMIKDLNEINGDLAK-----------AR--DESKDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~-------~rqeL~~evq~LekDL~~-----------~~--~d~~kl~~LkaEIe~LrqEl~~~  183 (278)
                      +..|...+..+|.++..       ....|..+|..|+..+.+           +.  .|..+...+...|+..-.+..+.
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  22233334445555555666666


Q ss_pred             hhhhhhhhhh-chhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          184 RAAIECEKKN-RASNHEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       184 raa~e~ekk~-~~e~~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      +..++....- ..+..++...+.+-+-..-.+++.|..+|.
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            6555533211 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=96.23  E-value=0.91  Score=41.24  Aligned_cols=104  Identities=13%  Similarity=0.237  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhch
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRA  195 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~  195 (278)
                      ++..+..+|..+...+..+.....+|..++..+...|..+..-    ..+...+...|..|...+..+...+++--.--.
T Consensus       121 kl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~  200 (237)
T PF00261_consen  121 KLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAERRVK  200 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444455555555555555555555555555554422    455678888889999999988888887776666


Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      .+-.+...+|..|...-....+++.||.
T Consensus       201 ~Le~~id~le~eL~~~k~~~~~~~~eld  228 (237)
T PF00261_consen  201 KLEKEIDRLEDELEKEKEKYKKVQEELD  228 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666677777777777777777777774

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 ....

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

Probab=96.21  E-value=0.4  Score=50.38  Aligned_cols=12  Identities=25%  Similarity=0.282  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHhH
Q 023704          214 QIERLQAELANA  225 (278)
Q Consensus       214 e~eklrael~n~  225 (278)
                      |+|-|-..|+-+
T Consensus       588 ~~e~L~~aL~am  599 (697)
T PF09726_consen  588 DTEVLMSALSAM  599 (697)
T ss_pred             hHHHHHHHHHHH
Confidence            566666666555

; GO: 0016021 integral to membrane

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

Probab=96.19  E-value=0.63  Score=53.23  Aligned_cols=134  Identities=16%  Similarity=0.231  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHH
Q 023704           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESM  124 (278)
Q Consensus        45 ~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~l  124 (278)
                      -....+++....++..+=.++.-+..+-..|.+++.....+.+.++..+..+++-....-+...+.-.++|         
T Consensus       734 ~~a~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~~~l~~e~~~L~~~l~~lQt~~~~~e~s~~~~k~~~e---------  804 (1822)
T KOG4674|consen  734 LSANEKLEKLEAELSNLKQEKLLLKETEERLSQELEKLSAEQESLQLLLDNLQTQKNELEESEMATKDKCE---------  804 (1822)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            35556666667788888888888888888899988888888888888888777777666666644444444         


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                       ..|.++..+++.|....++...++..++.++..--.+ ..++..+..+++.+..++..++..|+
T Consensus       805 -~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~  868 (1822)
T KOG4674|consen  805 -SRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIA  868 (1822)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             4444444444444444444444444444444432223 34444444444444444444444443

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.17  E-value=1.5  Score=43.33  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=17.1

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhh
Q 023704          165 DMAAIKAEIETERQEIHKGRAAIEC  189 (278)
Q Consensus       165 kl~~LkaEIe~LrqEl~~~raa~e~  189 (278)
                      .+..++.+|..++.++..++..+.-
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.

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

Probab=96.14  E-value=0.7  Score=39.15  Aligned_cols=28  Identities=18%  Similarity=0.337  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          131 VRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       131 lr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      +..+|..|....+.|..+|..++..|..
T Consensus        33 ~E~EI~sL~~K~~~lE~eld~~~~~l~~   60 (143)
T PF12718_consen   33 KEQEITSLQKKNQQLEEELDKLEEQLKE   60 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

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 [].

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.14  E-value=0.85  Score=40.62  Aligned_cols=70  Identities=17%  Similarity=0.231  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-ESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~-d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      -..+.+..+|..+...++......+.|..++.-..+...+--. +..|..++..++..+..|+.++...+.
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            3355666666666666666666666666666666665555333 367777777777777777777766553

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

Probab=96.11  E-value=0.5  Score=41.02  Aligned_cols=33  Identities=27%  Similarity=0.390  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        67 rla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                      ++..+-..+++.|....+++..+...+.....+
T Consensus        78 ~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~  110 (191)
T PF04156_consen   78 RLQGELSELQQQLQQLQEELDQLQERIQELESE  110 (191)
T ss_pred             hhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444445555555555555555555443333

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 [].

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

Probab=96.09  E-value=0.11  Score=49.54  Aligned_cols=92  Identities=16%  Similarity=0.311  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHH
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~m  204 (278)
                      ..++.++..+++.+.....++..++..++++-.++..+   +..|+.+.+.+.++-.+.-..+-.-+....+..+..+.+
T Consensus        42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~e---l~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl  118 (314)
T PF04111_consen   42 EEDIEELEEELEKLEQEEEELLQELEELEKEREELDQE---LEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSL  118 (314)
T ss_dssp             HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555554443322   333444444443333322222222222233334444555


Q ss_pred             HHhHHHHHHHHHHHH
Q 023704          205 EKNIISVAQQIERLQ  219 (278)
Q Consensus       205 eknl~~m~~e~eklr  219 (278)
                      +..+..+..++++||
T Consensus       119 ~~q~~~~~~~L~~L~  133 (314)
T PF04111_consen  119 KNQYEYASNQLDRLR  133 (314)
T ss_dssp             HHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            555555555555554

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.

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

Probab=96.04  E-value=0.29  Score=43.94  Aligned_cols=19  Identities=37%  Similarity=0.585  Sum_probs=14.5

Q ss_pred             HhHHHHHHHHHHHHHHHHh
Q 023704          206 KNIISVAQQIERLQAELAN  224 (278)
Q Consensus       206 knl~~m~~e~eklrael~n  224 (278)
                      ..+-++-+|||.||+||.-
T Consensus       131 ~~~~~l~~e~erL~aeL~~  149 (202)
T PF06818_consen  131 DELGSLRREVERLRAELQR  149 (202)
T ss_pred             ccchhHHHHHHHHHHHHHH
Confidence            4466777888888888874

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

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.04  E-value=3.1  Score=47.00  Aligned_cols=18  Identities=22%  Similarity=0.497  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSL   61 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~l   61 (278)
                      ...|+.+|+....+|..+
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.

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

Probab=96.00  E-value=2.1  Score=47.35  Aligned_cols=64  Identities=19%  Similarity=0.253  Sum_probs=37.9

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      ..++..|+..-..+.++...++...+-++..+.+..+-....+..+-+.-...+.+..++.+++
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            3445555555555555666666666666666666666666666666666555555555555554

>PRK01156 chromosome segregation protein; Provisional

Probab=96.00  E-value=2.6  Score=45.07  Aligned_cols=77  Identities=16%  Similarity=0.251  Sum_probs=40.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~  189 (278)
                      .++..+...+..+.++...+.++.++.....++..++..+.....++.....++..++.+++.+..++..++..++.
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            44555555556666666666666666666666666666665544444333444444444444444444444444433

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

Probab=95.99  E-value=0.9  Score=46.40  Aligned_cols=104  Identities=18%  Similarity=0.268  Sum_probs=54.0

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023704          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEI---NGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       107 l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~L---ekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~  183 (278)
                      +-.|...|+..   ++.++.|+.....+++.+.....+|..+|..-   -.|+.+.+.   -..+|..+|+.+..++.++
T Consensus       285 ~~~k~~~~~~~---l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~---Er~~l~r~l~~i~~~~d~l  358 (581)
T KOG0995|consen  285 MKSKKQHMEKK---LEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMNL---ERNKLKRELNKIQSELDRL  358 (581)
T ss_pred             HHhhhHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence            44444445444   77888888888888888888888888776532   112222222   2233444444444444444


Q ss_pred             hhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHH
Q 023704          184 RAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       184 raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklr  219 (278)
                      +..+-..+-...+   +-+..|+-++-.+.-+-+|.
T Consensus       359 ~k~vw~~~l~~~~---~f~~le~~~~~~~~l~~~i~  391 (581)
T KOG0995|consen  359 SKEVWELKLEIED---FFKELEKKFIDLNSLIRRIK  391 (581)
T ss_pred             HHHHHhHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence            4444333332222   33344455554444444443

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

Probab=95.99  E-value=1.8  Score=42.58  Aligned_cols=101  Identities=15%  Similarity=0.258  Sum_probs=66.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH----------HHHHHHHHHHhhhhHHHHHHHHHHHH
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER----------DAEVRELYEKSLKLDAELRVIESMHA  126 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~----------e~~~r~l~~k~~kleaelr~~e~lk~  126 (278)
                      +.-+-..+..++.++...|+.+|.-.-.+-+-+.....++.+++          +.+.++|+-++.++|-+-+....-..
T Consensus       131 n~~kAqQ~lar~t~Q~q~lqtrl~~l~~qr~ql~aq~qsl~a~~k~LQ~s~~Qlk~~~~~L~~r~~~ieQ~~~~la~r~~  210 (499)
T COG4372         131 NLAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIEQEAQNLATRAN  210 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334455667777788888887766666666666666655553          56789999999999888766555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~  157 (278)
                      -+++...++....+..+.+..+|+..-+.+.
T Consensus       211 a~q~r~~ela~r~aa~Qq~~q~i~qrd~~i~  241 (499)
T COG4372         211 AAQARTEELARRAAAAQQTAQAIQQRDAQIS  241 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556666666666666666666655554443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.89  E-value=1.2  Score=39.71  Aligned_cols=155  Identities=19%  Similarity=0.239  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhhhH---hHHHHHHHHHHHhhhhHHHH--
Q 023704           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL---SSVAASVKA---ERDAEVRELYEKSLKLDAEL--  118 (278)
Q Consensus        47 Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l---~~~i~~~~a---e~e~~~r~l~~k~~kleael--  118 (278)
                      |.++-..++..|...--.|.+|+.....|++.+...+|-++..   ..-+.+++.   ..|.+-|.|+..+..+|.+-  
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            3344444444555555567777777777777777777666555   222333332   33667778877777777773  


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023704          119 --RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (278)
Q Consensus       119 --r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk  192 (278)
                        ..++.+..|-..+..+...+....++|..+...|...+-.|.+=    ++-+.+--..|+.|..-|...|+..+.-+-
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              33455555555566666666666666666666666666555532    333444444556666555555555555554


Q ss_pred             hchhhHHHH
Q 023704          193 NRASNHEQR  201 (278)
Q Consensus       193 ~~~e~~eq~  201 (278)
                      ....+-+|+
T Consensus       180 e~s~LEeql  188 (193)
T PF14662_consen  180 EKSRLEEQL  188 (193)
T ss_pred             HHHHHHHHH
Confidence            445555555

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

Probab=95.75  E-value=1.3  Score=46.65  Aligned_cols=79  Identities=23%  Similarity=0.381  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHH------HHHHHHH
Q 023704          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV------AQQIERL  218 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m------~~e~ekl  218 (278)
                      +..+|+.|++++++--.+.-..+.|+..++.|+.|+.++...=+-|-|.++|-++|-  +.+.|...      --=-|.|
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            356777777777776666555788999999999999888888888888888888762  23333221      2245778


Q ss_pred             HHHHHhH
Q 023704          219 QAELANA  225 (278)
Q Consensus       219 rael~n~  225 (278)
                      ++||+.+
T Consensus       725 ~~e~~~~  731 (762)
T PLN03229        725 EAELAAA  731 (762)
T ss_pred             HHHHHHh
Confidence            8888543

>PRK04863 mukB cell division protein MukB; Provisional

Probab=95.73  E-value=5.1  Score=45.77  Aligned_cols=103  Identities=11%  Similarity=0.100  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHH-------Hhhhhhhhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEI-------HKGRAAIECEKKN  193 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl-------~~~raa~e~ekk~  193 (278)
                      ++..+.++..+..++..+....+++..++..+.+.+..++....+.......++..++-+       ..+...++.-...
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            344444444444444444444444444444444444444444444444444444444333       2334444444444


Q ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          194 RASNHEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       194 ~~e~~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      -.+...++..+|..|-.+..+++.++....
T Consensus       451 lee~e~qL~elE~kL~~lea~leql~~~~~  480 (1486)
T PRK04863        451 EQEATEELLSLEQKLSVAQAAHSQFEQAYQ  480 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666777666666666666553

>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=0.55  Score=38.83  Aligned_cols=83  Identities=17%  Similarity=0.302  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhH
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~  198 (278)
                      .-++.|...|.++..++..+......|..+-..+..+|.++-..+..+.+...++..|+.++..+...++--=-..-|..
T Consensus        16 ~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~   95 (120)
T PF12325_consen   16 QLVERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGEKS   95 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchH
Confidence            44888899999999999999999999999999999999988888888888888888888888887776554433333444


Q ss_pred             HHH
Q 023704          199 EQR  201 (278)
Q Consensus       199 eq~  201 (278)
                      |+.
T Consensus        96 E~v   98 (120)
T PF12325_consen   96 EEV   98 (120)
T ss_pred             HHH
Confidence            433

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 [].

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

Probab=95.71  E-value=0.14  Score=45.10  Aligned_cols=46  Identities=13%  Similarity=0.176  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ekl  218 (278)
                      ..|..|+..|+-++..+...+.--++-|.++++..      |-.|++|+++|
T Consensus       147 e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw------m~~k~~eAe~m  192 (194)
T PF08614_consen  147 EILQDELQALQLQLNMLEEKLRKLEEENRELVERW------MQRKAQEAERM  192 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHh
Confidence            34566677777777777777777777777777654      23366677765

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.

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

Probab=95.70  E-value=0.44  Score=41.88  Aligned_cols=96  Identities=15%  Similarity=0.159  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc----hhhHHHH
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR----ASNHEQR  201 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~----~e~~eq~  201 (278)
                      +|+.++..+|..|....++|...+..++.+|..+++.. -++++..+|..|+.+...-|..++.-|.+.    .+-.+|.
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            58888999999999999999999999999999887653 367788888888888877777777777654    4667888


Q ss_pred             HHHHHhHHHHHHHHHHHHHHH
Q 023704          202 EIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       202 q~meknl~~m~~e~eklrael  222 (278)
                      .-|=...++|-|....+=-||
T Consensus       158 ~~~y~~~~~~wrk~krmf~ei  178 (201)
T KOG4603|consen  158 YREYQKYCKEWRKRKRMFREI  178 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888777665555

>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=95.68  E-value=1  Score=47.42  Aligned_cols=106  Identities=19%  Similarity=0.284  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhH
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~  198 (278)
                      ...+.+..+..+++.||+++....+.|-.+...|+.|-=.++...+-|+.-..|.++||.||.++.-.+++-+.---|..
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            44677778888888888888888888888888888887777777888888889999999999999999998876544444


Q ss_pred             HHHH----HHHHhHHHHHHHHH---HHHHHHHh
Q 023704          199 EQRE----IMEKNIISVAQQIE---RLQAELAN  224 (278)
Q Consensus       199 eq~q----~meknl~~m~~e~e---klrael~n  224 (278)
                      .-..    -||-=|-++-.|=|   .||-||..
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

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

Probab=95.66  E-value=3  Score=44.46  Aligned_cols=108  Identities=21%  Similarity=0.281  Sum_probs=80.9

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----------------h-hccHH
Q 023704          106 ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-----------------E-SKDMA  167 (278)
Q Consensus       106 ~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~-----------------d-~~kl~  167 (278)
                      ++.++.-+|+++   .+.+..++..|..+++.+....+++...+..|+.+|..++.                 + ..+++
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   45555556667777777777777777777777777665542                 1 34556


Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHH
Q 023704          168 AIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIE  216 (278)
Q Consensus       168 ~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~e  216 (278)
                      .+++|++.++..+..+...|+.||..+.|+...-+.+|-.|-++.++..
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.

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

Probab=95.65  E-value=3  Score=43.35  Aligned_cols=29  Identities=3%  Similarity=-0.028  Sum_probs=18.2

Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhHHHHH
Q 023704          174 ETERQEIHKGRAAIECEKKNRASNHEQRE  202 (278)
Q Consensus       174 e~LrqEl~~~raa~e~ekk~~~e~~eq~q  202 (278)
                      ..||+.|..+...|-.-.+.|+++...+|
T Consensus       163 ~eLK~QL~Elq~~Fv~ltne~~elt~~lq  191 (617)
T PF15070_consen  163 RELKEQLAELQDAFVKLTNENMELTSALQ  191 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHhhHHHH
Confidence            45666666666666666666666665554

>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=95.65  E-value=0.94  Score=43.41  Aligned_cols=122  Identities=16%  Similarity=0.195  Sum_probs=86.5

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHH-HHH----HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023704           62 LQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERD-AEV----RELYEKSLKLDAELRVIESMHAELDRVRADIE  136 (278)
Q Consensus        62 l~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e-~~~----r~l~~k~~kleaelr~~e~lk~El~qlr~ei~  136 (278)
                      -..|..|..+...|+|.|.-++-|+..|...+...+...+ ...    ++=-+-+..||.=-..++.+..++..+--|.+
T Consensus        78 re~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lDEke  157 (319)
T PF09789_consen   78 REQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLDEKE  157 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3568889999999999999999999999998887655430 000    11111223334445667788888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hcc---HHHHHHHHHHHHHHHHhh
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKD---MAAIKAEIETERQEIHKG  183 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d-~~k---l~~LkaEIe~LrqEl~~~  183 (278)
                      ++..+|..+..++.+|..+|.-.=+. ..+   |.+|-.|-.=|+..|..+
T Consensus       158 El~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl~q~  208 (319)
T PF09789_consen  158 ELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERLKQL  208 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999875544 566   566666666665555443

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.63  E-value=5.2  Score=45.24  Aligned_cols=96  Identities=14%  Similarity=0.122  Sum_probs=53.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH----HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAER----DAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCV  140 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~----e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~  140 (278)
                      .+.-...+..++.+|...+..+..|.........-.    .....++...-.+++.-.+.+.....++.+++.++.++..
T Consensus       225 l~e~~~~~~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  304 (1353)
T TIGR02680       225 VADALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELETAREEERELDA  304 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555666666666666666655554333322    2222233333444444445566666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHh
Q 023704          141 IKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       141 ~rqeL~~evq~LekDL~~~~  160 (278)
                      .+..+..+.+.++.++..++
T Consensus       305 ~~~~le~~~~~l~~~~~~l~  324 (1353)
T TIGR02680       305 RTEALEREADALRTRLEALQ  324 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHhc
Confidence            66666666666666666655

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.

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

Probab=95.56  E-value=0.82  Score=40.83  Aligned_cols=58  Identities=21%  Similarity=0.250  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHH--------HHHHhHHHHHHHHHHHHHHHHh
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE--------IMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q--------~meknl~~m~~e~eklrael~n  224 (278)
                      ..|+-|-+.|.+.+.++....+.-...+...+..+|        .+|+.|..|...+|+--|+|..
T Consensus       103 ~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~e  168 (201)
T PF13851_consen  103 KDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNE  168 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444444444444433333333333333        4678888888888888888743

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

Probab=95.55  E-value=1.3  Score=44.44  Aligned_cols=149  Identities=15%  Similarity=0.268  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHHH-HHHHHHHhhhhhHhHHHHHHHHHHHh---hhhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           72 HVALKQELSLAEQE-LRHLSSVAASVKAERDAEVRELYEKS---LKLDAE----LRVIESMHAELDRVRADIEKLCVIKQ  143 (278)
Q Consensus        72 ~~~L~qEL~laqhE-L~~l~~~i~~~~ae~e~~~r~l~~k~---~kleae----lr~~e~lk~El~qlr~ei~~l~~~rq  143 (278)
                      ...+.+||.+.-.+ .+.+...+...+++.|    .|++++   +||..-    -++-.+|+.+.....+-+..+....+
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            34455666654333 3455555665555542    233332   233222    22233444444445555555555555


Q ss_pred             HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 023704          144 EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       144 eL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~  223 (278)
                      +....+.+|..++..   ...+|++|++.+++|+..+.+.+-.++.-++-++|.    ..+.++|-.|.-+.++|+.++-
T Consensus       327 ~~~g~l~kl~~eie~---kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Er----e~L~reL~~i~~~~~~L~k~V~  399 (622)
T COG5185         327 EWPGKLEKLKSEIEL---KEEEIKALQSNIDELHKQLRKQGISTEQFELMNQER----EKLTRELDKINIQSDKLTKSVK  399 (622)
T ss_pred             hcchHHHHHHHHHHH---HHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHH----HHHHHHHHHhcchHHHHHHHHH
Confidence            555555555555544   356788899999999999998888888777766653    4578899999999999999986


Q ss_pred             hHHhhHHH
Q 023704          224 NAEKRARA  231 (278)
Q Consensus       224 n~~~r~~a  231 (278)
                      ..+--+.+
T Consensus       400 ~~~leaq~  407 (622)
T COG5185         400 SRKLEAQG  407 (622)
T ss_pred             hHHHHHHH
Confidence            66544443

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=95.54  E-value=3.4  Score=42.34  Aligned_cols=104  Identities=14%  Similarity=0.168  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc----HH----------------HHHHHHHHHHHHHH
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD----MA----------------AIKAEIETERQEIH  181 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k----l~----------------~LkaEIe~LrqEl~  181 (278)
                      ..++.++..+...+..+...+.++...++.|.++..+++....+    +.                ....-+..+..++.
T Consensus       379 sel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~k~~lpgip~~y~~~~~~~~~~i~  458 (569)
T PRK04778        379 SELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYLEKSNLPGLPEDYLEMFFEVSDEIE  458 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHHH
Confidence            34444444455555555555555555555555444443322111    11                12223355677777


Q ss_pred             hhhhhhhhhhhhchhhHH-HHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          182 KGRAAIECEKKNRASNHE-QREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       182 ~~raa~e~ekk~~~e~~e-q~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      ++...++. ...|.+-++ +....+..+-.+..+.+-|..-...++
T Consensus       459 ~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE  503 (569)
T PRK04778        459 ALAEELEE-KPINMEAVNRLLEEATEDVETLEEETEELVENATLTE  503 (569)
T ss_pred             HHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777 777777777 777766666666666666665555555

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

Probab=95.52  E-value=0.23  Score=47.21  Aligned_cols=30  Identities=7%  Similarity=0.190  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhch
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRA  195 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~  195 (278)
                      +-.+..+.+.+...+......++--+|.|+
T Consensus       108 l~~~~~e~~sl~~q~~~~~~~L~~L~ktNv  137 (314)
T PF04111_consen  108 LIEFQEERDSLKNQYEYASNQLDRLRKTNV  137 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCHHT--T
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            344556666666666666666666666554

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.

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

Probab=95.47  E-value=3.5  Score=43.30  Aligned_cols=48  Identities=25%  Similarity=0.409  Sum_probs=25.3

Q ss_pred             HHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          174 ETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       174 e~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      -.+..-+..++.+.-.+.....+-..+.+.|      ++..|+-||--|..+|.
T Consensus       554 ~a~qat~d~a~~Dlqk~nrlkQdear~~~~~------lvqqv~dLR~~L~~~Eq  601 (961)
T KOG4673|consen  554 LAEQATNDEARSDLQKENRLKQDEARERESM------LVQQVEDLRQTLSKKEQ  601 (961)
T ss_pred             HHHHHhhhhhhhhHHHHhhhhhhHHHHHHHH------HHHHHHHHHHHHHHHHH
Confidence            3333344444443333333333344444443      67788888888877663

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

Probab=95.46  E-value=1.4  Score=37.36  Aligned_cols=17  Identities=12%  Similarity=0.362  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHh
Q 023704          144 EMIKDLNEINGDLAKAR  160 (278)
Q Consensus       144 eL~~evq~LekDL~~~~  160 (278)
                      .|.-.|+.|+.+|.+..
T Consensus        77 ~l~rriq~LEeele~ae   93 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAE   93 (143)
T ss_pred             HHHhhHHHHHHHHHHHH
Confidence            45556666666655544

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 [].

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.40  E-value=1.3  Score=45.82  Aligned_cols=83  Identities=22%  Similarity=0.326  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      .......+..++...+.+|..+...+...+.+.  .+..+          ....+.++.++..++.++..+......+..
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            346677788888888888888888888776542  34444          555677777777777777777777777777


Q ss_pred             HHHHHHHHHHHHhhh
Q 023704          148 DLNEINGDLAKARDE  162 (278)
Q Consensus       148 evq~LekDL~~~~~d  162 (278)
                      ++..+++++.+....
T Consensus       457 ~i~~~~~~~~~~~~~  471 (650)
T TIGR03185       457 AIEALRKTLDEKTKQ  471 (650)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777777777664433

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.

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

Probab=95.40  E-value=0.13  Score=45.28  Aligned_cols=56  Identities=29%  Similarity=0.386  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                      ...++..+..+..|+..+...+..++.....+..+|.....++......+..+..+
T Consensus        69 ~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~  124 (194)
T PF08614_consen   69 ISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAE  124 (194)
T ss_dssp             ---------------------------------------------HHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHH
Confidence            33567777777777777777776666666666666666666666655555544444

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=95.35  E-value=3  Score=40.65  Aligned_cols=40  Identities=18%  Similarity=0.302  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHH----hhhhccHHHHHHHHHHHHHHHHh
Q 023704          143 QEMIKDLNEINGDLAKA----RDESKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       143 qeL~~evq~LekDL~~~----~~d~~kl~~LkaEIe~LrqEl~~  182 (278)
                      +.|..++..++.++.++    ..+.-++..++++|+.++..|..
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            34455555555555543    33366777888888777777654

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.

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

Probab=95.32  E-value=2.8  Score=40.05  Aligned_cols=28  Identities=21%  Similarity=0.379  Sum_probs=17.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023704          201 REIMEKNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~n~~~r  228 (278)
                      ....+..+..+..++.++++++..++.+
T Consensus       241 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~  268 (423)
T TIGR01843       241 REEVLEELTEAQARLAELRERLNKARDR  268 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455666666777777777766643

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.

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

Probab=95.30  E-value=1.7  Score=44.90  Aligned_cols=36  Identities=14%  Similarity=0.337  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHH
Q 023704          138 LCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEI  173 (278)
Q Consensus       138 l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEI  173 (278)
                      +....+.|+.+|++++.-+.+.... ..+|..|.+++
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            3344455555555555544444433 33343333333

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=95.25  E-value=2  Score=37.94  Aligned_cols=156  Identities=17%  Similarity=0.226  Sum_probs=98.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---------hHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 023704           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASV---------KAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRA  133 (278)
Q Consensus        63 ~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~---------~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~  133 (278)
                      ..+++.+.-...|+..+.--+..+.-+..++...         ....+...-+|-+-..+||.+-++.+.|.+--.-+|.
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            3455556666666666666666666666666332         1111122334666788999999999997666666777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHH
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA  212 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~  212 (278)
                      .++.....-+.|+.+++.++.|+..+..+ ..|-..       .+.+-.....-+.-|-+.-..+-.++.+.-.++.-|-
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 QLEQARKANEALQEDLQKLTQDWERLRDELEQKEAE-------WREEEENFNQYLSSEHSRLLSLWREVVALRRQFAELR  161 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777888888888777775544 333333       3334444444555555555666677777777776665


Q ss_pred             H----HHHHHHHHHHhH
Q 023704          213 Q----QIERLQAELANA  225 (278)
Q Consensus       213 ~----e~eklrael~n~  225 (278)
                      .    .+..+|+|++.+
T Consensus       162 ~~TerdL~~~r~e~~r~  178 (182)
T PF15035_consen  162 TATERDLSDMRAEFART  178 (182)
T ss_pred             HHHHhhHHHHHHHHHHH
Confidence            4    666777777544

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=95.20  E-value=2.1  Score=38.08  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRL   68 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrl   68 (278)
                      .+.|...+...+.+++.+..+|+-|
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            3445555555555555555555533

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

Probab=95.19  E-value=3.9  Score=41.41  Aligned_cols=14  Identities=21%  Similarity=0.510  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHhH
Q 023704          212 AQQIERLQAELANA  225 (278)
Q Consensus       212 ~~e~eklrael~n~  225 (278)
                      -.|+.+||..|.+-
T Consensus       368 e~E~q~lr~~l~~~  381 (511)
T PF09787_consen  368 ESEIQKLRNQLSAR  381 (511)
T ss_pred             HHHHHHHHHHHHHH
Confidence            45777788777553

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 [].

>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=95.19  E-value=3  Score=39.76  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          208 IISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       208 l~~m~~e~eklrael~n~~~r~~a  231 (278)
                      +-.+..||..||..|+++.....+
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

>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=95.17  E-value=0.49  Score=37.32  Aligned_cols=88  Identities=15%  Similarity=0.154  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q  202 (278)
                      .+.++-..++..+..+.....-+...+.+++.+..+   ..++.-++....+.|..|+..++..+.    .+.+..++++
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            333444444444555555555555555555555444   357778888888888888888888775    3567788888


Q ss_pred             HHHHhHHHHHHHHHH
Q 023704          203 IMEKNIISVAQQIER  217 (278)
Q Consensus       203 ~meknl~~m~~e~ek  217 (278)
                      -+|+++++--.+.||
T Consensus        80 ~~E~~~~~~l~~~Ek   94 (96)
T PF08647_consen   80 ETEKEFVRKLKNLEK   94 (96)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            899999998887775

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

Probab=95.17  E-value=1  Score=49.60  Aligned_cols=64  Identities=17%  Similarity=0.214  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHh--hhhhhhhhhhhchhhHHH
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHK--GRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~--~raa~e~ekk~~~e~~eq  200 (278)
                      .......++..++..++.++.....+.+|+..++.+....-....+  +...++++.+...+.++|
T Consensus       620 ~~~e~~~~l~~~i~sL~~~~~~~~~~l~k~~el~r~~~e~~~~~ek~~~e~~~e~~lk~~q~~~eq  685 (1317)
T KOG0612|consen  620 EISEIIAELKEEISSLEETLKAGKKELLKVEELKRENQERISDSEKEALEIKLERKLKMLQNELEQ  685 (1317)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444445555555555555444555555555444444333333  444444444444444443

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

Probab=95.14  E-value=3.9  Score=40.71  Aligned_cols=51  Identities=18%  Similarity=0.165  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        45 ~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      +-++.++...+.+++.+..+.-..-+.+..+++|-....|-.+.|+.....
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            345666666666777777777777778999999999999988888777664

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

Probab=95.13  E-value=6.3  Score=43.05  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=18.5

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          203 IMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       203 ~meknl~~m~~e~eklrael~n~~  226 (278)
                      -|=+.|.++-++-|+|+-++.|-.
T Consensus       582 k~idaL~alrrhke~LE~e~mnQq  605 (1195)
T KOG4643|consen  582 KYIDALNALRRHKEKLEEEIMNQQ  605 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhh
Confidence            344557788899999999987754

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

Probab=95.11  E-value=1.9  Score=46.77  Aligned_cols=110  Identities=20%  Similarity=0.181  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH---HHHHHHHHHHhhhhHHH---
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER---DAEVRELYEKSLKLDAE---  117 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~---e~~~r~l~~k~~kleae---  117 (278)
                      -..|+..|+..+..|..+-.+..-.+.....|+++|+..+-++..+.+-+...-.+.   +.++-++-.=.-++|+=   
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            336777777777778777777777778888888888888888888888777666554   22222221111111110   


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 ----LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (278)
Q Consensus       118 ----lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~Le  153 (278)
                          +-..+-+|..+..++.+-+-|....+.|..+++.+.
T Consensus       252 ykerlmDs~fykdRveelkedN~vLleekeMLeeQLq~lr  291 (1195)
T KOG4643|consen  252 YKERLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLR  291 (1195)
T ss_pred             cchhhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence                111223566666666666666666666666666555

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

Probab=95.08  E-value=6.1  Score=42.63  Aligned_cols=76  Identities=18%  Similarity=0.308  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       147 ~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      ..+..+...+.+.+...+.|..+..++..+...+...+    -..+-..+.+++.+..+.++..+...+++|..++....
T Consensus       274 ~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~  349 (908)
T COG0419         274 EELRELERLLEELEEKIERLEELEREIEELEEELEGLR----ALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELA  349 (908)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555666666666666666555522    22233344556666666777777777777777666653

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

Probab=95.07  E-value=1.8  Score=42.97  Aligned_cols=55  Identities=16%  Similarity=0.249  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQ--------RLAATHVALKQELSLAEQELRHLSSVAASVKA   98 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnq--------rla~~~~~L~qEL~laqhEL~~l~~~i~~~~a   98 (278)
                      ...+++++...+..+..+...|.        .+......+++++..++.++..++..+..++.
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            77788888888887776654432        24566777888888777777777666665543

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.

>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=95.07  E-value=0.34  Score=35.51  Aligned_cols=36  Identities=28%  Similarity=0.302  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus       114 leaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      |++|||+-..+..||..+++.-..+....++...+.
T Consensus         6 L~~EirakQ~~~eEL~kvk~~n~~~e~kLqeaE~rn   41 (61)
T PF08826_consen    6 LEAEIRAKQAIQEELTKVKSANLAFESKLQEAEKRN   41 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688888888888888888776665555444444333

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

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=95.05  E-value=0.42  Score=49.15  Aligned_cols=84  Identities=13%  Similarity=0.266  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ++.++.|+..|..++.++......|..++.++..++..-.....++.++..+|+.|+.+|......+|..++. ...+.+
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            3334444444444444444444444444444444433111114445666666667766666666666655443 333445


Q ss_pred             HHHHH
Q 023704          201 REIME  205 (278)
Q Consensus       201 ~q~me  205 (278)
                      ++.||
T Consensus       510 ~~~lE  514 (652)
T COG2433         510 MRKLE  514 (652)
T ss_pred             HHhhh
Confidence            55554

>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=94.98  E-value=2.8  Score=40.75  Aligned_cols=66  Identities=11%  Similarity=0.252  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhccHHHHHHHHHHHHHHHHhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR---DESKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~---~d~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      ...++.+..++...+.++.....+++.++..+.++|.+-.   +|++-|-.+|.-|..||+||..+.-.
T Consensus       282 ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMdvr  350 (359)
T PF10498_consen  282 LSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMDVR  350 (359)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            4444444445555555555555555555555555555543   44677788888899999998876543

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.

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

Probab=94.96  E-value=2.3  Score=42.79  Aligned_cols=71  Identities=13%  Similarity=0.145  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      .-.++.++.||...+.+|+-|.+.+.+|..+|..--=-..+|..-++--..|-.|++.+.-+..+++..+.
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            56677888888888888888888888888777543222333333344444555555555555555555553

>PF15294 Leu_zip: Leucine zipper

Probab=94.90  E-value=3.4  Score=38.87  Aligned_cols=118  Identities=23%  Similarity=0.364  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHhhhhHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH
Q 023704          101 DAEVRELYEKSLKLDAELRV----------------------IESMHAELDRVRADIEKLCVIKQ-------EMIKDLNE  151 (278)
Q Consensus       101 e~~~r~l~~k~~kleaelr~----------------------~e~lk~El~qlr~ei~~l~~~rq-------eL~~evq~  151 (278)
                      +++=|+|.+.++++|..--.                      .+-+..||..++.|.++|....+       ....+-..
T Consensus        85 elEn~eLLe~i~~~E~~~~~~~~~~~~~~~~~KL~pl~e~g~~~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~k  164 (278)
T PF15294_consen   85 ELENRELLEQIAEFEKQEFTSSFKPNQETSKPKLEPLNESGGSELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSK  164 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhhcccCCccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556688887777654211                      11144555555555554444333       33333344


Q ss_pred             HHHHHHHHhh------------h-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHH
Q 023704          152 INGDLAKARD------------E-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (278)
Q Consensus       152 LekDL~~~~~------------d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ekl  218 (278)
                      |+..|++.+.            . .+++..|+..+..++-         ++||. -.+..++.++|+-+|.+.-.+|=++
T Consensus       165 l~~~L~~lq~~~~~~~~k~~~~~~~q~l~dLE~k~a~lK~---------e~ek~-~~d~~~~~k~L~e~L~~~KhelL~~  234 (278)
T PF15294_consen  165 LEAQLKELQDEQGDQKGKKDLSFKAQDLSDLENKMAALKS---------ELEKA-LQDKESQQKALEETLQSCKHELLRV  234 (278)
T ss_pred             HHHHHHHHHHHHHhhhccccccccccchhhHHHHHHHHHH---------HHHHH-HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4444444443            2 4556666666666653         33443 4455669999999999999999999


Q ss_pred             HHHHHhHHhh
Q 023704          219 QAELANAEKR  228 (278)
Q Consensus       219 rael~n~~~r  228 (278)
                      +..|..+++=
T Consensus       235 QeqL~~aeke  244 (278)
T PF15294_consen  235 QEQLSLAEKE  244 (278)
T ss_pred             chhhhcchhh
Confidence            9998887743

>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=94.85  E-value=1.9  Score=39.46  Aligned_cols=56  Identities=21%  Similarity=0.286  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQE  179 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqE  179 (278)
                      ....-++|.+.+.||..|....+++..+-..+...+.++..   .+.-|+.+|+.++.+
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            33334455555555555555555555555554444444331   233345555555555

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.

>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=94.84  E-value=3.8  Score=39.11  Aligned_cols=54  Identities=20%  Similarity=0.287  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      .+.+..+.|..+|.+|.+.|...+.+ ..++.....+...++.+=.+++-.+.-|
T Consensus       226 ~~~shI~~Lr~EV~RLR~qL~~sq~e~~~k~~~~~~eek~ireEN~rLqr~L~~E  280 (310)
T PF09755_consen  226 RLSSHIRSLRQEVSRLRQQLAASQQEHSEKMAQYLQEEKEIREENRRLQRKLQRE  280 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444 4444444444444444444444444333

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

Probab=94.79  E-value=2.8  Score=37.38  Aligned_cols=96  Identities=11%  Similarity=0.210  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      +..+..+..+..+...|..-.+.+..++..|.++|..+..|-..+..+++.+..+.+++..++-..+--.-.+......+
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            34445555666666666666677777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhHHHHHHHHHH
Q 023704          202 EIMEKNIISVAQQIER  217 (278)
Q Consensus       202 q~meknl~~m~~e~ek  217 (278)
                      ..+...+.++..||..
T Consensus       124 deL~~kf~~~i~evqQ  139 (201)
T PF13851_consen  124 DELYRKFESAIQEVQQ  139 (201)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7777777777777643

>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=94.77  E-value=1.5  Score=40.00  Aligned_cols=92  Identities=17%  Similarity=0.251  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHH
Q 023704          132 RADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV  211 (278)
Q Consensus       132 r~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m  211 (278)
                      +..+.++...+++|..++..+++++..++.   ....+...++..++++..+...++.-++.+.+..-.+..|-..|-..
T Consensus        41 Q~~id~~~~e~~~L~~e~~~l~~e~e~L~~---~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~  117 (251)
T PF11932_consen   41 QKRIDQWDDEKQELLAEYRQLEREIENLEV---YNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQF  117 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444333   23334444555555555555555555556666666666666665553


Q ss_pred             HH------------HHHHHHHHHHhHH
Q 023704          212 AQ------------QIERLQAELANAE  226 (278)
Q Consensus       212 ~~------------e~eklrael~n~~  226 (278)
                      ..            -|++||+.+.+++
T Consensus       118 v~~d~Pf~~~eR~~Rl~~L~~~l~~~d  144 (251)
T PF11932_consen  118 VELDLPFLLEERQERLARLRAMLDDAD  144 (251)
T ss_pred             HhcCCCCChHHHHHHHHHHHHhhhccC
Confidence            33            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.

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

Probab=94.70  E-value=4.2  Score=41.76  Aligned_cols=29  Identities=24%  Similarity=0.249  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASV   96 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~   96 (278)
                      |-.....|+-++++++|||..++..++..
T Consensus        48 Lkqq~eEleaeyd~~R~Eldqtkeal~q~   76 (772)
T KOG0999|consen   48 LKQQLEELEAEYDLARTELDQTKEALGQY   76 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444445554444444433

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

Probab=94.68  E-value=6.3  Score=40.87  Aligned_cols=22  Identities=14%  Similarity=0.424  Sum_probs=10.4

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHH
Q 023704          202 EIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       202 q~meknl~~m~~e~eklrael~  223 (278)
                      .+-.+=+.-|..=|.|-++||.
T Consensus       487 s~Yt~RIlEIv~NI~KQk~eI~  508 (594)
T PF05667_consen  487 SAYTRRILEIVKNIRKQKEEIE  508 (594)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHH
Confidence            3333344445555555555553

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=94.64  E-value=5.1  Score=39.65  Aligned_cols=23  Identities=4%  Similarity=0.063  Sum_probs=14.6

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhh
Q 023704          163 SKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      ..++..++.+|..++.++..+++
T Consensus       242 ~~~i~~l~~~i~~~~~~~~~~~~  264 (457)
T TIGR01000       242 QQQIDQLQKSIASYQVQKAGLTK  264 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccC
Confidence            45566666677666666666544

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

>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=94.60  E-value=2.4  Score=35.64  Aligned_cols=29  Identities=10%  Similarity=0.302  Sum_probs=13.4

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           63 QDNQRLAATHVALKQELSLAEQELRHLSS   91 (278)
Q Consensus        63 ~dnqrla~~~~~L~qEL~laqhEL~~l~~   91 (278)
                      ...+.+..+...+..++...++.+.+|..
T Consensus        52 ~~~e~l~~~~~~l~~d~~~l~~~~~rL~~   80 (151)
T PF11559_consen   52 EQREDLSDKLRRLRSDIERLQNDVERLKE   80 (151)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            33444444444444444444444444433

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.

>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=94.56  E-value=8.7  Score=41.95  Aligned_cols=105  Identities=19%  Similarity=0.255  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       115 eaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      .+-..+.+-+++++..+..++......+.+|..++..+..++.....+    +.++.+.-..++.+.+++..+-.+.|+-
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            444566666677777776666666666666666555555555554433    4556666666666777777777776666


Q ss_pred             hhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          191 KKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       191 kk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      |+..-..       .+++......+..++++|.+++
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            6543222       2344555556666666665554

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=94.50  E-value=4.2  Score=42.76  Aligned_cols=27  Identities=22%  Similarity=0.166  Sum_probs=15.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSS   91 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~   91 (278)
                      .+-+..+...++++|..++.+|.....
T Consensus       196 ~~~L~~ql~~l~~~l~~aE~~l~~fk~  222 (754)
T TIGR01005       196 ADFLAPEIADLSKQSRDAEAEVAAYRA  222 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566666666666655555544

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.

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

Probab=94.42  E-value=2.1  Score=37.14  Aligned_cols=22  Identities=14%  Similarity=0.288  Sum_probs=10.7

Q ss_pred             hccHHHHHHHHHHHHHHHHhhh
Q 023704          163 SKDMAAIKAEIETERQEIHKGR  184 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~r  184 (278)
                      ..++..+...++.+.+++..++
T Consensus       129 ~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen  129 EERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455555555554444

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 [].

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

Probab=94.41  E-value=7.4  Score=40.54  Aligned_cols=95  Identities=18%  Similarity=0.316  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hhhHhHHHHHHHHHHHhhhhHHH
Q 023704           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-------SVKAERDAEVRELYEKSLKLDAE  117 (278)
Q Consensus        45 ~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~-------~~~ae~e~~~r~l~~k~~kleae  117 (278)
                      ..|..++..+...++..+.+|+.|..-.......|.-....++++.....       .+.+++..-.|.           
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            34455555555566666667777765555555555544444555444332       222233222222           


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq  150 (278)
                      +.-+..+|..|..++.-...|....-+|+..++
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            334566666666666666666655555555444

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

Probab=94.35  E-value=11  Score=42.28  Aligned_cols=160  Identities=19%  Similarity=0.239  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      |..|..++-.... .-+.......+-.-+....+|+-..+.+|..+...-.....-.      +     .+.+..+.++.
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            5577777766544 2223344444445555555666666666666543333211111      1     33444677777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh--------hhhhhch
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE--------CEKKNRA  195 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e--------~ekk~~~  195 (278)
                      .+.++..|..++........++...++.+++.+.++.       .|..+...+..++..++..+.        ...+.+.
T Consensus       235 ~ke~v~e~e~e~~~~~~~i~ei~~~~~el~k~~~~~~-------~l~~e~~~l~~~~~~l~~~i~~~~~~t~~~l~~~~~  307 (1294)
T KOG0962|consen  235 SKEEVSELENELGPIEAKIEEIEKSLKELEKLLKQVK-------LLDSEHKNLKKQISRLREKILKIFDGTDEELGELLS  307 (1294)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHH
Confidence            7877777777777777777777766666666655544       444555555555555554444        4445555


Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ..-+-+..|+..+..+-+++.+|-.+.
T Consensus       308 n~~~~~~~~~~~~~~~e~~~~~l~~e~  334 (1294)
T KOG0962|consen  308 NFEERLEEMGEKLRELEREISDLNEER  334 (1294)
T ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            555556667777777766666655443

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

Probab=94.33  E-value=7.4  Score=41.56  Aligned_cols=42  Identities=10%  Similarity=0.080  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNI  208 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl  208 (278)
                      .-...||+.|+++|+......-+---.++++-+|++.|..+.
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            334445555555555554444444444555555555555444

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

Probab=94.31  E-value=3.1  Score=40.23  Aligned_cols=35  Identities=17%  Similarity=0.213  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      +++|-++++..++.+...+.|...+.+.|.+|+.+
T Consensus       139 ~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE  173 (401)
T PF06785_consen  139 LREENQCLQLQLDALQQECGEKEEESQTLNRELAE  173 (401)
T ss_pred             HHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            34455555566666666666666666666555554

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=94.27  E-value=1.6  Score=45.84  Aligned_cols=36  Identities=14%  Similarity=0.147  Sum_probs=24.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      ++....+..=|.++|...+.+|...+..+.+.+...
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            444455566677777777777777777777666654

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=94.23  E-value=8.6  Score=40.56  Aligned_cols=167  Identities=18%  Similarity=0.218  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH----------HHHHHHHHHHhhhhH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER----------DAEVRELYEKSLKLD  115 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~----------e~~~r~l~~k~~kle  115 (278)
                      .+++++...-.++......|-.+........|.......+++.|...+....+..          |.|.|.+-....++.
T Consensus       465 d~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~  544 (698)
T KOG0978|consen  465 DMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLI  544 (698)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhH
Confidence            3333333333355555555666666666666777777777777766666555543          344444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhch
Q 023704          116 AELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRA  195 (278)
Q Consensus       116 aelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~  195 (278)
                      +++...   ..-+......+.++......|..++...+++|.+++   -++.++..+|+.+++...|+...++-.++.  
T Consensus       545 ~el~~~---~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~---~~~~e~~~ele~~~~k~~rleEE~e~L~~k--  616 (698)
T KOG0978|consen  545 KELTTL---TQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQ---EQYAELELELEIEKFKRKRLEEELERLKRK--  616 (698)
T ss_pred             HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            443211   111122222222223333333333333333333322   233445555555555555555555444432  


Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                        ++.++.++.    .+.=.+.|..||.+..
T Consensus       617 --le~~k~~~~----~~s~d~~L~EElk~yK  641 (698)
T KOG0978|consen  617 --LERLKKEES----GASADEVLAEELKEYK  641 (698)
T ss_pred             --HHHhccccc----cccccHHHHHHHHHHH
Confidence              222222222    2223556667776665

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=94.22  E-value=0.013  Score=61.27  Aligned_cols=115  Identities=20%  Similarity=0.324  Sum_probs=0.0

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHh
Q 023704          103 EVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       103 ~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~  182 (278)
                      .+|+-.+|..|+|+++.....=-.++..++..++.|......|...+..++.++.++.       +++..|+.+++++..
T Consensus       302 ~lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~-------~~~~qle~~k~qi~e  374 (713)
T PF05622_consen  302 ELREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKAR-------ALKSQLEEYKKQIQE  374 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-------HHHHHHHHHHHHHHH
Confidence            3555667777888885554443345566667777777776777777777776666544       455555555555555


Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          183 GRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       183 ~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      +......+++-.-.+......++.-+.++.+|.+.|..|...
T Consensus       375 Le~~l~~~~~~~~~l~~e~~~L~ek~~~l~~eke~l~~e~~~  416 (713)
T PF05622_consen  375 LEQKLSEESRRADKLEFENKQLEEKLEALEEEKERLQEERDS  416 (713)
T ss_dssp             ------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555544444445555555555566666666655543

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.

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=94.19  E-value=6.4  Score=40.24  Aligned_cols=114  Identities=15%  Similarity=0.221  Sum_probs=87.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       114 leaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      +|-|+.+...+..-+.-+...+.++.....-|..+|..+.+--.=...+.+......++|+.+.+.+...-..++..+.+
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            35555555666666666777777777777788888887776655445567888889999999999999999999999999


Q ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          194 RASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       194 ~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      +.+..+-++-.++-|-..-.+.++++..|..-.|
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            9988888888888888888777777777655543

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

Probab=94.18  E-value=5.3  Score=37.91  Aligned_cols=74  Identities=16%  Similarity=0.379  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh---hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHH
Q 023704          142 KQEMIKDLNEINGDLAKARDE---SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (278)
Q Consensus       142 rqeL~~evq~LekDL~~~~~d---~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ekl  218 (278)
                      -.++...|..|.+.+..+..-   ..++.+|.++++.++.+....+..|.       ++..+.|..-..|+.+-++++.+
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 ERELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQ-------ELANEAQEYHEEMIKLFEEADEL  205 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666666665532   55566666666666666555554443       45556666666666666666666


Q ss_pred             HHHH
Q 023704          219 QAEL  222 (278)
Q Consensus       219 rael  222 (278)
                      |.+.
T Consensus       206 Rkea  209 (294)
T COG1340         206 RKEA  209 (294)
T ss_pred             HHHH
Confidence            6554

>PF13514 AAA_27: AAA domain

Probab=94.17  E-value=11  Score=41.61  Aligned_cols=45  Identities=16%  Similarity=0.361  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          147 KDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       147 ~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ..+..|...+.+.+....++..+..+++.+++++..+...++.-.
T Consensus       784 ~~~~~L~~~l~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~  828 (1111)
T PF13514_consen  784 EALEALRARLEEAREAQEERERLQEQLEELEEELEQAEEELEELE  828 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666665555556666666666666555555544333

>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=94.13  E-value=9.2  Score=40.53  Aligned_cols=29  Identities=14%  Similarity=0.126  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASV   96 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~   96 (278)
                      |..+...++..|..++.+|+....++..+
T Consensus       284 L~~~L~e~Q~qLe~a~~als~q~eki~~L  312 (717)
T PF09730_consen  284 LLSNLQESQKQLEHAQGALSEQQEKINRL  312 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555566666665555554444433

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

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

Probab=94.13  E-value=6.7  Score=38.94  Aligned_cols=101  Identities=12%  Similarity=0.165  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhh------------------hccHHHHHHHHHHHHH
Q 023704          124 MHAELDRVRADIEKLCV-------IKQEMIKDLNEINGDLAKARDE------------------SKDMAAIKAEIETERQ  178 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~-------~rqeL~~evq~LekDL~~~~~d------------------~~kl~~LkaEIe~Lrq  178 (278)
                      ++.++.+++.++..+..       ..+.+..++..+++.+.+.-..                  ..++..++.+++.++.
T Consensus       252 l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~  331 (498)
T TIGR03007       252 LDGRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLEA  331 (498)
T ss_pred             hHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555543       2344555566666655443111                  1234444444455544


Q ss_pred             HHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023704          179 EIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       179 El~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r  228 (278)
                      ++..++..++.-+    +.+.+.-.-+..+..+.||++-.+.-....-+|
T Consensus       332 ~~~~l~~~~~~~~----~~~~~~~~~~~el~~L~Re~~~~~~~Y~~l~~r  377 (498)
T TIGR03007       332 RVAELTARIERLE----SLLRTIPEVEAELTQLNRDYEVNKSNYEQLLTR  377 (498)
T ss_pred             HHHHHHHHHHHHH----HHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444433322    122233344666777777777777666555444

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.

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

Probab=94.04  E-value=10  Score=41.74  Aligned_cols=146  Identities=18%  Similarity=0.266  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      .+..+..|+.+...++-+..+-+....      |..++..-+....+.++   +..++..+.....++.......-....
T Consensus       199 eaeky~~lkde~~~~q~e~~L~qLfhv------E~~i~k~~~els~~~~e---i~~~~~~~d~~e~ei~~~k~e~~ki~r  269 (1141)
T KOG0018|consen  199 EAEKYQRLKDEKGKAQKEQFLWELFHV------EACIEKANDELSRLNAE---IPKLKERMDKKEREIRVRKKERGKIRR  269 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhh------hhhHhhhhHHHHHHhhh---hHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence            355556666666666655554433333      22222244444444444   222222333333333333333334444


Q ss_pred             HHHHHHHHHHHHhhh-hc--cHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          148 DLNEINGDLAKARDE-SK--DMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       148 evq~LekDL~~~~~d-~~--kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      +++.+.+.+.+.... .+  .+-.++.+...++..+...+..++-=++.+..+-+.++.++|.++++..=-+-+-.|+
T Consensus       270 e~~~~Dk~i~~ke~~l~erp~li~~ke~~~~~k~rl~~~~k~i~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei  347 (1141)
T KOG0018|consen  270 ELQKVDKKISEKEEKLAERPELIKVKENASHLKKRLEEIEKDIETAKKDYRALKETIERLEKELKAVEGAKEEFEKEI  347 (1141)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHhhcchhhccchhHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555554444 22  1223344555566667777777777777777777888888888777655444444444

>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=94.00  E-value=3.6  Score=43.54  Aligned_cols=13  Identities=31%  Similarity=0.317  Sum_probs=8.7

Q ss_pred             ccCceEE-EeecCC
Q 023704            3 IYGNSLH-TTLHNH   15 (278)
Q Consensus         3 ifG~tli-vtfhp~   15 (278)
                      +||.+|| +|.+.+
T Consensus       451 ~lg~sll~lts~~e  464 (717)
T PF10168_consen  451 VLGYSLLALTSSGE  464 (717)
T ss_pred             CCCceEEEEccCCc
Confidence            4899988 555443

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 [].

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

Probab=93.88  E-value=11  Score=40.63  Aligned_cols=161  Identities=17%  Similarity=0.252  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      ....+..+...+...+..+..|......+.-......+ .......++..+.....+...+..+..++..+.....+|..
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~~L~~~~~e~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~  350 (908)
T COG0419         272 REEELRELERLLEELEEKIERLEELEREIEELEEELEG-LRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAE  350 (908)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555555544444333322222 11122222222333333333333333333333333333333


Q ss_pred             HHHHHHHHHHHHhhh-hccHHHHHHHHH-------HHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHH
Q 023704          148 DLNEINGDLAKARDE-SKDMAAIKAEIE-------TERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       148 evq~LekDL~~~~~d-~~kl~~LkaEIe-------~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklr  219 (278)
                      ......+-+.+.... ..++..+..++.       .+...++........-.....+..++....++.+....+++++++
T Consensus       351 ~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~  430 (908)
T COG0419         351 EKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELE  430 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333322 222333333333       344445555555555556666677777777778888888888888


Q ss_pred             HHHHhHHhhH
Q 023704          220 AELANAEKRA  229 (278)
Q Consensus       220 ael~n~~~r~  229 (278)
                      .++.+.+..-
T Consensus       431 ~~~~~~~~~~  440 (908)
T COG0419         431 EEIKKLEEQI  440 (908)
T ss_pred             HHHHHHHHHH
Confidence            8887776443

>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=93.88  E-value=9.4  Score=40.20  Aligned_cols=51  Identities=16%  Similarity=0.294  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          140 VIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       140 ~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      .....|+.+++.|+++|....+.    .+.|.....|-+.|++++.+...+++-.
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    5667777778888888888887777643

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

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=93.82  E-value=10  Score=39.90  Aligned_cols=60  Identities=15%  Similarity=0.255  Sum_probs=42.0

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhh------hhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAA------IECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa------~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      .+-++.|.......+.++.++|..      ...|.+.....+-+...|+-.++..==|.++|.++|
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            555666677777777777655532      345667777777777778877777777888888777

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

Probab=93.79  E-value=6.2  Score=39.07  Aligned_cols=108  Identities=17%  Similarity=0.251  Sum_probs=73.4

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----------------------------
Q 023704          109 EKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR----------------------------  160 (278)
Q Consensus       109 ~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~----------------------------  160 (278)
                      +|.+..-+=.++.++-+.-|.+|+.+-++|.+.-|||...+.   .+|.++.                            
T Consensus       439 QKCLEnahLaqalEaerqaLRqCQrEnQELnaHNQELnnRLa---aEItrLRtlltgdGgGtGsplaqgkdayELEVLLR  515 (593)
T KOG4807|consen  439 QKCLENAHLAQALEAERQALRQCQRENQELNAHNQELNNRLA---AEITRLRTLLTGDGGGTGSPLAQGKDAYELEVLLR  515 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHH---HHHHHHHHHhccCCCCCCCccccCcchhhHHHHHH
Confidence            344444444778888889999999999999999998865432   3333332                            


Q ss_pred             hhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          161 DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       161 ~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ...+.|.-|+.||..||-||+.+-.+-.|=...+.+.+-.+-...-   .--.+|+.|...|
T Consensus       516 VKEsEiQYLKqEissLkDELQtalrDKkyaSdKYkDiYtELSiaKa---kadcdIsrLKEqL  574 (593)
T KOG4807|consen  516 VKESEIQYLKQEISSLKDELQTALRDKKYASDKYKDIYTELSIAKA---KADCDISRLKEQL  574 (593)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhHHHHHHHHHHH---hhhccHHHHHHHH
Confidence            1134567788999999999998888888877777776654422110   1123888888877

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

Probab=93.75  E-value=8.7  Score=38.89  Aligned_cols=109  Identities=18%  Similarity=0.206  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           80 SLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLD-----------------AELRVIESMHAELDRVRADIEKLCVIK  142 (278)
Q Consensus        80 ~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kle-----------------aelr~~e~lk~El~qlr~ei~~l~~~r  142 (278)
                      .-.+..|..+...+..-...-...+-..+.+..++|                 ..++....+...+.-++.......++-
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            333444444444443333333333344555666666                 334444555555555555555555555


Q ss_pred             HHHHHHHHHHHH----HHHHHhh----hh-cc------HHHHHHHHHHHHHHHHhhhhhhh
Q 023704          143 QEMIKDLNEING----DLAKARD----ES-KD------MAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       143 qeL~~evq~Lek----DL~~~~~----d~-~k------l~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      .++..+...+-+    =+..++.    ++ ..      ++.|+.|.+.++.+++.++..|+
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            555533332222    2222222    11 11      78888888888888888887773

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 [].

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=93.70  E-value=8.2  Score=38.46  Aligned_cols=137  Identities=18%  Similarity=0.272  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh----hhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH-------------
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVA----ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDR-------------  130 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i----~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~q-------------  130 (278)
                      +......|+++-...+--|..|....    ..++.|+|.-+-.|..|+.|||+|-|-.   ...++|             
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            44444455555444444343333222    3455667777888888888888884433   222222             


Q ss_pred             ---HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHH
Q 023704          131 ---VRA-DIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME  205 (278)
Q Consensus       131 ---lr~-ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~me  205 (278)
                         .+. +...+....+-|.++|.++.+++.+++.. .-|+-.+.+|=..++.|..++..-+             .+.||
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               111 22344455666778888888888887766 5566666666555555554443222             13455


Q ss_pred             Hh--HHHHHHHHHHHHH
Q 023704          206 KN--IISVAQQIERLQA  220 (278)
Q Consensus       206 kn--l~~m~~e~eklra  220 (278)
                      +-  |-.|-.|-|++-.
T Consensus       307 rRealcr~lsEsessle  323 (552)
T KOG2129|consen  307 RREALCRMLSESESSLE  323 (552)
T ss_pred             HHHHHHHHhhhhhHHHH
Confidence            55  6667777776643

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.67  E-value=1.7  Score=39.12  Aligned_cols=26  Identities=4%  Similarity=-0.014  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          128 LDRVRADIEKLCVIKQEMIKDLNEIN  153 (278)
Q Consensus       128 l~qlr~ei~~l~~~rqeL~~evq~Le  153 (278)
                      ..+++.++..+......|.++...+.
T Consensus       141 n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884        141 NQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=93.67  E-value=0.019  Score=60.10  Aligned_cols=25  Identities=12%  Similarity=0.203  Sum_probs=0.0

Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQA  220 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklra  220 (278)
                      +.+.+...||+-......|+.+||.
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            3344444444444444444444443

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=93.67  E-value=0.93  Score=40.76  Aligned_cols=26  Identities=12%  Similarity=0.266  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023704           73 VALKQELSLAEQELRHLSSVAASVKA   98 (278)
Q Consensus        73 ~~L~qEL~laqhEL~~l~~~i~~~~a   98 (278)
                      ..++..|...+.+|..+...+.....
T Consensus        89 p~~~~rlp~le~el~~l~~~l~~~~~  114 (206)
T PRK10884         89 PSLRTRVPDLENQVKTLTDKLNNIDN  114 (206)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34445566666666666655554443

>TIGR00634 recN DNA repair protein RecN

Probab=93.62  E-value=3.7  Score=41.87  Aligned_cols=59  Identities=12%  Similarity=0.148  Sum_probs=37.1

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA  225 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~  225 (278)
                      +..+..+...++.+++++..+...-+    .-.++-++....++.+...|.++-+.|...+..
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            44566777777777777776544433    223344556666777777777777777776543

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=93.61  E-value=2.9  Score=36.13  Aligned_cols=91  Identities=11%  Similarity=0.219  Sum_probs=46.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhh-hccHHHHHHHH-HHHHHHHHhhhhhhhh
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD-LAKARDE-SKDMAAIKAEI-ETERQEIHKGRAAIEC  189 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekD-L~~~~~d-~~kl~~LkaEI-e~LrqEl~~~raa~e~  189 (278)
                      +++.++...+..+.|...++++.++   ...+...+.+.|..| -.+..++ ..+.+++.+++ ..|.++++......+ 
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            4444455555555555555543333   222333334444444 4444445 55556666665 455666666666666 


Q ss_pred             hhhhchhhHHHHHHHHHhHH
Q 023704          190 EKKNRASNHEQREIMEKNII  209 (278)
Q Consensus       190 ekk~~~e~~eq~q~meknl~  209 (278)
                        +-+.+..+++--|--|++
T Consensus       121 --~~~~~~~~~~i~~~~~i~  138 (155)
T PRK06569        121 --QFRTNKSEAIIKLAVNII  138 (155)
T ss_pred             --HHHHhHHHHHHHHHHHHH
Confidence              344444555555555544

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

Probab=93.39  E-value=13  Score=39.79  Aligned_cols=58  Identities=22%  Similarity=0.283  Sum_probs=35.0

Q ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHhhhhhHhHHHHHHHHH
Q 023704           51 IAIQHS-DIQSLLQDNQRLAATHVALKQELSLAEQELRHLS--------------SVAASVKAERDAEVRELY  108 (278)
Q Consensus        51 L~~q~~-eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~--------------~~i~~~~ae~e~~~r~l~  108 (278)
                      |..||. -.+.-...+.+.-+...+|+++|+.+.+.--.+.              +++...+-|+|..|.+.+
T Consensus         4 lvkqh~kvaeeav~gwekae~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~~   76 (769)
T PF05911_consen    4 LVKQHAKVAEEAVSGWEKAEAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEAV   76 (769)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            445555 3344456677777888888888887765544433              344455555666555553

The function of this family is unknown.

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

Probab=93.36  E-value=4.2  Score=34.11  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=11.3

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           61 LLQDNQRLAATHVALKQELSLAEQELRHL   89 (278)
Q Consensus        61 ll~dnqrla~~~~~L~qEL~laqhEL~~l   89 (278)
                      +|...++-......|...+.....++..+
T Consensus        43 Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l   71 (151)
T PF11559_consen   43 LLQQRDRDMEQREDLSDKLRRLRSDIERL   71 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            33333444444433333333333333333

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.

>PRK11519 tyrosine kinase; Provisional

Probab=93.36  E-value=5.1  Score=42.17  Aligned_cols=33  Identities=12%  Similarity=0.155  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      ...+..=|+++|...+.+|...+..+...+...
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            334555677777777777777777777666654

>TIGR02977 phageshock_pspA phage shock protein A

Probab=93.35  E-value=5.7  Score=35.62  Aligned_cols=104  Identities=14%  Similarity=0.187  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023704           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA-SVKAERDAEVRELYEKSLKLDAELRVIESMH  125 (278)
Q Consensus        47 Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~-~~~ae~e~~~r~l~~k~~kleaelr~~e~lk  125 (278)
                      |+.-+.....+|...-...-++.+....+++++..++..+.....+.. .++...|---|+.          +.......
T Consensus        29 l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~A----------l~~k~~~~   98 (219)
T TIGR02977        29 IRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAA----------LIEKQKAQ   98 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH----------HHHHHHHH
Confidence            333333333333333333444555566666777766666666644433 3444455555555          33333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      ..+..+...+..+.....+|..++..|+..+.+++
T Consensus        99 ~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k  133 (219)
T TIGR02977        99 ELAEALERELAAVEETLAKLQEDIAKLQAKLAEAR  133 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444445555555554444443

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.

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

Probab=93.35  E-value=5  Score=34.87  Aligned_cols=16  Identities=19%  Similarity=0.464  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHhHH
Q 023704          211 VAQQIERLQAELANAE  226 (278)
Q Consensus       211 m~~e~eklrael~n~~  226 (278)
                      +..||..||++|+++.
T Consensus       136 i~~ei~~lr~~iE~~K  151 (177)
T PF07798_consen  136 IDTEIANLRTEIESLK  151 (177)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4557778888887765

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=93.34  E-value=6.9  Score=36.50  Aligned_cols=14  Identities=14%  Similarity=0.188  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHh
Q 023704          211 VAQQIERLQAELAN  224 (278)
Q Consensus       211 m~~e~eklrael~n  224 (278)
                      .-..++..+..+.+
T Consensus       191 ~~~~l~~a~~~l~~  204 (327)
T TIGR02971       191 ALEAVQQAEALLEL  204 (327)
T ss_pred             HHHHHHHHHHHHhc
Confidence            33334444444433

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.

>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=93.31  E-value=6.3  Score=35.92  Aligned_cols=28  Identities=21%  Similarity=0.362  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLN  150 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq  150 (278)
                      .++..+.+++.++........++...++
T Consensus        74 ~l~~~i~~~~~~i~~~r~~l~~~~~~l~  101 (302)
T PF10186_consen   74 RLRERIERLRKRIEQKRERLEELRESLE  101 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333

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

>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=93.24  E-value=2.2  Score=39.89  Aligned_cols=66  Identities=14%  Similarity=0.279  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccH----HHHHHHHHHHHHHHHhhhh
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM----AAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl----~~LkaEIe~LrqEl~~~ra  185 (278)
                      ++..+..++.+.+..+..+.+....|.++|++-..||.+.+.-.+.|    |+-..|-+.|-.||+++=.
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~  239 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYE  239 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHH
Confidence            36777888888888888888888888888888888888877654333    7777888888888776543

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 [].

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

Probab=93.23  E-value=6.7  Score=36.04  Aligned_cols=110  Identities=21%  Similarity=0.299  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMH  125 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk  125 (278)
                      .|+.+|...+.+..+--......-.+...|..++..++.+-..|.........+    +..|-....+.+   ...+.|.
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            455666665555555555555555555566666666666666655544332222    222322222222   2244555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      .++..+..+|..|....+.-..++..+..++...+.+
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            6666666666666666666666666666666655544

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.

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

Probab=93.15  E-value=12  Score=38.80  Aligned_cols=95  Identities=19%  Similarity=0.275  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh------------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE------------SKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d------------~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                      |+.-+-.++...++..-.|..++..|...+...+++            +++|.....+|..|-.++++.+++.-.|   .
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            333344444444555555555555555555554433            2233444455555555555555554333   3


Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      ..+..|.++.|+-+-+.-.++|+|+..|.+
T Consensus       313 e~~~~qI~~le~~l~~~~~~leel~~kL~~  342 (629)
T KOG0963|consen  313 EKHKAQISALEKELKAKISELEELKEKLNS  342 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345567888888888888888888877754

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=93.15  E-value=0.026  Score=60.41  Aligned_cols=107  Identities=15%  Similarity=0.321  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR----DESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~----~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ...|..+.+.+..-...+.++....+.|+.||.++.    ..+.....+...|..+...|..+...++.....+-+..++
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            334444444444434444444444455555555443    1244456777888889999999999999999999999999


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          201 REIMEKNIISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~n~~~r~~a  231 (278)
                      ...+|+-+..|..|++-|+..+..+++--+.
T Consensus       604 ~~~~e~r~~~l~~elee~~~~~~~a~r~rk~  634 (859)
T PF01576_consen  604 LAVSERRLRALQAELEELREALEQAERARKQ  634 (859)
T ss_dssp             -------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999988754433

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.

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=93.11  E-value=7  Score=35.88  Aligned_cols=140  Identities=18%  Similarity=0.172  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      |..+.-.++....+++.........-.....+..++.....++..|......+                     .+....
T Consensus        19 ~~~l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~---------------------~~~~~~   77 (264)
T PF06008_consen   19 PYKLLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKV---------------------SRKAQQ   77 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHH
Confidence            34555555555555555555444444444444444554444554444433322                     222334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----hhccHHHHHHHHHHHHHHH-----Hhhhhhhhhhhhh
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD-----ESKDMAAIKAEIETERQEI-----HKGRAAIECEKKN  193 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~-----d~~kl~~LkaEIe~LrqEl-----~~~raa~e~ekk~  193 (278)
                      +...........+.|....+.+...|..|-.++..+..     ....++...+|++.|=+++     ...+..-+.|++.
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            44444444445555555555555555555555555554     3667777777777776666     4556667778877


Q ss_pred             chhhHHHHHHH
Q 023704          194 RASNHEQREIM  204 (278)
Q Consensus       194 ~~e~~eq~q~m  204 (278)
                      -.+++.+++.-
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

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=93.08  E-value=0.027  Score=58.99  Aligned_cols=101  Identities=20%  Similarity=0.345  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhhh----------hccHHHHHHHHHHHHHHHH
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEM----------IKDLNEINGDLAKARDE----------SKDMAAIKAEIETERQEIH  181 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL----------~~evq~LekDL~~~~~d----------~~kl~~LkaEIe~LrqEl~  181 (278)
                      +.++.++..++.++++.....++|          ..+|+.|+.++.....+          ...++.|.++...++.|+.
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          44555555544443332          3556777888888888888


Q ss_pred             hhhhhh------hhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          182 KGRAAI------ECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       182 ~~raa~------e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ++|...      +.|+..-...++.+..++..|..+=-|+++|..|+
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            777643      34555555555556666666666655666666655

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.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=93.07  E-value=1.8  Score=35.95  Aligned_cols=46  Identities=24%  Similarity=0.291  Sum_probs=32.8

Q ss_pred             hhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          182 KGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       182 ~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      ....++++-++.-..+-+++..+++++.....+++.++..+.....
T Consensus        91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~  136 (140)
T PRK03947         91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQ  136 (140)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666666666777777888888888888888888877755443

>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=93.02  E-value=5.7  Score=37.23  Aligned_cols=97  Identities=18%  Similarity=0.351  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      +..--..|+.-+.....+++.++..+.++.++.      -     .||+.   ++.-+.|++..+..++.|++.|--...
T Consensus       160 ~~~iE~~l~~ai~~~~~~~~~~~~~l~~l~~de------~-----~Le~K---Iekkk~ELER~qKRL~sLq~vRPAfmd  225 (267)
T PF10234_consen  160 LNEIEKALKEAIKAVQQQLQQTQQQLNNLASDE------A-----NLEAK---IEKKKQELERNQKRLQSLQSVRPAFMD  225 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------H-----HHHHH---HHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence            334445666666777777777777777666665      1     33444   777789999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhh-hcc---HHHHHHHHHHHHH
Q 023704          148 DLNEINGDLAKARDE-SKD---MAAIKAEIETERQ  178 (278)
Q Consensus       148 evq~LekDL~~~~~d-~~k---l~~LkaEIe~Lrq  178 (278)
                      +-..++.||++.=.. ..|   +.-|+.+++....
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   5677777766543

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 [].

>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=93.00  E-value=0.062  Score=44.23  Aligned_cols=29  Identities=34%  Similarity=0.623  Sum_probs=24.4

Q ss_pred             CCccccCCCCCCCCCCCCCCCCCCCccccCC
Q 023704          241 STSYAASYGNPDPGFGGSLYADPYSMHQVQG  271 (278)
Q Consensus       241 ~~~y~~~~gn~~~~~~~~~y~~~y~~~~~~~  271 (278)
                      ..+||.+||  +.||++|+||.+|+.|-++.
T Consensus        74 ~~sYgtsYg--~ggyGsnaYG~~~~~n~yqs  102 (132)
T PF04626_consen   74 VQSYGTSYG--GGGYGSNAYGVQRSVNSYQS  102 (132)
T ss_pred             ecccceeec--CCcccccccCCCcCcccccc
Confidence            368888888  66999999999999997763

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

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=92.98  E-value=11  Score=38.00  Aligned_cols=99  Identities=9%  Similarity=0.197  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          132 RADIEKLCVIKQEMIKDLNEINGDLAKARDE----------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       132 r~ei~~l~~~rqeL~~evq~LekDL~~~~~d----------~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      ...+..+...+++|..+-+.|-.++=+-++.          .+=|.-|+..|+..++.+.   ..+..+.+.+..+.+|.
T Consensus        98 ~ek~~~l~~~~~~L~~~F~~LA~~ile~k~~~f~~~~~~~l~~ll~Pl~e~l~~f~~~v~---~~~~~~~~~~~~L~~qi  174 (475)
T PRK10361         98 DDKIRQMINSEQRLSEQFENLANRIFEHSNRRVDEQNRQSLNSLLSPLREQLDGFRRQVQ---DSFGKEAQERHTLAHEI  174 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence            3334445555556666666665555443322          1113444444454444443   23345778889999999


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHh-HHhh-HHHHH
Q 023704          202 EIMEKNIISVAQQIERLQAELAN-AEKR-ARAAA  233 (278)
Q Consensus       202 q~meknl~~m~~e~eklrael~n-~~~r-~~a~~  233 (278)
                      +.|-.--..|..|..+|--=|-. ...| .||-.
T Consensus       175 ~~L~~~n~~i~~ea~nLt~ALkgd~K~rG~WGE~  208 (475)
T PRK10361        175 RNLQQLNAQMAQEAINLTRALKGDNKTQGNWGEV  208 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCCCcCcchHHH
Confidence            88877778888899888777743 3444 45543

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=92.96  E-value=11  Score=38.05  Aligned_cols=85  Identities=13%  Similarity=0.170  Sum_probs=52.6

Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          110 KSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       110 k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      +.....+.+......+.++.+++.++..+.....++..+...++..+..-+.. ..|+..|..--+.|+.+...+-..|=
T Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~le~~~~~~~ek~~~l~~~~~~L~~~F~~LA~~il  123 (475)
T PRK10361         44 ELSAAKQQITQSEHWRAECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHADDKIRQMINSEQRLSEQFENLANRIF  123 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444555566666666666666666666666777777777666665544 55666666666667777766666665


Q ss_pred             hhhhhc
Q 023704          189 CEKKNR  194 (278)
Q Consensus       189 ~ekk~~  194 (278)
                      .+|...
T Consensus       124 e~k~~~  129 (475)
T PRK10361        124 EHSNRR  129 (475)
T ss_pred             HHHHHH
Confidence            555443

>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=92.88  E-value=3.4  Score=38.56  Aligned_cols=80  Identities=10%  Similarity=0.108  Sum_probs=39.8

Q ss_pred             EeecCC-----CcccccCCccCCCCC------------CCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 023704           10 TTLHNH-----SQFTMSGRRVLREPP------------LSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATH   72 (278)
Q Consensus        10 vtfhp~-----~svTleGD~ydpeG~------------LsGGs~p~~~~~l~~~Le~~L~~q~~eIq~ll~dnqrla~~~   72 (278)
                      +||..+     -+||-+|+.-.|...            |+=|.++  +++.++.+........+-|+....+...     
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  2344555555543333334433222222     


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           73 VALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        73 ~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                         ..+-+.++|+++.+...+.+.+.+
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.

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.86  E-value=12  Score=37.73  Aligned_cols=41  Identities=20%  Similarity=0.273  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      .+++.++-..|...+.||.+......+|..++.++..-|++
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            45555666666666666666666666666666666666555

>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=92.84  E-value=5.1  Score=37.75  Aligned_cols=71  Identities=17%  Similarity=0.277  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK--ARDE--SKDMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~--~~~d--~~kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ++.-+.++..+.-|.+.|...+..|...-+.|..|+.-  .+-.  ..++...+..|+.|-+++.+++..+|--.
T Consensus        55 ~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ  129 (307)
T PF10481_consen   55 VEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQ  129 (307)
T ss_pred             HHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444445555555555444555444432  1111  34555666666666666666666555443

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 [].

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

Probab=92.84  E-value=11  Score=37.49  Aligned_cols=83  Identities=22%  Similarity=0.257  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhccHHHHHHHHH----HHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHH
Q 023704          144 EMIKDLNEINGDLAKARDESKDMAAIKAEIE----TERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       144 eL~~evq~LekDL~~~~~d~~kl~~LkaEIe----~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklr  219 (278)
                      ++...+..|.+++..+..-.+.+.+=+++++    ..+.+..++...++.=||+...+--+++.=++.+-.+...-..|+
T Consensus       158 ~~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~eq~~q~~kl~~~~~E~kk~~~~l~~~l~~~q~~l~eL~~~~~~L~  237 (420)
T COG4942         158 ARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLEELRANESRLK  237 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            3334444444444444333344444444443    444555555556666666666666677777777777888888888


Q ss_pred             HHHHhHH
Q 023704          220 AELANAE  226 (278)
Q Consensus       220 ael~n~~  226 (278)
                      .+|+.++
T Consensus       238 ~~Ias~e  244 (420)
T COG4942         238 NEIASAE  244 (420)
T ss_pred             HHHHHHH
Confidence            8898888

>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=92.81  E-value=13  Score=38.15  Aligned_cols=82  Identities=15%  Similarity=0.193  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          145 MIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      +..+++.+++.+......  .-.+...+..++.+..+|..+-..+|.|-+++..--+....+..-+-.+......|..|+
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  346788888889999999999999999999998888888888888888888777777777


Q ss_pred             HhHH
Q 023704          223 ANAE  226 (278)
Q Consensus       223 ~n~~  226 (278)
                      ....
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

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=92.78  E-value=8.6  Score=36.06  Aligned_cols=106  Identities=12%  Similarity=0.190  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          122 ESMHAELDRVRADIEKLCVI------------KQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~------------rqeL~~evq~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      .-+|.+|.+-...++++...            -+.|.+++..|.++=.++..-  ..+|..|..|+---+..-..+++.+
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            45666666666666665543            467889999999888888766  6789999999977777777788888


Q ss_pred             hhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       188 e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      +..-+--.++-+-+..|...++-+-.+++.-|-||...+|
T Consensus       260 ~eL~dfm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~k  299 (330)
T KOG2991|consen  260 EELYDFMEELDEDVEGMQSTILILQQKLKETRKEIQRLKK  299 (330)
T ss_pred             HHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888888888888888777777765553

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=92.74  E-value=1.4  Score=37.79  Aligned_cols=63  Identities=17%  Similarity=0.393  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      ...+..+|.+++.++..+....+.|.+++..|.+.+.-  .+ ..++..|+.|++.|...|..++.
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            44445555555555555555555555555555543322  11 33444555555555555554443

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 [].

>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=92.74  E-value=0.88  Score=39.07  Aligned_cols=66  Identities=14%  Similarity=0.272  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      .....++...+.++..+...+..|..++....+.|..|+....-..+|+++|+.|+.+.......+
T Consensus         9 ~~~gk~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~   74 (155)
T PF06810_consen    9 AENGKDIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEY   74 (155)
T ss_pred             HHccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            444556666777777888888889999999999999998888888899999999988887544443

The function of this family is unknown.; GO: 0005198 structural molecule activity

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

Probab=92.66  E-value=14  Score=38.32  Aligned_cols=79  Identities=22%  Similarity=0.345  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhh-----hhhh--h--hchhhHHHHHHHHHh
Q 023704          141 IKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAI-----ECEK--K--NRASNHEQREIMEKN  207 (278)
Q Consensus       141 ~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~-----e~ek--k--~~~e~~eq~q~mekn  207 (278)
                      .|..|..++..+......-..+    ..+++.++.+++.+..|++.....+     +||+  |  -+..-+...-.|-+|
T Consensus       420 ~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~~~Rs~Yt~RIlEIv~N  499 (594)
T PF05667_consen  420 HRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKDVNRSAYTRRILEIVKN  499 (594)
T ss_pred             HHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHh
Confidence            3445555555555433322222    2334455555555544444433322     2332  1  123334444555555


Q ss_pred             HHHHHHHHHHHH
Q 023704          208 IISVAQQIERLQ  219 (278)
Q Consensus       208 l~~m~~e~eklr  219 (278)
                      +=-=-.||+|.-
T Consensus       500 I~KQk~eI~KIl  511 (594)
T PF05667_consen  500 IRKQKEEIEKIL  511 (594)
T ss_pred             HHHHHHHHHHHH
Confidence            544444444433

>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=92.66  E-value=5.2  Score=36.47  Aligned_cols=50  Identities=18%  Similarity=0.363  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHH
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEI  173 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEI  173 (278)
                      +..++.++..++..|....+.+...|...+++|.+++.....+...+.+|
T Consensus        54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l  103 (251)
T PF11932_consen   54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQEL  103 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444433343333333

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=92.65  E-value=15  Score=38.59  Aligned_cols=35  Identities=17%  Similarity=0.150  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           66 QRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        66 qrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      +.......-|..+|...+.+|...+..+...+...
T Consensus       190 ~~~~~a~~~L~~ql~~l~~~l~~aE~~l~~fk~~~  224 (754)
T TIGR01005       190 ESNTAAADFLAPEIADLSKQSRDAEAEVAAYRAQS  224 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            33445666788888888888888888888887754

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.

>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=92.65  E-value=5.1  Score=33.15  Aligned_cols=63  Identities=14%  Similarity=0.390  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHH
Q 023704          117 ELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQE  179 (278)
Q Consensus       117 elr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqE  179 (278)
                      +++.+..+|.++..++.++..+..........+...+.....-... ...+..++..++.|..+
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            3566666666666666666666666666666666555555544444 44555555555555443

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

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

Probab=92.60  E-value=18  Score=39.20  Aligned_cols=27  Identities=15%  Similarity=0.279  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATH   72 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~   72 (278)
                      .+-.+++.....+.+.....++...++
T Consensus       337 ~~~~e~~~~~~~l~~~~~ear~~~~q~  363 (980)
T KOG0980|consen  337 QLSREVAQLKAQLENLKEEARRRIEQY  363 (980)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            333333333334444444444444443

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=92.60  E-value=21  Score=40.01  Aligned_cols=38  Identities=26%  Similarity=0.302  Sum_probs=27.3

Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a~  232 (278)
                      .+.+..++-||-.+.+=-+-++.+-+||+-.++|-+..
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            44555666666666666678888888998888886654

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

Probab=92.55  E-value=9.2  Score=40.61  Aligned_cols=79  Identities=22%  Similarity=0.175  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHH--H--
Q 023704           47 LEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVI--E--  122 (278)
Q Consensus        47 Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~--e--  122 (278)
                      |.++|+.+..|+...+.    -|..+..|+..|...+.|++..+....       .--..|.||+.||-.|+...  +  
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----EAVIAMGLQERLENLREEFSKANSQDQ-------LMHPVLMEKIEKLKDEFNKRLSRAP  528 (762)
T ss_pred             HHHHHHHHHHHHHHHHH----HhhhhhhHHHHHHHHHHHHHhcccccc-------cccHHHHHHHHHHHHHHHHhhhccc
Confidence            56666666666555443    456777888888888877777532110       11122555566665554221  2  


Q ss_pred             ---HHHHHHHHHHHHHH
Q 023704          123 ---SMHAELDRVRADIE  136 (278)
Q Consensus       123 ---~lk~El~qlr~ei~  136 (278)
                         .++..++-|++..+
T Consensus       529 n~p~lk~Kle~Lk~~~~  545 (762)
T PLN03229        529 NYLSLKYKLDMLNEFSR  545 (762)
T ss_pred             ccHHHHHHHHHHHHHHH
Confidence               45555555555554

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=92.54  E-value=14  Score=37.76  Aligned_cols=141  Identities=21%  Similarity=0.265  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      ...|.++..+....+..+..+..-|.+...+|+..|..-.+   .|..++.....+.+--+|..++++...-.+      
T Consensus       339 ld~LqEksqile~sv~~l~~~lkDLd~~~~aLs~rld~qEq---tL~~rL~e~~~e~~~~~r~~lekl~~~q~e------  409 (531)
T PF15450_consen  339 LDLLQEKSQILEDSVAELMRQLKDLDDHILALSWRLDLQEQ---TLNLRLSEAKNEWESDERKSLEKLDQWQNE------  409 (531)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Confidence            56778888888888888888888888888999998776555   455667777777777777774544333322      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e  196 (278)
                      +.+.+..++..+..+-....++..++..+..|+.-   - ...-++..-+|..+|+||..+-..+-|-|-+++-
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            33333344444444444455555555555544332   2 4445788899999999999999999998877765

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

Probab=92.45  E-value=18  Score=39.06  Aligned_cols=64  Identities=19%  Similarity=0.211  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL  107 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l  107 (278)
                      .+.+|+.+...+..|+-+-..++++-.+..+||.-++.++.++.-.+-.+.+..+.-+..+.+|
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            5678888887777777777777777777777777777777777777777766666654444444

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=92.44  E-value=2.1  Score=32.03  Aligned_cols=62  Identities=19%  Similarity=0.273  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      +..++..+..+...+.......+.|..+=.....-|...   -..+..|+.|++.|++|+.+.+.
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            444555555555555544444444444333333333322   23345577777777777766553

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=92.43  E-value=14  Score=37.64  Aligned_cols=13  Identities=15%  Similarity=0.325  Sum_probs=5.8

Q ss_pred             HHhHHHHHHHHHH
Q 023704          205 EKNIISVAQQIER  217 (278)
Q Consensus       205 eknl~~m~~e~ek  217 (278)
                      ......|.+++|+
T Consensus       162 ~~~~~~~~~~~~~  174 (514)
T TIGR03319       162 RHEAAKLIKEIEE  174 (514)
T ss_pred             HHHHHHHHHHHHH
Confidence            3344445554443

>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=92.32  E-value=5.1  Score=37.71  Aligned_cols=93  Identities=22%  Similarity=0.286  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH-----
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR-----  201 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~-----  201 (278)
                      .|+.+...+++|..+++.=.=++..++.-|++   --+|.+.-+.++-.|+.|.+.+...|+..-|.+..+..-+     
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            44444555555555555555666666665554   3566777777777788888888888877777776665433     


Q ss_pred             --HHHHHhHHHHHHHHHHHHHHH
Q 023704          202 --EIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       202 --q~meknl~~m~~e~eklrael  222 (278)
                        .-+|.-|.+--..||+|-.||
T Consensus        96 qv~~lEgQl~s~Kkqie~Leqel  118 (307)
T PF10481_consen   96 QVNFLEGQLNSCKKQIEKLEQEL  118 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence              344545555555555555544

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 [].

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

Probab=92.23  E-value=16  Score=37.80  Aligned_cols=27  Identities=22%  Similarity=0.209  Sum_probs=16.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSS   91 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~   91 (278)
                      +.-+-+.+..++.||+..+.-+.-...
T Consensus        52 ~eEleaeyd~~R~Eldqtkeal~q~~s   78 (772)
T KOG0999|consen   52 LEELEAEYDLARTELDQTKEALGQYRS   78 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555666667777777666655433

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=92.10  E-value=7.6  Score=41.09  Aligned_cols=18  Identities=22%  Similarity=0.368  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSL   61 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~l   61 (278)
                      ...||..|+.+.+++.-.
T Consensus        93 ndklE~~Lankda~lrq~  110 (916)
T KOG0249|consen   93 NDKLENELANKDADLRQN  110 (916)
T ss_pred             hHHHHHHHhCcchhhchh
Confidence            456777777666644433

>PF15294 Leu_zip: Leucine zipper

Probab=92.07  E-value=11  Score=35.58  Aligned_cols=81  Identities=19%  Similarity=0.295  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh-----hhhhhhchhhHHHHHHHHHhHHHHHHH
Q 023704          141 IKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI-----ECEKKNRASNHEQREIMEKNIISVAQQ  214 (278)
Q Consensus       141 ~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~-----e~ekk~~~e~~eq~q~meknl~~m~~e  214 (278)
                      ...+|..++..+..++.+.-.| .+..+.|+..|...++++-+.....     +.|||.+.  .-+-.-|-+=|..=.-+
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            3455677788888888887777 7788999999999998888877664     56676653  45555554444444447


Q ss_pred             HHHHHHHHH
Q 023704          215 IERLQAELA  223 (278)
Q Consensus       215 ~eklrael~  223 (278)
                      |--||-.|.
T Consensus       269 iKeLRkrl~  277 (278)
T PF15294_consen  269 IKELRKRLA  277 (278)
T ss_pred             HHHHHHHhc
Confidence            777776653

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

Probab=92.05  E-value=6.3  Score=36.45  Aligned_cols=43  Identities=19%  Similarity=0.259  Sum_probs=31.8

Q ss_pred             hhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHH
Q 023704          188 ECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRAR  230 (278)
Q Consensus       188 e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~  230 (278)
                      |--|.-+.|+=+++....+.+..+-+||++||++=.+-=.+-|
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            4445667777788888888888899999999999655533343

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

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=92.02  E-value=11  Score=35.39  Aligned_cols=46  Identities=15%  Similarity=0.252  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHH
Q 023704           75 LKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRV  120 (278)
Q Consensus        75 L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~  120 (278)
                      |+..+-.++-+.++|..-...++--.|.|.-..|...-.||-|+.-
T Consensus        57 ~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsq  102 (333)
T KOG1853|consen   57 LETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQ  102 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444445555566666666666666666433

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=91.99  E-value=0.94  Score=46.53  Aligned_cols=61  Identities=25%  Similarity=0.367  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      .|.+.+++.=+..+..|+.++.+.||+|..+|..+.          .|+.+|+.+|..-++||..+...||
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            444566666666778888888889999988887765          5666677777777777777666555

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

Probab=91.92  E-value=9.2  Score=36.14  Aligned_cols=86  Identities=19%  Similarity=0.281  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           78 ELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (278)
Q Consensus        78 EL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~  157 (278)
                      .|.--.-||.-|..++...+.+=      |-|-.-+.||.|. ..+.++||.||+.-|+.+....-+--.-||+-=.|| 
T Consensus        83 ~l~dRetEI~eLksQL~RMrEDW------IEEECHRVEAQLA-LKEARkEIkQLkQvieTmrssL~ekDkGiQKYFvDI-  154 (305)
T PF15290_consen   83 RLHDRETEIDELKSQLARMREDW------IEEECHRVEAQLA-LKEARKEIKQLKQVIETMRSSLAEKDKGIQKYFVDI-  154 (305)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhchhhhhHHHHHhhh-
Confidence            33344555556666666555555      6666777788875 445556888888877775554433322233322232 


Q ss_pred             HHhhhhccHHHHHHHH
Q 023704          158 KARDESKDMAAIKAEI  173 (278)
Q Consensus       158 ~~~~d~~kl~~LkaEI  173 (278)
                        +-.+.||..|-.-.
T Consensus       155 --NiQN~KLEsLLqsM  168 (305)
T PF15290_consen  155 --NIQNKKLESLLQSM  168 (305)
T ss_pred             --hhhHhHHHHHHHHH
Confidence              22355555554433

>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=91.87  E-value=11  Score=36.68  Aligned_cols=86  Identities=19%  Similarity=0.307  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhh--hHhHHHHHHHHHHHhhhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           74 ALKQELSLAEQELRHLSSVAASV--KAERDAEVRELYEKSLKLDAELRV----IESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        74 ~L~qEL~laqhEL~~l~~~i~~~--~ae~e~~~r~l~~k~~kleaelr~----~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      .+.+.|....+++..+...-...  ..+.+..|-+||+..-+++.=.-.    ++-|+ -|..+|.++.........|..
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            33444444444444443322222  345577788888888887765322    23332 444555555555555555555


Q ss_pred             HHHHHHHHHHHHh
Q 023704          148 DLNEINGDLAKAR  160 (278)
Q Consensus       148 evq~LekDL~~~~  160 (278)
                      ....|..+|..|.
T Consensus       344 ~q~~l~~~l~~~~  356 (388)
T PF04912_consen  344 QQSDLQSQLKKWE  356 (388)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555544443

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

>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=91.75  E-value=8.8  Score=33.90  Aligned_cols=66  Identities=15%  Similarity=0.248  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      ...+..+|..+..++..|.....++..++..+++...+...  ...+....||+.|+...+++++.++
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  2334456666666666666665543

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 [].

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

Probab=91.66  E-value=1.5  Score=40.46  Aligned_cols=41  Identities=17%  Similarity=0.251  Sum_probs=35.6

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHH
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~m  204 (278)
                      ++..+|++|+..+++++..++..++--|+-|..++|..+=+
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            34578999999999999999999999999999999987763

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

>PRK11546 zraP zinc resistance protein; Provisional

Probab=91.39  E-value=1.4  Score=37.52  Aligned_cols=40  Identities=25%  Similarity=0.267  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          148 DLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       148 evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      +-..|...+..-..|.++|.+|..||..|+.+|...|..+
T Consensus        73 Kr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~  112 (143)
T PRK11546         73 KRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKR  112 (143)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344455556678899999999999999888777643

>PRK12704 phosphodiesterase; Provisional

Probab=91.33  E-value=19  Score=36.81  Aligned_cols=13  Identities=15%  Similarity=0.296  Sum_probs=5.9

Q ss_pred             HHhHHHHHHHHHH
Q 023704          205 EKNIISVAQQIER  217 (278)
Q Consensus       205 eknl~~m~~e~ek  217 (278)
                      ......|.+++|.
T Consensus       168 ~~~~~~~~~~~~~  180 (520)
T PRK12704        168 RHEAAVLIKEIEE  180 (520)
T ss_pred             HHHHHHHHHHHHH
Confidence            3344445555443

>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit

Probab=91.22  E-value=8.5  Score=32.68  Aligned_cols=36  Identities=22%  Similarity=0.236  Sum_probs=24.6

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 023704           63 QDNQRLAATHVALKQELSLAEQELRHLSSVAASVKA   98 (278)
Q Consensus        63 ~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~a   98 (278)
                      -+...+...+.+|.+.|....|-|..|+..+....+
T Consensus        20 ~~~e~ll~~~~~LE~qL~~~~~~l~lLq~e~~~~e~   55 (160)
T PF13094_consen   20 FDYEQLLDRKRALERQLAANLHQLELLQEEIEKEEA   55 (160)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666777777777777777777777776664433

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=91.11  E-value=30  Score=38.81  Aligned_cols=51  Identities=22%  Similarity=0.290  Sum_probs=31.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH---HHHHHHHHHHhhhhH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAER---DAEVRELYEKSLKLD  115 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~---e~~~r~l~~k~~kle  115 (278)
                      .++......+-++..+....+|+.|-..+.++-...   -.+|+++.++.++||
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            344555566667777777777777777666544332   345666666666554

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

Probab=90.98  E-value=21  Score=38.43  Aligned_cols=29  Identities=24%  Similarity=0.196  Sum_probs=22.5

Q ss_pred             hhhhhchhhHHHHHHHHHhHHHHHHHHHH
Q 023704          189 CEKKNRASNHEQREIMEKNIISVAQQIER  217 (278)
Q Consensus       189 ~ekk~~~e~~eq~q~meknl~~m~~e~ek  217 (278)
                      .+.++.++.++.+..-++|+..-+.-|++
T Consensus       827 ~~tsa~a~~le~m~~~~~~la~e~~~ieq  855 (970)
T KOG0946|consen  827 ERTSAAADSLESMGSTEKNLANELKLIEQ  855 (970)
T ss_pred             HHHHhhhhhhHHhhccccchhhHHHHHHH
Confidence            35578888888888888888777766666

>COG4913 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.95  E-value=25  Score=37.63  Aligned_cols=28  Identities=29%  Similarity=0.457  Sum_probs=23.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023704          198 HEQREIMEKNIISVAQQIERLQAELANA  225 (278)
Q Consensus       198 ~eq~q~meknl~~m~~e~eklrael~n~  225 (278)
                      .++.+-+.|-+.....++-.||.+|..+
T Consensus       775 ~~~r~~LqkrIDa~na~Lrrl~~~Iig~  802 (1104)
T COG4913         775 IEHRRQLQKRIDAVNARLRRLREEIIGR  802 (1104)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence            5677888889999999999999998654

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

Probab=90.92  E-value=2.8  Score=33.13  Aligned_cols=66  Identities=18%  Similarity=0.348  Sum_probs=37.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhh
Q 023704          114 LDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       114 leaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      ...++..+-.+-.+..++..+++.+.+.+..++.+|..+.+.       +....+|++++..++.++..+...
T Consensus        24 ~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~-------~~~~~~l~~e~~~lk~~i~~le~~   89 (108)
T PF02403_consen   24 DEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKA-------GEDAEELKAEVKELKEEIKELEEQ   89 (108)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHT-------TCCTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhC-------cccHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555666666667777777777777777666666542       334445555555555555444433

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 ....

>PRK10869 recombination and repair protein; Provisional

Probab=90.88  E-value=15  Score=37.63  Aligned_cols=67  Identities=7%  Similarity=-0.007  Sum_probs=45.3

Q ss_pred             HHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          154 GDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       154 kDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      ..+.++... +.-+.++.+-.+.+++++..+...-+.    ..++-.+....++.|...|.++-+.|-+.|.
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            344445555 667888888888888888776554433    3345566777778888888888777776543

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=90.85  E-value=17  Score=35.47  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=13.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHH
Q 023704          201 REIMEKNIISVAQQIERLQAELA  223 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~  223 (278)
                      ....+..+.....++..++.++.
T Consensus       229 ~~~~~~~l~~~~~~l~~~~~~l~  251 (421)
T TIGR03794       229 LETVEARIKEARYEIEELENKLN  251 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444555566666666666664

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.

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=90.70  E-value=0.073  Score=55.72  Aligned_cols=125  Identities=17%  Similarity=0.216  Sum_probs=0.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH----------------HHHHHHHHHHhhhhHHHHHHHH
Q 023704           59 QSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER----------------DAEVRELYEKSLKLDAELRVIE  122 (278)
Q Consensus        59 q~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~----------------e~~~r~l~~k~~kleaelr~~e  122 (278)
                      +....+....+....+|+.||+..+|.-..+...-..+..-+                +.+.+.++++...||.++++..
T Consensus       280 ~q~~~eL~~~A~~a~~LrDElD~lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~  359 (713)
T PF05622_consen  280 RQENEELQAEAREARALRDELDELREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKAR  359 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            333445566778889999999998886655433222222211                4455667888889999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhh
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      .++.++..++..|.+|.....+...++..+..++..+..   ++..|..+.+.+..+...++..
T Consensus       360 ~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~L~e---k~~~l~~eke~l~~e~~~L~e~  420 (713)
T PF05622_consen  360 ALKSQLEEYKKQIQELEQKLSEESRRADKLEFENKQLEE---KLEALEEEKERLQEERDSLRET  420 (713)
T ss_dssp             ----------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999888888888888877777666543   3334444444444444444433

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.

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

Probab=90.64  E-value=11  Score=37.33  Aligned_cols=48  Identities=10%  Similarity=0.113  Sum_probs=25.6

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGD  155 (278)
Q Consensus       105 r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekD  155 (278)
                      +.+..+..+.|.+   +..++.|..|+..+.-...+..+-++.++..++.+
T Consensus        44 ~ai~a~~~~~E~~---l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~   91 (459)
T KOG0288|consen   44 RAIKAKLQEKELE---LNRLQEENTQLNEERVREEATEKTLTVDVLIAENL   91 (459)
T ss_pred             HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4454555555555   33445556666655555555555555555555544

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

Probab=90.62  E-value=19  Score=35.75  Aligned_cols=26  Identities=31%  Similarity=0.350  Sum_probs=17.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          201 REIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +.+-|.-+-=+.+||.-||-||..+-
T Consensus       514 LRVKEsEiQYLKqEissLkDELQtal  539 (593)
T KOG4807|consen  514 LRVKESEIQYLKQEISSLKDELQTAL  539 (593)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556667778888888887663

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=90.61  E-value=13  Score=33.80  Aligned_cols=131  Identities=14%  Similarity=0.227  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q 023704           82 AEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK---  158 (278)
Q Consensus        82 aqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~---  158 (278)
                      ....|..+..++.++...-      -.++-.+=+.+-.+...++..|..+...|+.-...|.+....++..-...-.   
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 023704          159 --ARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       159 --~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                        +.+. ..+...+..-++.|-..+..+...+..|+.......      |.+..++.++|..|+.-+.+
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

>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=90.60  E-value=8.9  Score=36.54  Aligned_cols=97  Identities=21%  Similarity=0.373  Sum_probs=59.2

Q ss_pred             HHHHHHHHhHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 023704           57 DIQSLLQDNQRLAAT----HVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVR  132 (278)
Q Consensus        57 eIq~ll~dnqrla~~----~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr  132 (278)
                      -|++.+.|.||....    .+.|+.|++..--.|   .+.+..++.-       |          +.+=.+|-+|++.++
T Consensus       154 nIEKSvKDLqRctvSL~RYr~~lkee~d~S~k~i---k~~F~~l~~c-------L----------~dREvaLl~EmdkVK  213 (302)
T PF07139_consen  154 NIEKSVKDLQRCTVSLTRYRVVLKEEMDSSIKKI---KQTFAELQSC-------L----------MDREVALLAEMDKVK  213 (302)
T ss_pred             cHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH---HHHHHHHHHH-------H----------HHHHHHHHHHHHHHH
Confidence            688888888875433    344555554443322   2223322221       3          344456778999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHH
Q 023704          133 ADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIET  175 (278)
Q Consensus       133 ~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~  175 (278)
                      +|.-++-..||.=..++.+++.-...+.  ..||.+|++||+-
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            9999999999888888888874433322  4556666666543

>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=90.54  E-value=31  Score=37.94  Aligned_cols=18  Identities=22%  Similarity=0.457  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023704           74 ALKQELSLAEQELRHLSS   91 (278)
Q Consensus        74 ~L~qEL~laqhEL~~l~~   91 (278)
                      .|.+.+.-.+..|..|..
T Consensus       192 ~Le~~~~~~~~~l~~L~~  209 (1072)
T KOG0979|consen  192 SLEDKLTTKTEKLNRLED  209 (1072)
T ss_pred             HHHHHHHHhHHHHHHHHH
Confidence            333333333333333333

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

Probab=90.53  E-value=6.7  Score=34.64  Aligned_cols=50  Identities=20%  Similarity=0.348  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhh
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      .+....++|..++..|.+++..+... ..++..++.++..++..+.+-.--
T Consensus       107 ~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~anrwTDN  157 (188)
T PF03962_consen  107 ELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKIAKEAANRWTDN  157 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34444555555566666666655544 667777777777777766654433

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

>PRK03598 putative efflux pump membrane fusion protein; Provisional

Probab=90.52  E-value=7.9  Score=36.33  Aligned_cols=9  Identities=22%  Similarity=0.379  Sum_probs=6.0

Q ss_pred             CcccccCCc
Q 023704           16 SQFTMSGRR   24 (278)
Q Consensus        16 ~svTleGD~   24 (278)
                      +.|++.|++
T Consensus        31 ~~~~v~G~v   39 (331)
T PRK03598         31 NGLTLYGNV   39 (331)
T ss_pred             cceEEEEEE
Confidence            445777777

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=90.52  E-value=15  Score=34.26  Aligned_cols=62  Identities=11%  Similarity=0.078  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHhhh-hccHHHHH----HHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHH
Q 023704          145 MIKDLNEINGDLAKARDE-SKDMAAIK----AEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d-~~kl~~Lk----aEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      ...++...+.++...+++ ..+++.+.    .++..+.....+..+........+...+.+..+|..
T Consensus       187 ~~~~~~~~~~~l~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~a~~~~~~~~~~G~l~R~~Al~~  253 (301)
T PF14362_consen  187 KRAQLDAAQAELDTLQAQIDAAIAALDAQIAARKARLDEARQAKVAEFQAIISANDGFLARLEALWE  253 (301)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHhhccCCCHHHHHHHHHH
Confidence            333444444444444444 44555555    666666666666666666666777777777777653

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=90.44  E-value=14  Score=33.75  Aligned_cols=111  Identities=20%  Similarity=0.266  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH----HHHHhhhhhhhhhhhhc
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETER----QEIHKGRAAIECEKKNR  194 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~Lr----qEl~~~raa~e~ekk~~  194 (278)
                      ..+..++.++.+++..+-++.+..+.+..++..+..++.++....  ..+|.+.-+.|-    .+++.+...++-.+...
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 QAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKA--ELALQAGNEDLAREALEEKQSLEDLAKALEAEL  108 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446777788888888888888888888888888888888877542  123333333333    33444455555555666


Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a  231 (278)
                      ...-++...|++++..+-.-|..+|+...-..-|..+
T Consensus       109 ~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~~  145 (225)
T COG1842         109 QQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKAA  145 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677777888888888888888888887666655433

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=90.41  E-value=7.1  Score=33.36  Aligned_cols=49  Identities=27%  Similarity=0.333  Sum_probs=41.6

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          183 GRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       183 ~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a  231 (278)
                      ...++|+-||-..++-.-.+.|+.+|-.+++.+..++.++.-.-.+..+
T Consensus        92 ~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q~~~~  140 (145)
T COG1730          92 ADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQKQAA  140 (145)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567888888888888999999999999999999999999776666544

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

Probab=90.37  E-value=1.2  Score=42.92  Aligned_cols=48  Identities=23%  Similarity=0.113  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ  213 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~  213 (278)
                      ...|+++++.|.++++.+.+.||-.|+.-.|.++...-.+-+=|.++.
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            445566666666666666667776666666655555544444444444

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

Probab=90.30  E-value=31  Score=37.67  Aligned_cols=35  Identities=23%  Similarity=0.256  Sum_probs=15.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAE   99 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae   99 (278)
                      |.||-++.+.|+.=.+-.+|+.+.+..-+...++|
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            44444444444444444444444444444433333

>PRK00106 hypothetical protein; Provisional

Probab=90.30  E-value=24  Score=36.28  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=10.5

Q ss_pred             HhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023704          206 KNIISVAQQIERLQAELANAEKRARAA  232 (278)
Q Consensus       206 knl~~m~~e~eklrael~n~~~r~~a~  232 (278)
                      .....+.+++|.-=.+  +|++.|+--
T Consensus       184 ~~~~~~i~~~e~~a~~--~a~~~a~~i  208 (535)
T PRK00106        184 HEIATRIREAEREVKD--RSDKMAKDL  208 (535)
T ss_pred             HHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence            3344444444432221  445555543

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

Probab=90.29  E-value=6.1  Score=34.91  Aligned_cols=75  Identities=19%  Similarity=0.293  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHH
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQRE  202 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q  202 (278)
                      ++..+..+..++..+.....+|..++......-.    +...=..+.++++.|+.++..+.+.++--++...+.+++++
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    12223345555666666666666665544445555554443

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

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=90.27  E-value=17  Score=34.64  Aligned_cols=91  Identities=22%  Similarity=0.330  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH-----HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           70 ATHVALKQELSLAEQELRHLSSVAASVKAER-----DAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQE  144 (278)
Q Consensus        70 ~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~-----e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqe  144 (278)
                      ....-++++|..++.+|...+..+...+...     +.+....          ...+..++.++.+++.+          
T Consensus       170 ~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~----------~~~i~~L~~~l~~~~~~----------  229 (362)
T TIGR01010       170 DTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQ----------LSLISTLEGELIRVQAQ----------  229 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHH----------HHHHHHHHHHHHHHHHH----------
Confidence            4555667777777777777777766666554     1111111          22222222222222222          


Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                          +..+..   .+..+.-++..++++|+.++..|......+
T Consensus       230 ----l~~l~~---~~~~~~P~v~~l~~~i~~l~~~i~~e~~~i  265 (362)
T TIGR01010       230 ----LAQLRS---ITPEQNPQVPSLQARIKSLRKQIDEQRNQL  265 (362)
T ss_pred             ----HHHHHh---hCCCCCCchHHHHHHHHHHHHHHHHHHHHh
Confidence                222111   222336778888888888888887765544

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=90.21  E-value=20  Score=36.96  Aligned_cols=58  Identities=7%  Similarity=0.172  Sum_probs=35.6

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      +..++.+-+-.+.++.|+..+...-+-.+.    +-.+.+.+...+...|..+-+.|...|+
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            555777777777777777777665543332    2334555666666666666666665544

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=90.12  E-value=20  Score=37.85  Aligned_cols=82  Identities=15%  Similarity=0.284  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ....+++|..++.++..+.....++..++..+.+++++....   +..+..++..+...+....    -|+..+-.+.-+
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            344455566666666666666666666666666666653322   2223333333333333222    334445555555


Q ss_pred             HHHHHHhHH
Q 023704          201 REIMEKNII  209 (278)
Q Consensus       201 ~q~meknl~  209 (278)
                      .+-+.-|+=
T Consensus       309 i~eLkGnIR  317 (670)
T KOG0239|consen  309 ILELKGNIR  317 (670)
T ss_pred             HHHhhcCce
Confidence            555555543

>PRK10698 phage shock protein PspA; Provisional

Probab=89.98  E-value=14  Score=33.33  Aligned_cols=88  Identities=16%  Similarity=0.245  Sum_probs=49.1

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHhHHHHHHH-------HHHHhhhhHHHH----HHHHHHHHHHHHH
Q 023704           64 DNQRLAATHVALKQELSLAEQELRHLSSVAA-SVKAERDAEVRE-------LYEKSLKLDAEL----RVIESMHAELDRV  131 (278)
Q Consensus        64 dnqrla~~~~~L~qEL~laqhEL~~l~~~i~-~~~ae~e~~~r~-------l~~k~~kleael----r~~e~lk~El~ql  131 (278)
                      ..-+..+....+++++..++..+.....+.. .+....|.--|+       ..+++..|+.++    ..++.++..+.++
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 344445555565       445555555554    2334556666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 023704          132 RADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus       132 r~ei~~l~~~rqeL~~evq~  151 (278)
                      +..|.++...+..|.+..+.
T Consensus       126 ~~ki~eak~k~~~L~aR~~~  145 (222)
T PRK10698        126 ENKLSETRARQQALMLRHQA  145 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666555443

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=89.94  E-value=5.3  Score=29.84  Aligned_cols=41  Identities=22%  Similarity=0.279  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHH
Q 023704           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL  107 (278)
Q Consensus        67 rla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l  107 (278)
                      +|-+....|+..|..+...+......+..+..|+|.-++.|
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            45667778888888888888887777777777776555555

>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=89.91  E-value=12  Score=34.18  Aligned_cols=60  Identities=22%  Similarity=0.366  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hh----hccHHHHHHHHHHHHHHHHhhhhh
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR-------DE----SKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~-------~d----~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      =|.+++.++..|..++.....+++.|.+|++.+.       ++    ...+..+..|+..|+.++.++|..
T Consensus        33 ~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   33 CLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555555555555544432       22    122333444555555555555555

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.

>PF14992 TMCO5: TMCO5 family

Probab=89.89  E-value=13  Score=35.19  Aligned_cols=25  Identities=16%  Similarity=0.341  Sum_probs=14.2

Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAE  221 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrae  221 (278)
                      +.++++.- +|++.-+-+|+.|-.-.
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            33466666 66666666666555443

>TIGR01069 mutS2 MutS2 family protein

Probab=89.87  E-value=20  Score=38.28  Aligned_cols=24  Identities=13%  Similarity=0.081  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHH
Q 023704           49 DRIAIQHSDIQSLLQDNQRLAATH   72 (278)
Q Consensus        49 ~~L~~q~~eIq~ll~dnqrla~~~   72 (278)
                      +-+.....++..++.+..+.-.+.
T Consensus       504 ~~~~~~~~~~~~li~~L~~~~~~~  527 (771)
T TIGR01069       504 TFYGEFKEEINVLIEKLSALEKEL  527 (771)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHH
Confidence            333333334555554444333333

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.

>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=89.83  E-value=17  Score=37.14  Aligned_cols=93  Identities=17%  Similarity=0.336  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ++.+-.+++.+.+...-....++.|...+...+++          ...+..+++.+.+.+.++....+=-++.|-   +|
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            44444444444444444444444444444433332          233444444444444444433333333322   68


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          201 REIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +.+|.--|++|.-.+.+-+.||.+-+
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.

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

Probab=89.83  E-value=20  Score=38.57  Aligned_cols=41  Identities=17%  Similarity=0.386  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704           54 QHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        54 q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~   94 (278)
                      +..++...+.+++++-..-.-|..+|+-....++.++....
T Consensus       735 ~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~  775 (970)
T KOG0946|consen  735 QNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQR  775 (970)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            33356666666666665555555666555555555544444

>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=89.77  E-value=6.9  Score=39.85  Aligned_cols=116  Identities=25%  Similarity=0.290  Sum_probs=73.2

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023704          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (278)
Q Consensus       105 r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~r  184 (278)
                      |...+|+--||.|   ++.++.+++..+..|..|...|++|+.+|-.|+.--+..+.-   +-+-+.|+   -.-+.++-
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            4567788888988   778888999999999999999999999998887544333221   11222222   11112222


Q ss_pred             hhhhh---hhhhchh----------hHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023704          185 AAIEC---EKKNRAS----------NHEQREIMEKNIISVAQQIERLQAELANAEKRA  229 (278)
Q Consensus       185 aa~e~---ekk~~~e----------~~eq~q~meknl~~m~~e~eklrael~n~~~r~  229 (278)
                      +-|+.   -||.+.-          |+.=...|.||-|..+-|-..|.|||-.++.|-
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            22211   1222222          223344567777888888899999998888554

These sequences are highly similar and the region concerned is about 100 residues long.

>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=89.60  E-value=10  Score=30.90  Aligned_cols=66  Identities=20%  Similarity=0.319  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~  197 (278)
                      ..+..+|........+|...+.+|.+-++.|...-..+   .+++.+|+++       |..++..++.||-++.++
T Consensus        19 a~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~---~qr~~eLqak-------i~ea~~~le~eK~ak~~l   84 (107)
T PF09304_consen   19 ASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASR---NQRIAELQAK-------IDEARRNLEDEKQAKLEL   84 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence            33444444445555555555555555555555332221   2334444444       444445555555444433

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.

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=89.52  E-value=19  Score=34.03  Aligned_cols=18  Identities=6%  Similarity=-0.018  Sum_probs=8.3

Q ss_pred             CcccccCCccCCCCCCCC
Q 023704           16 SQFTMSGRRVLREPPLST   33 (278)
Q Consensus        16 ~svTleGD~ydpeG~LsG   33 (278)
                      ..-++++|..+-....+|
T Consensus        40 ~~~~v~~~~v~v~~~v~G   57 (346)
T PRK10476         40 DDAYIDADVVHVASEVGG   57 (346)
T ss_pred             CCeEEEeeeEEEcccCce
Confidence            334445555554444443

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

Probab=89.51  E-value=16  Score=33.19  Aligned_cols=20  Identities=25%  Similarity=0.285  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhh
Q 023704           75 LKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        75 L~qEL~laqhEL~~l~~~i~   94 (278)
                      ++.+|...+.+...+..++.
T Consensus        25 ~~~~l~~~~~~~~~l~~~i~   44 (302)
T PF10186_consen   25 LRSELQQLKEENEELRRRIE   44 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444333

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

>cd07632 BAR_APPL2 The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing 2

Probab=89.39  E-value=16  Score=33.12  Aligned_cols=114  Identities=18%  Similarity=0.197  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMH  125 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk  125 (278)
                      .+|+--.....=...++...+|+..    .+++|.+|.|+++.+......-+..-                 -..-+.+.
T Consensus         6 v~~e~~~~~~~~~~~l~~~~~~~~~----~~~~~~~a~~~~s~~l~~~~~~~~~~-----------------~~~D~~v~   64 (215)
T cd07632           6 VFEEDAGTLTDYTNQLLQAMQRVYG----AQNEMCLATQQLSKQLLAYEKQNFAL-----------------GKGDEEVI   64 (215)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHHHH----hHHHHHHHHHHHHHHHHHHHHhcCCC-----------------CCCcHHHH
Confidence            3344333333334455666666655    45999999999998866555433221                 11223334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhh-hccHHHHHHHHHHHHHHH
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDL-NEINGDLAKARDE-SKDMAAIKAEIETERQEI  180 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~ev-q~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl  180 (278)
                      .-|.+.-.-++++...+.+|..++ ..+..-|..|..+ ..+++++|+..+....++
T Consensus        65 ~sL~kFs~~L~el~~~h~~L~dqaq~sl~~pL~~F~KeDl~~vKe~KK~FdK~Se~~  121 (215)
T cd07632          65 STLQYFAKVVDELNVLHSELAKQLADTMVLPIIQFREKDLTEVSTLKDLFGIASNEH  121 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            445555566666677777777777 4778888889887 788888888888877764

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

>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway

Probab=89.33  E-value=8.1  Score=29.71  Aligned_cols=86  Identities=21%  Similarity=0.353  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEIN--GDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNH  198 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~Le--kDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~  198 (278)
                      +.....++..+...+..|...+.++...+....  -.+..+..-..-+..|...|..++.++..++..++.-.+...+..
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            344445556666666666666666644444333  111333333455666677777777777777777766666666666


Q ss_pred             HHHHHHHH
Q 023704          199 EQREIMEK  206 (278)
Q Consensus       199 eq~q~mek  206 (278)
                      -..++||+
T Consensus        87 ~~~k~~e~   94 (123)
T PF02050_consen   87 RERKKLEK   94 (123)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666554

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.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=89.16  E-value=28  Score=38.36  Aligned_cols=94  Identities=15%  Similarity=0.259  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ++.++.+|.+++............|..+...+++.|....          .++..++.+++++...+..+    .+.   
T Consensus       457 l~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~----------~el~~~~ee~~~~~~~l~~~----e~i---  519 (1041)
T KOG0243|consen  457 LENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKN----------KELESLKEELQQAKATLKEE----EEI---  519 (1041)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH----HHH---
Confidence            5555555555555555444445566666666666555533          23334444444444332211    122   


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          201 REIMEKNIISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       201 ~q~meknl~~m~~e~eklrael~n~~~r~~a  231 (278)
                      .+.|+++-....+-..+||..+..+.+.-.+
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            3334444444444477788888777655443

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=89.13  E-value=31  Score=35.88  Aligned_cols=35  Identities=23%  Similarity=0.341  Sum_probs=18.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSS   91 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~   91 (278)
                      ++..+-.+.+.+..+...++.++..++.++..+..
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            44444444555555555666666655555554444

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.

>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=89.12  E-value=7.6  Score=29.27  Aligned_cols=9  Identities=33%  Similarity=0.774  Sum_probs=4.6

Q ss_pred             hHHHHHHHH
Q 023704           99 ERDAEVREL  107 (278)
Q Consensus        99 e~e~~~r~l  107 (278)
                      ++|.+|..|
T Consensus         9 EKDe~Ia~L   17 (74)
T PF12329_consen    9 EKDEQIAQL   17 (74)
T ss_pred             hHHHHHHHH
Confidence            445555555

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.

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

Probab=88.93  E-value=24  Score=35.28  Aligned_cols=15  Identities=20%  Similarity=0.116  Sum_probs=10.4

Q ss_pred             hhhhhhhchhhHHHH
Q 023704          187 IECEKKNRASNHEQR  201 (278)
Q Consensus       187 ~e~ekk~~~e~~eq~  201 (278)
                      |..||++-.|+.|.+
T Consensus       365 fq~ekeatqELieel  379 (502)
T KOG0982|consen  365 FQEEKEATQELIEEL  379 (502)
T ss_pred             HHHhhHHHHHHHHHH
Confidence            777777777776654

>smart00503 SynN Syntaxin N-terminal domain

Probab=88.79  E-value=9.9  Score=29.78  Aligned_cols=64  Identities=16%  Similarity=0.358  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDL---NEINGDLAKARDE-SKDMAAIKAEIETERQEIH  181 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev---q~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~  181 (278)
                      +..++.++.+|..++..+..+......+....   ..+..+|.....+ ......++..|+.|.....
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            34455555566666655555555555554333   3455555555555 4555666666666655544

Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.72  E-value=35  Score=36.02  Aligned_cols=63  Identities=14%  Similarity=0.281  Sum_probs=38.3

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHH---HHHHHHHHHHHhHH
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVA---QQIERLQAELANAE  226 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~---~e~eklrael~n~~  226 (278)
                      +++..|++++..++.+.......++.-.+....+..++...+.+|+.--   .+--||+.+|.-.+
T Consensus       248 ~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~e~~~r~kL~N~i~eLk  313 (670)
T KOG0239|consen  248 QELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKKKEKEERRKLHNEILELK  313 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3344555666666666666666666666666666777777777777665   33445555554443

>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=88.71  E-value=16  Score=32.76  Aligned_cols=89  Identities=12%  Similarity=0.199  Sum_probs=47.6

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhh-hhhh-----hhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHHH---
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAI-ECEK-----KNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAAA---  233 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~-e~ek-----k~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a~~---  233 (278)
                      ..++-.++.++-.++.-+...+..+ +.-+     ....+..+..+.....+..+...++.++..+.+...--.+..   
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            5566666666666666666666666 3332     233334444566666666666666666665554432211111   


Q ss_pred             ----------HhhhcCC----CCccccCCC-CC
Q 023704          234 ----------AAAAVNP----STSYAASYG-NP  251 (278)
Q Consensus       234 ----------~a~~~~~----~~~y~~~~g-n~  251 (278)
                                .+.+.-|    .|-||||+. -|
T Consensus       230 ~n~~m~~LT~~t~iflPlt~i~g~fGMN~~~~p  262 (292)
T PF01544_consen  230 QNRVMKVLTIVTAIFLPLTFITGIFGMNFKGMP  262 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSTTS-SS---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCCccCCC
Confidence                      1344444    579999997 44

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.

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

Probab=88.65  E-value=4.3  Score=32.04  Aligned_cols=16  Identities=31%  Similarity=0.499  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023704          122 ESMHAELDRVRADIEK  137 (278)
Q Consensus       122 e~lk~El~qlr~ei~~  137 (278)
                      +.++++--.+..+|..
T Consensus        46 e~lr~~rN~~sk~I~~   61 (108)
T PF02403_consen   46 EELRAERNELSKEIGK   61 (108)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHH
Confidence            3333333333333333

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 ....

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=88.64  E-value=23  Score=35.41  Aligned_cols=56  Identities=14%  Similarity=0.140  Sum_probs=40.3

Q ss_pred             hhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023704          162 ESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRA  229 (278)
Q Consensus       162 d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~  229 (278)
                      +.-+++.|+.+|..|+++|...|..+--.. +. .          .+.....|-|.|.-|..-|++.=
T Consensus       312 ~sPqV~~l~~rI~aLe~QIa~er~kl~~~~-g~-~----------~la~~laeYe~L~le~efAe~~y  367 (434)
T PRK15178        312 QNPLIPRLSAKIKVLEKQIGEQRNRLSNKL-GS-Q----------GSSESLSLFEDLRLQSEIAKARW  367 (434)
T ss_pred             CCCchhHHHHHHHHHHHHHHHHHHHhhcCC-CC-C----------chhHHHHHHHHHHHHHHHHHHHH
Confidence            589999999999999999998888774221 10 0          33456667788887777777653

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=88.63  E-value=19  Score=34.01  Aligned_cols=13  Identities=8%  Similarity=0.171  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHhHH
Q 023704          214 QIERLQAELANAE  226 (278)
Q Consensus       214 e~eklrael~n~~  226 (278)
                      +++..+..|.++.
T Consensus       198 ~l~~a~~~l~~~~  210 (346)
T PRK10476        198 ALAIAELHLEDTT  210 (346)
T ss_pred             HHHHHHHHhhcCE
Confidence            3444444454443

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=88.61  E-value=19  Score=32.84  Aligned_cols=47  Identities=23%  Similarity=0.266  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhHhHHHHHHHHHHHhhhh
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVA-ASVKAERDAEVRELYEKSLKL  114 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i-~~~~ae~e~~~r~l~~k~~kl  114 (278)
                      +...+..|..+++-++.....+..+. ..+....|.--|+.+++...+
T Consensus        50 ~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LAr~al~~~~~l   97 (225)
T COG1842          50 AIARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLAREALEEKQSL   97 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            33444444444444444444443222 223333455555553333333

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

Probab=88.54  E-value=9.9  Score=33.75  Aligned_cols=35  Identities=29%  Similarity=0.395  Sum_probs=27.6

Q ss_pred             hHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHH
Q 023704          197 NHEQREIMEKNIISVAQQIERLQAELANAEKRARA  231 (278)
Q Consensus       197 ~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a  231 (278)
                      ..+..+++.+.+.+|..++++|-.++.|++-+=..
T Consensus       150 ~~~~ke~~~~ei~~lks~~~~l~~~~~~~e~~F~~  184 (190)
T PF05266_consen  150 LKEKKEAKDKEISRLKSEAEALKEEIENAELEFQS  184 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456677788999999999999999999977444

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=88.34  E-value=26  Score=37.49  Aligned_cols=49  Identities=12%  Similarity=0.131  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSV   92 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~   92 (278)
                      .+..++.+.....++.+++.+....-.+....++++.....++..+...
T Consensus       504 i~~A~~~~~~~~~~~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~  552 (782)
T PRK00409        504 IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEE  552 (782)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444666666555544444444444444444444444333

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

Probab=88.26  E-value=4.6  Score=35.95  Aligned_cols=64  Identities=22%  Similarity=0.302  Sum_probs=57.0

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      .+.+.+|.++++.+++.+-.++..||.+|.++-+--+.-...++.+-+.-.+++-||.||++..
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            5678899999999999999999999999999876655555999999999999999999999876

>KOG4687 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=88.26  E-value=24  Score=33.54  Aligned_cols=86  Identities=28%  Similarity=0.262  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           67 RLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMI  146 (278)
Q Consensus        67 rla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~  146 (278)
                      .++.....|+..|...+.+++++..---+...+---+..+|          +..++..+.|-.+++.+.+.|.....+|.
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            34444455555555555555555443333333222222233          44477777777888888888888888888


Q ss_pred             HHHHHHHHHHHHHhhh
Q 023704          147 KDLNEINGDLAKARDE  162 (278)
Q Consensus       147 ~evq~LekDL~~~~~d  162 (278)
                      .+..-+.+-...|.+.
T Consensus       118 gD~elfReTeAq~ese  133 (389)
T KOG4687|consen  118 GDCELFRETEAQFESE  133 (389)
T ss_pred             chHHHHHHHHHHHHHH
Confidence            8877777777777655

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=88.20  E-value=18  Score=32.07  Aligned_cols=72  Identities=24%  Similarity=0.281  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhHhHHHHHHHHHHHhhhhHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS-VKAERDAEVRELYEKSLKLDAE  117 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~-~~ae~e~~~r~l~~k~~kleae  117 (278)
                      .|+..|......+...-....+.......|++++.-+..++.....+... +....|---|..+.+...++..
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            44555555555555555555556666666677777777766666554442 3444556666664444444333

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 [].

>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=88.13  E-value=9.5  Score=30.56  Aligned_cols=27  Identities=37%  Similarity=0.448  Sum_probs=14.1

Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ..-.++..+++++-.+..++..|+..+
T Consensus        98 ~l~~~~~~l~~~~~~~~~~~~~l~~~l  124 (129)
T cd00890          98 TLEKQIEKLEKQLEKLQDQITELQEEL  124 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555555555544

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.

>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=88.03  E-value=26  Score=33.71  Aligned_cols=19  Identities=16%  Similarity=0.169  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHhHH
Q 023704          208 IISVAQQIERLQAELANAE  226 (278)
Q Consensus       208 l~~m~~e~eklrael~n~~  226 (278)
                      +.++-.|---|++.|.+++
T Consensus       191 IDaLi~ENRyL~erl~q~q  209 (319)
T PF09789_consen  191 IDALIMENRYLKERLKQLQ  209 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4445555555666665554

>smart00806 AIP3 Actin interacting protein 3

Probab=87.99  E-value=31  Score=34.48  Aligned_cols=154  Identities=20%  Similarity=0.272  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHH-HHH-HHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Q 023704           76 KQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAE-LRV-IESMHAELD----RVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus        76 ~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleae-lr~-~e~lk~El~----qlr~ei~~l~~~rqeL~~ev  149 (278)
                      ..||...++||..+.+...++.++-..-|-.|.+|+.++-.= +.. ...-+.=+.    .|-.+-+.|.+...+|+.-|
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            488888899999998888888888777777776666665221 100 112222222    24456677888888888888


Q ss_pred             HHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh-----------HHHHHHHHHhHHHHHHHHH
Q 023704          150 NEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN-----------HEQREIMEKNIISVAQQIE  216 (278)
Q Consensus       150 q~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~-----------~eq~q~meknl~~m~~e~e  216 (278)
                      ..|.+|+..-..-  -.||..+..+|+.++++|+++..-|.-||-.--..           -+.+.-+|.=++-+-.-++
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            9999998876666  68899999999999999999999999888432221           1222333333334444555


Q ss_pred             HHHHHHHhHHhhH
Q 023704          217 RLQAELANAEKRA  229 (278)
Q Consensus       217 klrael~n~~~r~  229 (278)
                      |...=+++.++..
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.

>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]

Probab=87.97  E-value=14  Score=30.41  Aligned_cols=65  Identities=25%  Similarity=0.296  Sum_probs=35.0

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHH
Q 023704          108 YEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQ  178 (278)
Q Consensus       108 ~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~Lrq  178 (278)
                      +.-..|||..|..+.-+..|+..+..|-.--.-.--=      -+.+|+.+.+++ +++|.-+.+||..+-.
T Consensus        25 ~~~rqkle~qL~Enk~V~~Eldlle~d~~VYKliGpv------Lvkqel~EAr~nV~kRlefI~~Eikr~e~   90 (120)
T KOG3478|consen   25 VESRQKLETQLQENKIVLEELDLLEEDSNVYKLIGPV------LVKQELEEARTNVGKRLEFISKEIKRLEN   90 (120)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHhcccchHHHHhcch------hhHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            3344578888888888888888877664332211111      123455555555 4444444444444333

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

Probab=87.80  E-value=24  Score=33.14  Aligned_cols=63  Identities=8%  Similarity=0.156  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      .|...+..++.....++.|..+|+.|+..    .-+..||..|+.||-.+-.+..-+++.+..-|..
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            34444556666666777777777777542    2337789999999888888888888777766543

>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=87.70  E-value=25  Score=35.03  Aligned_cols=119  Identities=15%  Similarity=0.222  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHH-----H-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           76 KQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDA-----E-LRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus        76 ~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~klea-----e-lr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      ..++...++||..|.+....+..+--.-|-.+-+++.++=.     . -...--+...-..+..+.+.|.....+|..-|
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            45777777888877777777666655555555444443311     1 01122333444456667777888888888888


Q ss_pred             HHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          150 NEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       150 q~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                      +.|.+|+..-..-  ..++..+..+|..+..+|..+..-|.-||-.-
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  68899999999999999999999998888543

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.

>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]

Probab=87.68  E-value=33  Score=34.58  Aligned_cols=132  Identities=14%  Similarity=0.117  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHH-----------HHHHHHHHHHHHHH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELR-----------VIESMHAELDRVRA  133 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr-----------~~e~lk~El~qlr~  133 (278)
                      +.........|+++|.++...+++=..........       ...|..++|.+.|           ..-..++|+...+.
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 SLERFSALRSLQDKLQLAEEAVSMHDENVITAVLI-------FLKRTLSKEIEFRNELEVRQLALRHLIHFKKEIDEQKL  273 (554)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH-------HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444556677778777777766644333222111       2334444444433           22333445555444


Q ss_pred             HHHH--HHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHh
Q 023704          134 DIEK--LCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKN  207 (278)
Q Consensus       134 ei~~--l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mekn  207 (278)
                      .++.  +....++|..-.++-.    ..-.+.-|..++++|++.+|.|+.-.+..++.-..-.--+--+++-||-+
T Consensus       274 ~~~l~~~l~~keeL~~s~~~e~----~i~qs~~kstas~~E~ee~rve~~~s~ed~~~~q~q~~~Lrs~~~d~EAq  345 (554)
T KOG4677|consen  274 LLDLFRFLDRKEELALSHYREH----LIIQSPDKSTASRKEFEETRVELPFSAEDSAHIQDQYTLLRSQIIDIEAQ  345 (554)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHh----hccCCCCcchhHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444  3444444433222111    11112334567778888777777666666554443333333444444443

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=87.67  E-value=49  Score=36.52  Aligned_cols=97  Identities=12%  Similarity=0.125  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-------hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhh
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-------SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASN  197 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-------~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~  197 (278)
                      ..++..++..|+.+......+...+..+.+.+......       ...+..++..+..+.+++..++..+.--+    ..
T Consensus       776 ~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~----~~  851 (1047)
T PRK10246        776 EETLTQLEQLKQNLENQRQQAQTLVTQTAQALAQHQQHRPDGLDLTVTVEQIQQELAQLAQQLRENTTRQGEIR----QQ  851 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH----HH
Confidence            34666677777777777777777777776666552111       12455566666666666665555543111    11


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023704          198 HEQREIMEKNIISVAQQIERLQAELANA  225 (278)
Q Consensus       198 ~eq~q~meknl~~m~~e~eklrael~n~  225 (278)
                      +.+.+...+.+-.+..+++.++.+....
T Consensus       852 l~~~~~~~~~~~~~~~~~~~~~~~~~~~  879 (1047)
T PRK10246        852 LKQDADNRQQQQALMQQIAQATQQVEDW  879 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222333333333444555566544433

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=87.53  E-value=19  Score=37.52  Aligned_cols=8  Identities=25%  Similarity=0.563  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 023704          149 LNEINGDL  156 (278)
Q Consensus       149 vq~LekDL  156 (278)
                      |..|++.|
T Consensus       497 ve~L~~~l  504 (652)
T COG2433         497 VEELERKL  504 (652)
T ss_pred             HHHHHHHH
Confidence            33333333

>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=87.51  E-value=5.4  Score=34.15  Aligned_cols=67  Identities=24%  Similarity=0.330  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK  192 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk  192 (278)
                      ..|+..+..+|.+|.....+|..++..++.+|..+.+.- -..+|...|..|++++..+...++.-+.
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            346666677777777777777777777777766655431 1345677777777777777777776555

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 [].

>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.49  E-value=33  Score=34.29  Aligned_cols=162  Identities=15%  Similarity=0.191  Sum_probs=85.7

Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHH
Q 023704           39 QHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAEL  118 (278)
Q Consensus        39 ~~~~l~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleael  118 (278)
                      +.-|+  .++..+..+..+.+.+-.|...+..+...|+-=+...+.++......+-.-...+|...+.|           
T Consensus       284 ~gy~l--v~dt~w~~lqkegrqlqrdlE~~~~~r~ele~~~~qs~ed~t~q~~~ll~~~q~sE~ll~tl-----------  350 (542)
T KOG0993|consen  284 IGYPL--VLDTLWFILQKEGRQLQRDLEELIETRAELEHTEQQSQEDITVQRAQLLEERQHSEDLLVTL-----------  350 (542)
T ss_pred             CCCCc--ChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHHHHHHH-----------
Confidence            33445  55666666666666666677777777766666666666666555555554444555544444           


Q ss_pred             HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhhh-----------h---------------ccHHH
Q 023704          119 RVIESMHAELDRVRADIEK----LCVIKQEMIKDLNEINGDLAKARDE-----------S---------------KDMAA  168 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~----l~~~rqeL~~evq~LekDL~~~~~d-----------~---------------~kl~~  168 (278)
                            ..+|-+++.++++    |...+..+..++.+|.++=.-+...           .               +.-..
T Consensus       351 ------q~~iSqaq~~vq~qma~lv~a~e~i~~e~~rl~q~nd~l~~~~~l~t~~Qq~e~~~lp~ave~l~ql~~~~r~~  424 (542)
T KOG0993|consen  351 ------QAEISQAQSEVQKQMARLVVASETIADEDSRLRQINDLLTTVGELETQVQQAEVQNLPAAVEQLAQLYKQRRTS  424 (542)
T ss_pred             ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhHhhhhcchhhHHHHHHHHHHHHHH
Confidence                  2233333322222    2222333333333333221111100           0               00122


Q ss_pred             HHHHH-------HHHHHHHHhhhhhhhhhhhhchhhHHHHH-------HHHHhHHHHHHHHHHHH
Q 023704          169 IKAEI-------ETERQEIHKGRAAIECEKKNRASNHEQRE-------IMEKNIISVAQQIERLQ  219 (278)
Q Consensus       169 LkaEI-------e~LrqEl~~~raa~e~ekk~~~e~~eq~q-------~meknl~~m~~e~eklr  219 (278)
                      +.+++       +.|+.+|..++-+++.|.-...++-.|++       .-+-.+.|+..|.|.|+
T Consensus       425 ~~~~l~a~ehv~e~l~~ei~~L~eqle~e~~~~~~le~ql~~~ve~c~~~~aS~~slk~e~erl~  489 (542)
T KOG0993|consen  425 LQQELDASEHVQEDLVKEIQSLQEQLEKERQSEQELEWQLDDDVEQCSNCDASFASLKVEPERLH  489 (542)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHH
Confidence            22222       67788888888888888877777655554       45556666666888886

>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]

Probab=87.43  E-value=34  Score=37.10  Aligned_cols=18  Identities=33%  Similarity=0.379  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 023704           72 HVALKQELSLAEQELRHL   89 (278)
Q Consensus        72 ~~~L~qEL~laqhEL~~l   89 (278)
                      |+.+..+|+....++.-+
T Consensus       963 haE~daeLe~~~ael~el  980 (1424)
T KOG4572|consen  963 HAEIDAELEKEFAELIEL  980 (1424)
T ss_pred             hHHHHHHHHHHHHHHHHH
Confidence            444445555555554444

>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=87.41  E-value=37  Score=37.70  Aligned_cols=27  Identities=22%  Similarity=0.135  Sum_probs=19.0

Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      .++--++.|...+-....+||-||-|-
T Consensus      1197 KnltdvK~missf~d~laeiE~LrnEr 1223 (1439)
T PF12252_consen 1197 KNLTDVKSMISSFNDRLAEIEFLRNER 1223 (1439)
T ss_pred             CchhhHHHHHHHHHhhhhHHHHHHHHH
Confidence            334467778888877777888777664

There is little literature describing the family.

>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=29.44  Aligned_cols=11  Identities=18%  Similarity=0.510  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q 023704          127 ELDRVRADIEK  137 (278)
Q Consensus       127 El~qlr~ei~~  137 (278)
                      .+..+..++.+
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

>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=87.22  E-value=5.9  Score=29.02  Aligned_cols=32  Identities=3%  Similarity=0.150  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          128 LDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (278)
Q Consensus       128 l~qlr~ei~~l~~~rqeL~~evq~LekDL~~~  159 (278)
                      -..+...+++......+|..+|..|.++|.++
T Consensus        27 n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~   58 (61)
T PF08826_consen   27 NLAFESKLQEAEKRNRELEQEIERLKKEMEEL   58 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33334444444444444444444444444433

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

>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=87.16  E-value=12  Score=35.76  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=10.2

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      ..|++.+..|+.++.++..++..|
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

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=87.08  E-value=53  Score=36.28  Aligned_cols=11  Identities=9%  Similarity=0.386  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q 023704           50 RIAIQHSDIQS   60 (278)
Q Consensus        50 ~L~~q~~eIq~   60 (278)
                      .+.....+++.
T Consensus       531 ~l~~~~~~~~~  541 (1047)
T PRK10246        531 RLDALEKEVKK  541 (1047)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins

Probab=87.07  E-value=15  Score=33.07  Aligned_cols=103  Identities=14%  Similarity=0.219  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLN-EINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq-~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      ++.=...+..+...+......+...+. .+...|..|..+ .++.+.+..+++.+.+........++--|+.+-..-..+
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 023704          202 EIMEKNIISVA-QQIERLQAELANAE  226 (278)
Q Consensus       202 q~meknl~~m~-~e~eklrael~n~~  226 (278)
                      .......-.+. +|++|+.+.+..++
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

>PRK09343 prefoldin subunit beta; Provisional

Probab=87.04  E-value=15  Score=30.03  Aligned_cols=40  Identities=8%  Similarity=0.147  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      ...++..++-+..+|+.+......|..++..+++.|.++-
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            3555555556666666666666666666665555555543

>PRK14001 potassium-transporting ATPase subunit C; Provisional

Probab=86.90  E-value=0.99  Score=40.17  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=27.0

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023704            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (278)
Q Consensus         3 ifG~tli-------vtfhp~~svTleGD~ydpeG~LsGGs~p~~~~~l   43 (278)
                      |.|+.||       -+||+.+|-|  +|-||+.+  ||||.-.++.|.
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       8899998886  56788665  788854445554

>PRK12704 phosphodiesterase; Provisional

Probab=86.86  E-value=39  Score=34.50  Aligned_cols=61  Identities=13%  Similarity=0.243  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHH
Q 023704          145 MIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME  205 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~me  205 (278)
                      |..+-+.|++....+.....+|...+.+|+..++++.+.+..++.-+......+++.-.|.
T Consensus        91 L~~Ree~Le~r~e~Lekke~eL~~re~~Le~re~eLe~~~~~~~~~~~~~~~~l~~~a~lt  151 (520)
T PRK12704         91 LLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERISGLT  151 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            4555555555555555555566666666666666666666666665555555555554443

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=86.65  E-value=33  Score=33.42  Aligned_cols=53  Identities=15%  Similarity=0.142  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhH
Q 023704          169 IKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANA  225 (278)
Q Consensus       169 LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~  225 (278)
                      +..++..++..+..+++.++--++.    +......+..+..+-||++--+.-....
T Consensus       309 ~~~~~~~~~~~~~~l~~~l~~~~~~----~~~l~~~~~~~~~L~r~~~~~~~~y~~l  361 (444)
T TIGR03017       309 VGTNSRILKQREAELREALENQKAK----VLELNRQRDEMSVLQRDVENAQRAYDAA  361 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555554422111    1122222334455555555555444433

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.

>PF14992 TMCO5: TMCO5 family

Probab=86.60  E-value=29  Score=32.78  Aligned_cols=31  Identities=26%  Similarity=0.349  Sum_probs=14.9

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704           64 DNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        64 dnqrla~~~~~L~qEL~laqhEL~~l~~~i~   94 (278)
                      |.|++-.....|=+.++.+...++.|..-|.
T Consensus        12 d~Q~ldE~Nq~lL~ki~~~E~~iq~Le~Eit   42 (280)
T PF14992_consen   12 DEQRLDEANQSLLQKIQEKEGAIQSLEREIT   42 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444555555555555544443

>TIGR00414 serS seryl-tRNA synthetase

Probab=86.54  E-value=6.6  Score=38.79  Aligned_cols=34  Identities=21%  Similarity=0.390  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~  151 (278)
                      +..+-.+.++..++..+++.|.+.+..++.+|..
T Consensus        29 vd~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~   62 (418)
T TIGR00414        29 LEKLIALDDERKKLLSEIEELQAKRNELSKQIGK   62 (418)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555666666666677777766666655

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.

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=86.54  E-value=19  Score=30.80  Aligned_cols=42  Identities=17%  Similarity=0.334  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      .+++-+++.+..+...++++....++|...+..+.+.++...
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

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

Probab=86.49  E-value=13  Score=33.73  Aligned_cols=29  Identities=24%  Similarity=0.244  Sum_probs=19.5

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKK  192 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk  192 (278)
                      +|...+..|.+.|..+.++++..|+-.-|
T Consensus       186 Kq~e~~~~EydrLlee~~~Lq~~i~~~~~  214 (216)
T KOG1962|consen  186 KQSEGLQDEYDRLLEEYSKLQEQIESGGK  214 (216)
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHhccCC
Confidence            44556667777777777777777765433

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=86.48  E-value=4.2  Score=40.24  Aligned_cols=34  Identities=12%  Similarity=0.324  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~  151 (278)
                      +..+-++.++..++..+++.|.+.+++++.+|..
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            4444455556666666666666666666666654

>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=86.46  E-value=41  Score=37.43  Aligned_cols=90  Identities=11%  Similarity=0.219  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh------hccHHHHHHHHHHHHHHHH------------hh-hhhhhhhhhhc
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE------SKDMAAIKAEIETERQEIH------------KG-RAAIECEKKNR  194 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d------~~kl~~LkaEIe~LrqEl~------------~~-raa~e~ekk~~  194 (278)
                      +|+...+...+..++|+.|.++--+-...      -+-|..|+..|..+.|-+.            .. ...|+.++|.-
T Consensus      1201 dvK~missf~d~laeiE~LrnErIKkHGaSkePLDlSDlDkLk~~LQ~iNQ~LV~~LIn~iR~slnqme~~tf~~q~~ei 1280 (1439)
T PF12252_consen 1201 DVKSMISSFNDRLAEIEFLRNERIKKHGASKEPLDLSDLDKLKGQLQKINQNLVKALINTIRVSLNQMEVKTFEEQEKEI 1280 (1439)
T ss_pred             hHHHHHHHHHhhhhHHHHHHHHHhhccCCCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHH
Confidence            55555555556666666665553332211      2223334443333332221            11 45788888888


Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      ..+++++-.+++.|..=- =.+|+|++|..
T Consensus      1281 q~n~~ll~~L~~tlD~S~-~a~Kqk~di~k 1309 (1439)
T PF12252_consen 1281 QQNLQLLDKLEKTLDDSD-TAQKQKEDIVK 1309 (1439)
T ss_pred             HHHHHHHHHHHHHhcchH-HHHHHHHHHHH
Confidence            888999988888886532 34556665544

There is little literature describing the family.

>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=86.42  E-value=13  Score=28.57  Aligned_cols=40  Identities=13%  Similarity=0.280  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      .+.+|.|...+-.++......+.++..+|.+--+||+.++
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            6778888888888888888888888887777776666654

; PDB: 3VP9_B 3VP8_B.

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=86.34  E-value=13  Score=37.62  Aligned_cols=41  Identities=20%  Similarity=0.282  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQ   84 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqh   84 (278)
                      +.-|--++...+.+++.++.+|++|.++...|++......+
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            45566666777778888888888777777666665544443

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.

>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=86.26  E-value=31  Score=32.80  Aligned_cols=86  Identities=21%  Similarity=0.294  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHH
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDE----SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNII  209 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d----~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~  209 (278)
                      .+..+.....+|..++..-..--.+|+.-    +.--...+.|++.|...+.++......-|.       .-...-++||
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            66666677777777777777666666643    333455666666666666665554443332       2233344777


Q ss_pred             HHHHHHHHHHHHHHhHH
Q 023704          210 SVAQQIERLQAELANAE  226 (278)
Q Consensus       210 ~m~~e~eklrael~n~~  226 (278)
                      .|+-|-..+..++....
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 [].

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=85.86  E-value=45  Score=34.21  Aligned_cols=72  Identities=15%  Similarity=0.186  Sum_probs=36.4

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhh
Q 023704          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGR  184 (278)
Q Consensus       107 l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~r  184 (278)
                      .++.+-||.+.   +..+++++.-++.+..++....+....-=..++.|+.+.+   -|-.+..+.+.....||+.+|
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            34444555555   4555555555566555555555555555455555544433   233344444444444555444

>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=85.81  E-value=15  Score=28.81  Aligned_cols=41  Identities=20%  Similarity=0.207  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      ...|..|+..|+..+.+.+..|+--+..-.+.+.++..+||
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            34455555555555555555555555555555555555554

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=85.76  E-value=42  Score=33.82  Aligned_cols=11  Identities=18%  Similarity=0.256  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHH
Q 023704           46 HLEDRIAIQHS   56 (278)
Q Consensus        46 ~Le~~L~~q~~   56 (278)
                      +|-.+|..|..
T Consensus       325 ll~sqleSqr~  335 (493)
T KOG0804|consen  325 LLTSQLESQRK  335 (493)
T ss_pred             hhhhhhhHHHH
Confidence            45566666655

>KOG4657 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.74  E-value=16  Score=33.63  Aligned_cols=81  Identities=15%  Similarity=0.265  Sum_probs=0.0

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023704          104 VRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       104 ~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~  183 (278)
                      ++.+.+...++--.....+.+++.+.+..+++++-....++=.+.--.|++|+..+++   ++..|..-+..++.|+.+.
T Consensus        43 ~nS~~efar~lS~~~~e~e~l~~~l~etene~~~~neL~~ek~~~q~~ieqeik~~q~---elEvl~~n~Q~lkeE~dd~  119 (246)
T KOG4657|consen   43 MNSLVEFARALSQSQVELENLKADLRETENELVKVNELKTEKEARQMGIEQEIKATQS---ELEVLRRNLQLLKEEKDDS  119 (246)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhH


Q ss_pred             hhhh
Q 023704          184 RAAI  187 (278)
Q Consensus       184 raa~  187 (278)
                      +..|
T Consensus       120 keiI  123 (246)
T KOG4657|consen  120 KEII  123 (246)
T ss_pred             HHHH

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

Probab=85.59  E-value=70  Score=36.24  Aligned_cols=50  Identities=16%  Similarity=0.427  Sum_probs=38.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      +++--++....+..++..+..++..+....+++.+.++.+..++.++.++
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            33444677777788888888888888888888888888888888877765

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=85.46  E-value=26  Score=31.07  Aligned_cols=28  Identities=29%  Similarity=0.316  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           73 VALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        73 ~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      ..|.|-|.-.+..|..+...+....+..
T Consensus        26 ~~l~q~ird~e~~l~~a~~~~a~~~a~~   53 (221)
T PF04012_consen   26 KMLEQAIRDMEEQLRKARQALARVMANQ   53 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555544444443

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 [].

>cd07672 F-BAR_PSTPIP2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Protein 2

Probab=85.43  E-value=23  Score=32.40  Aligned_cols=105  Identities=15%  Similarity=0.214  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      .++.-...++.++..+......+...+...-+.+.+|... ...-+.+...++.+.+-....-...+.-|+.+..---+.
T Consensus        58 Tl~~sw~~~~~E~e~~a~~H~~la~~L~~~~~~~~~f~~~qk~~rKk~e~~~ek~~K~~~~~~k~~~ksKk~Ye~~Cke~  137 (240)
T cd07672          58 TLKRSLDVFKQQIDNVGQSHIQLAQTLRDEAKKMEDFRERQKLARKKIELIMDAIHKQRAMQFKKTMESKKNYEQKCRDK  137 (240)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHhH-----HHHHHHHHHHHHHHHhHHh
Q 023704          202 EIMEKNI-----ISVAQQIERLQAELANAEK  227 (278)
Q Consensus       202 q~meknl-----~~m~~e~eklrael~n~~~  227 (278)
                      ....+.+     ..+.+|++|+++-|..+..
T Consensus       138 ~~a~~~~~~~~~~~~~ke~~K~~~Kl~K~~~  168 (240)
T cd07672         138 DEAEQAVNRNANLVNVKQQEKLFAKLAQSKQ  168 (240)
T ss_pred             HHHHHHHhhccCCCCHHHHHHHHHHHHHHHH

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proline-Serine-Threonine Phosphatase-Interacting Protein 2 (PSTPIP2), also known as Macrophage Actin-associated tYrosine Phosphorylated protein (MAYP), is mostly expressed in hematopoietic cells but is also expressed in the brain. It is involved in regulating cell adhesion and motility. Mutations in the gene encoding murine PSTPIP2 can cause autoinflammatory disorders such as chronic multifocal osteomyelitis and macrophage autoinflammatory disease. PSTPIP2 contains an N-terminal F-BAR domain and lacks the PEST motifs and SH3 domain that are found in PSTPIP1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They ca

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=85.43  E-value=17  Score=29.03  Aligned_cols=35  Identities=9%  Similarity=0.286  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDL  156 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL  156 (278)
                      ..++..+..+...+..+......|..++..+++.|
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.

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=85.31  E-value=29  Score=34.27  Aligned_cols=47  Identities=11%  Similarity=0.225  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023704          143 QEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (278)
Q Consensus       143 qeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~  189 (278)
                      +-+..+.+.|.+.++..++...+++.+..++..|..+++-.|..|+-
T Consensus       345 ~~l~~~~~~L~~~~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~  391 (458)
T COG3206         345 ALLEQQEAALEKELAQLKGRLSKLPKLQVQLRELEREAEAARSLYET  391 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHH
Confidence            33555555666666666666666666666666666666666665543

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=85.31  E-value=35  Score=32.54  Aligned_cols=129  Identities=21%  Similarity=0.287  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHH---HHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHH
Q 023704           45 HHLEDRIAIQHS---DIQSLLQDN-QRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRV  120 (278)
Q Consensus        45 ~~Le~~L~~q~~---eIq~ll~dn-qrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~  120 (278)
                      +..-+.+.....   ++++-+.=| ..+..+.-...++|+..+-|..+|...+..-+..+      -     +||+|   
T Consensus        27 ~ky~ediei~Kekn~~Lqk~lKLneE~ltkTi~qy~~QLn~L~aENt~L~SkLe~EKq~k------e-----rLEtE---   92 (305)
T PF14915_consen   27 KKYLEDIEILKEKNDDLQKSLKLNEETLTKTIFQYNGQLNVLKAENTMLNSKLEKEKQNK------E-----RLETE---   92 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHhHHHHHhHHHH------H-----HHHHH---


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      ++.++.-|..+-.+...-.+.+.+|.--.++-..+--.++.. +.-+..|+...+-|.+.|.++++.|
T Consensus        93 iES~rsRLaaAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~  160 (305)
T PF14915_consen   93 IESYRSRLAAAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKF  160 (305)
T ss_pred             HHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHH

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

Probab=85.17  E-value=7.4  Score=28.09  Aligned_cols=16  Identities=13%  Similarity=0.235  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023704          140 VIKQEMIKDLNEINGD  155 (278)
Q Consensus       140 ~~rqeL~~evq~LekD  155 (278)
                      ...++|..+|.+|..|
T Consensus        10 ~dVq~L~~kvdqLs~d   25 (56)
T PF04728_consen   10 SDVQTLNSKVDQLSSD   25 (56)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333444444433

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.

>PF14182 YgaB: YgaB-like protein

Probab=85.04  E-value=5.4  Score=30.71  Aligned_cols=40  Identities=20%  Similarity=0.346  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023704          149 LNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIEC  189 (278)
Q Consensus       149 vq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~  189 (278)
                      .+.|+++|.+.. +..++..++.||..++++|......|+-
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            334444443332 2455666677777777777766666653

>COG5293 Predicted ATPase [General function prediction only]

Probab=84.90  E-value=48  Score=33.69  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=11.7

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      -.|+.++..-|..+++|+-+....+
T Consensus       405 l~k~~~~~~~i~~lkhe~l~~~~r~  429 (591)
T COG5293         405 LRKLHALDQYIGTLKHECLDLEERI  429 (591)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444444455555555544444333

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

Probab=84.85  E-value=28  Score=30.94  Aligned_cols=57  Identities=16%  Similarity=0.321  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          129 DRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       129 ~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      ..+...|.+|....-+|..+.+.+...+...   .+.+..|+.+++.+.+++..++-.|.
T Consensus       127 ~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~---~~ei~~lks~~~~l~~~~~~~e~~F~  183 (190)
T PF05266_consen  127 KELESEIKELEMKILELQRQAAKLKEKKEAK---DKEISRLKSEAEALKEEIENAELEFQ  183 (190)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444433333333322   46667777777777777777776654

>TIGR02231 conserved hypothetical protein

Probab=84.62  E-value=21  Score=36.05  Aligned_cols=42  Identities=17%  Similarity=0.213  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD  161 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~  161 (278)
                      ..+-+..++..++.++.++.....++..+++.++++|..+..
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~  173 (525)
T TIGR02231       132 AFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLT  173 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            355566666666666666666666666666666666666554

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.

>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length

Probab=84.58  E-value=15  Score=30.06  Aligned_cols=72  Identities=13%  Similarity=0.238  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           68 LAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIK  147 (278)
Q Consensus        68 la~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~  147 (278)
                      +..+...|.+++.-.+.++.+.+.+...+++.-                 -++.+++-..+..++..+..++...    +
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            445566677777777777777777777766666                 3444444444444444433333332    3


Q ss_pred             HHHHHHHHHHHHh
Q 023704          148 DLNEINGDLAKAR  160 (278)
Q Consensus       148 evq~LekDL~~~~  160 (278)
                      +++..+.|+.+|+
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.

>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=84.49  E-value=26  Score=34.20  Aligned_cols=102  Identities=11%  Similarity=0.250  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIME  205 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~me  205 (278)
                      -+..++..+.++......-..+|.+-++=|+.--.. .++...++.++..++.++..+...+..-...-++..+++..+.
T Consensus       235 ~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK  314 (359)
T PF10498_consen  235 ALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVK  314 (359)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444432222 4445555555555555555555555555544444444443332


Q ss_pred             H-------------hHHHHHHHHHHHHHHHHhHHhh
Q 023704          206 K-------------NIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       206 k-------------nl~~m~~e~eklrael~n~~~r  228 (278)
                      +             -||.+.+=|-|||.||..++-|
T Consensus       315 ~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMdvr  350 (359)
T PF10498_consen  315 QEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMDVR  350 (359)
T ss_pred             HHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            2             2556666777777777776644

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.

>TIGR02473 flagell_FliJ flagellar export protein FliJ

Probab=84.42  E-value=20  Score=29.02  Aligned_cols=43  Identities=14%  Similarity=0.273  Sum_probs=30.6

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHH
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEK  206 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~mek  206 (278)
                      .-+..|...|...++.+..++..++.-+..-.+-.-..++||+
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            3456777777777777777777777777776666666666665

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.

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=84.02  E-value=7.8  Score=40.14  Aligned_cols=63  Identities=19%  Similarity=0.336  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~  183 (278)
                      .|-.+.+..||.+++..-|+|+++..++..+++.+.+.+-+.+.   .|.+|+.+|+..+..+..+
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            56667888899999999999999999999999999988776433   3445556666555544433

>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]

Probab=83.97  E-value=18  Score=36.26  Aligned_cols=107  Identities=20%  Similarity=0.333  Sum_probs=0.0

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHH--HHHHHHHHhhhhh
Q 023704          109 EKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEI--ETERQEIHKGRAA  186 (278)
Q Consensus       109 ~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEI--e~LrqEl~~~raa  186 (278)
                      ++..||-.||....-++++++.++..+.+...+..-...+...|++-|.+    ...|.+|+..+  +..++||..+|.+
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 023704          187 IECEKKNRASN------------------------HEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       187 ~e~ekk~~~e~------------------------~eq~q~meknl~~m~~e~eklr  219 (278)
                      ++.=-|....+                        --++|--||-|....-.+|||+
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

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

Probab=83.94  E-value=32  Score=30.98  Aligned_cols=69  Identities=17%  Similarity=0.197  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIEC  189 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~  189 (278)
                      ...+.++|..++.+|+.+...|+....++..--+.|.+-..+ .+|.-++...+..|.+|+..++.....
T Consensus       145 ~~~le~~l~~~k~~ie~vN~~RK~~Q~~~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~  214 (221)
T PF05700_consen  145 LKRLEKELAKLKKEIEEVNRERKRRQEEAGEELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAE  214 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566777777778888888877777766666555566655555 677777777777777777766655443

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

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

Probab=83.93  E-value=35  Score=31.35  Aligned_cols=13  Identities=46%  Similarity=0.621  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHhH
Q 023704          213 QQIERLQAELANA  225 (278)
Q Consensus       213 ~e~eklrael~n~  225 (278)
                      .|++.|+.++..|
T Consensus       103 ~Ea~~lq~el~~a  115 (246)
T PF00769_consen  103 EEAEELQEELEEA  115 (246)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3555555555444

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.

>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=83.76  E-value=18  Score=27.81  Aligned_cols=46  Identities=9%  Similarity=0.190  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023704           51 IAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASV   96 (278)
Q Consensus        51 L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~   96 (278)
                      |.....|+..+..+..........+...+...-.|++.+...+-.+
T Consensus         6 Ld~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eL   51 (79)
T PF08581_consen    6 LDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYEL   51 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444445555544444433

; PDB: 3VP9_B 3VP8_B.

>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=83.59  E-value=10  Score=28.50  Aligned_cols=60  Identities=23%  Similarity=0.283  Sum_probs=32.3

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhH
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRA  229 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~  229 (278)
                      +.+|..|+.|-+.|...-.+.+..|.--+....+       .|+.+..+...++++..++.+.+.|.
T Consensus        11 De~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e-------~e~~~~~l~~~~~~~e~~~~~l~~~l   70 (74)
T PF12329_consen   11 DEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKE-------LEKQIKELKKKLEELEKELESLEERL   70 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5566666666666666666666666544443333       33444444455555555555554443

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.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=83.58  E-value=78  Score=35.10  Aligned_cols=51  Identities=6%  Similarity=0.160  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIER  217 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ek  217 (278)
                      ..|+..++..+..+..+=.-+++.++.+.++..=.+-..++|-.+..-+.+
T Consensus       535 ~~l~~~~~~s~~d~s~l~~kld~~~~~~d~n~~~~~~~~~~l~~~~~~~~~  585 (1041)
T KOG0243|consen  535 TKLRRSLEESQDDLSSLFEKLDRKDRLDDDNQEVIDDFQSQLSENLSTLHG  585 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhccccccHHHHHHHhhhhhHHHHHHHH
Confidence            444555555555555555566666666666655555555555555444433

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.20  E-value=55  Score=33.08  Aligned_cols=40  Identities=15%  Similarity=0.308  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          143 QEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       143 qeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      +|+.+-|...+.||.+...|   -.+|+.+++.+...++|.=+
T Consensus       392 kEi~gniRKq~~DI~Kil~e---treLqkq~ns~se~L~Rsfa  431 (521)
T KOG1937|consen  392 KEIDGNIRKQEQDIVKILEE---TRELQKQENSESEALNRSFA  431 (521)
T ss_pred             HHHHhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhHH
Confidence            33444444444444443333   24667777777776665433

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=83.13  E-value=3.9  Score=41.17  Aligned_cols=39  Identities=18%  Similarity=0.361  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHH---HHhhh-hccHHHHHHHHHHHHHHH
Q 023704          142 KQEMIKDLNEINGDLA---KARDE-SKDMAAIKAEIETERQEI  180 (278)
Q Consensus       142 rqeL~~evq~LekDL~---~~~~d-~~kl~~LkaEIe~LrqEl  180 (278)
                      ..+|..++..++++++   ....+ .+||++|+.|++.|+.++
T Consensus        78 asELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql  120 (475)
T PRK13729         78 AAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV  120 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444   22222 445555556666665555

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

Probab=82.95  E-value=22  Score=32.41  Aligned_cols=57  Identities=19%  Similarity=0.287  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      ...+++++++|+.++++.....|-..+-...+.-|.+..-+=+.....|-.+||.+|
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            344445555555555555555554444444444555555555555555666666655

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=82.93  E-value=30  Score=29.79  Aligned_cols=23  Identities=17%  Similarity=0.442  Sum_probs=15.9

Q ss_pred             HhHHHHHHHHHHHHHHHHhHHhh
Q 023704          206 KNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       206 knl~~m~~e~eklrael~n~~~r  228 (278)
                      .+|+.-..+++.||.+|.+-+.+
T Consensus       145 ~Dy~~~~~~~~~l~~~i~~l~rk  167 (177)
T PF13870_consen  145 RDYDKTKEEVEELRKEIKELERK  167 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666677788888888766644

>PRK13997 potassium-transporting ATPase subunit C; Provisional

Probab=82.72  E-value=1.9  Score=38.50  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=25.4

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023704            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (278)
Q Consensus         3 ifG~tli-------vtfhp~~svTleGD~ydpeG~LsGGs~p~~~~~l   43 (278)
                      |-|+.||       -+|||.+|.|   + |||.+  ||||.-.++.|.
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            5688899       8999998876   2 88765  788844445554

>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]

Probab=82.62  E-value=14  Score=31.88  Aligned_cols=76  Identities=12%  Similarity=0.249  Sum_probs=54.9

Q ss_pred             HHHHhhhhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHh
Q 023704          107 LYEKSLKLDAELR----VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       107 l~~k~~kleaelr----~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~  182 (278)
                      ++++--++|-++-    ..+-.++-+...+.++.+|....+.|...+.-+++|++=|.+...+.-.+  +++.+..++..
T Consensus        49 imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~qes~~--~veel~eqV~e  126 (157)
T COG3352          49 IMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQESRG--IVEELEEQVNE  126 (157)
T ss_pred             HHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHHHHHH--HHHHHHHHHHH
Confidence            5555556666665    56777888888999999999999999999999999999888774443333  55555544444


Q ss_pred             hh
Q 023704          183 GR  184 (278)
Q Consensus       183 ~r  184 (278)
                      ++
T Consensus       127 l~  128 (157)
T COG3352         127 LK  128 (157)
T ss_pred             HH
Confidence            33

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=82.41  E-value=90  Score=35.00  Aligned_cols=54  Identities=15%  Similarity=0.123  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      .+++....-++|+.++...++.|+....+   -...+..++.++|.....+..++--
T Consensus       259 ~i~~~~~~N~~Ls~~L~~~t~~~n~l~~~---~~~~~~~l~~~~q~~~~i~eQi~~l  312 (1109)
T PRK10929        259 SIVAQFKINRELSQALNQQAQRMDLIASQ---QRQAASQTLQVRQALNTLREQSQWL  312 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35555555666666666666666654333   2333444444444444444444433

>PF14817 HAUS5: HAUS augmin-like complex subunit 5

Probab=82.31  E-value=22  Score=37.25  Aligned_cols=92  Identities=17%  Similarity=0.205  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       115 eaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                      |.++++...+.++|.+++++|..+....+.+..++..-+..+.+...+-+...-=..=++...+...+....|-.=.+-=
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 023704          195 ASNHEQREIMEK  206 (278)
Q Consensus       195 ~e~~eq~q~mek  206 (278)
                      ...++|.|.|+.
T Consensus       155 ~~~~~~~q~~~R  166 (632)
T PF14817_consen  155 QGQVEQLQDIQR  166 (632)
T ss_pred             HHHHHHHHHHHh

>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=82.07  E-value=40  Score=30.75  Aligned_cols=97  Identities=10%  Similarity=0.150  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhh---------
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKK---------  192 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk---------  192 (278)
                      ..+.+++..+..++.+....-..+-.++....+-..+...+..   .-++++++.+..++........=|+         
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            3344455555555555555555555555555554444433321   1244444444444444333333222         


Q ss_pred             ----------hchhhHHHHHHHHHhHHHHHHHHHHHHHH
Q 023704          193 ----------NRASNHEQREIMEKNIISVAQQIERLQAE  221 (278)
Q Consensus       193 ----------~~~e~~eq~q~meknl~~m~~e~eklrae  221 (278)
                                .=+++++.+|.|+.++|.+.+++=.-=++
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                      23578899999999999998877444333

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

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

Probab=82.05  E-value=46  Score=31.35  Aligned_cols=91  Identities=14%  Similarity=0.153  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHH
Q 023704          100 RDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQE  179 (278)
Q Consensus       100 ~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqE  179 (278)
                      .-.++|..+.-+...|..   +.+.+.--..|..+|.+|....- -+.++..|+++|.+...+..   ..+++|..++.+
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            355667776666667766   44455555556667776655433 25567777777777665532   334556666554


Q ss_pred             HHhhhhhhhhhhhhchhhHH
Q 023704          180 IHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       180 l~~~raa~e~ekk~~~e~~e  199 (278)
                        +++.+|.+.=.+-.|.-|
T Consensus       195 --~lKEa~~~~f~Al~E~aE  212 (271)
T PF13805_consen  195 --KLKEAYSLKFDALIERAE  212 (271)
T ss_dssp             --HHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHH
Confidence              455555555444444443

>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=81.94  E-value=33  Score=32.29  Aligned_cols=43  Identities=19%  Similarity=0.313  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      .|.++..+.|+..+..++.+.....+++..+|..+..-|.++.
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            4555555666666666666655555555555554444444433

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=81.85  E-value=24  Score=28.16  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=12.5

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHH
Q 023704          107 LYEKSLKLDAELRVIESMHAELDRV  131 (278)
Q Consensus       107 l~~k~~kleaelr~~e~lk~El~ql  131 (278)
                      +......+|.+++.++-...+|..+
T Consensus        22 l~~q~~~le~~~~E~~~v~~eL~~l   46 (110)
T TIGR02338        22 VATQKQQVEAQLKEAEKALEELERL   46 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3334445555555555555555544

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.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=81.83  E-value=95  Score=34.84  Aligned_cols=87  Identities=10%  Similarity=0.036  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHH---HHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHH
Q 023704          138 LCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQE---IHKGRAAIECEKKNRASNHEQREIMEKNIISVA  212 (278)
Q Consensus       138 l~~~rqeL~~evq~LekDL~~~~~d--~~kl~~LkaEIe~LrqE---l~~~raa~e~ekk~~~e~~eq~q~meknl~~m~  212 (278)
                      +...++.+..+++.+++.++.++..  .++..+.+.-++.....   ....-..+..|-..|.++.+.+..-.+++-.+.
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            3334444555666666666665554  34444444444443332   212222344444556666665555555555555


Q ss_pred             HHHHHHHHHHHh
Q 023704          213 QQIERLQAELAN  224 (278)
Q Consensus       213 ~e~eklrael~n  224 (278)
                      ++-...+..+.+
T Consensus       286 ~~~~~~~~~l~~  297 (1109)
T PRK10929        286 SQQRQAASQTLQ  297 (1109)
T ss_pred             HHHHHHHHHHHH
Confidence            544443333333

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.78  E-value=46  Score=31.22  Aligned_cols=51  Identities=20%  Similarity=0.289  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~   94 (278)
                      +..+.......+.+|+.+..+-..+......++.++.-.+.+|..++..|.
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            445555555555566666655555555555555555555555554444444

>KOG4687 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=81.77  E-value=49  Score=31.50  Aligned_cols=95  Identities=16%  Similarity=0.200  Sum_probs=61.7

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH-------------HHHHHHHHHHhhhhHHHHHHHHH
Q 023704           57 DIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER-------------DAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        57 eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~-------------e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      .|+..-.+|..|.....+|.+.++-.+-+..++.+.+.+++++.             |+|.|.-  ..-+    +...+-
T Consensus        91 ~i~etkeeNlkLrTd~eaL~dq~adLhgD~elfReTeAq~ese~~a~aseNaarneeelqwrrd--eanf----ic~~Eg  164 (389)
T KOG4687|consen   91 DIEETKEENLKLRTDREALLDQKADLHGDCELFRETEAQFESEKMAGASENAARNEEELQWRRD--EANF----ICAHEG  164 (389)
T ss_pred             HHHHHHHHhHhhhHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhcccccccccchHHHHhhHH--HHHH----HHHHHH
Confidence            56666677999999999999999999999999999999888775             4444421  1111    333455


Q ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH
Q 023704          124 MHAELDRVRADIEKL-------CVIKQEMIKDLNEINGDLA  157 (278)
Q Consensus       124 lk~El~qlr~ei~~l-------~~~rqeL~~evq~LekDL~  157 (278)
                      +++.-.++..++..+       ..+|.++.-++.+|..+|-
T Consensus       165 Lkak~a~LafDLkamideKEELimERDa~kcKa~RLnhELf  205 (389)
T KOG4687|consen  165 LKAKCAGLAFDLKAMIDEKEELIMERDAMKCKAARLNHELF  205 (389)
T ss_pred             HHHHhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHhhhHHH
Confidence            555555555444443       4444444555555555554

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

Probab=81.55  E-value=31  Score=32.71  Aligned_cols=51  Identities=22%  Similarity=0.339  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      |++.++||+.|||=+...|+.+          .+.=+...|=+|.+.-+=-||..=|.++|
T Consensus       119 LKEARkEIkQLkQvieTmrssL----------~ekDkGiQKYFvDINiQN~KLEsLLqsME  169 (305)
T PF15290_consen  119 LKEARKEIKQLKQVIETMRSSL----------AEKDKGIQKYFVDINIQNKKLESLLQSME  169 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhh----------chhhhhHHHHHhhhhhhHhHHHHHHHHHH
Confidence            4666666666666666665544          33355666667777777777777776666

>PRK00315 potassium-transporting ATPase subunit C; Reviewed

Probab=81.52  E-value=2.1  Score=38.30  Aligned_cols=38  Identities=16%  Similarity=0.164  Sum_probs=26.8

Q ss_pred             ccCceEE-------EeecCCCcccccCCccCCCCCCCCCCCCCCCCch
Q 023704            3 IYGNSLH-------TTLHNHSQFTMSGRRVLREPPLSTRALPPQHSPS   43 (278)
Q Consensus         3 ifG~tli-------vtfhp~~svTleGD~ydpeG~LsGGs~p~~~~~l   43 (278)
                      |.|+.||       -+|||.+|-+ +.+-||+.+  ||||.-.++.|.
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  788854445554

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=81.50  E-value=0.46  Score=51.03  Aligned_cols=35  Identities=26%  Similarity=0.186  Sum_probs=0.0

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704           60 SLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        60 ~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~   94 (278)
                      ..-.....+-.+...|..|+..+..+|........
T Consensus       339 ~~~~~~~~LeK~k~rL~~EleDl~~eLe~~~~~~~  373 (859)
T PF01576_consen  339 EANAKVSSLEKTKKRLQGELEDLTSELEKAQAAAA  373 (859)
T ss_dssp             -----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444555555566666666666666554443

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.

>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]

Probab=81.47  E-value=51  Score=31.65  Aligned_cols=80  Identities=9%  Similarity=0.242  Sum_probs=46.3

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhccHHHHHHHHHHHHHHHH
Q 023704          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR---DESKDMAAIKAEIETERQEIH  181 (278)
Q Consensus       105 r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~---~d~~kl~~LkaEIe~LrqEl~  181 (278)
                      ..|+.+-..+-++   ..+++..-.|+...+.+-.....+...++..+.++|.+-.   +|++-+-.+++-|-+|++|.+
T Consensus       276 ~~l~q~fr~a~~~---lse~~e~y~q~~~gv~~rT~~L~eVm~e~E~~KqemEe~G~~msDGaplvkIkqavsKLk~et~  352 (384)
T KOG0972|consen  276 ASLMQKFRRATDT---LSELREKYKQASVGVSSRTETLDEVMDEIEQLKQEMEEQGAKMSDGAPLVKIKQAVSKLKEETQ  352 (384)
T ss_pred             HHHHHHHHHHHHH---HHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCchHHHHHHHHHHHHHHHH
Confidence            3344444433333   2333444445555555556666666677777777777644   446667777777777777776


Q ss_pred             hhhhhh
Q 023704          182 KGRAAI  187 (278)
Q Consensus       182 ~~raa~  187 (278)
                      .+.-.|
T Consensus       353 ~mnv~i  358 (384)
T KOG0972|consen  353 TMNVQI  358 (384)
T ss_pred             hhhhhe
Confidence            655444

>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=81.32  E-value=51  Score=31.43  Aligned_cols=87  Identities=25%  Similarity=0.381  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHH
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIES  123 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~  123 (278)
                      +..|.+.|...+...++-+..|-.|-..-..|.-++...+..|--++..+...+-+-       -+|+.-+|..-+..+.
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            567888888888888888888888888888888899999998888888877555444       2344444555555555


Q ss_pred             HHHHHHHHHHHHHH
Q 023704          124 MHAELDRVRADIEK  137 (278)
Q Consensus       124 lk~El~qlr~ei~~  137 (278)
                      ++.++..|+.++..
T Consensus       152 L~~e~~~Lre~L~~  165 (302)
T PF09738_consen  152 LREELDELREQLKQ  165 (302)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555555555543

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.

>PRK11281 hypothetical protein; Provisional

Probab=81.27  E-value=99  Score=34.70  Aligned_cols=88  Identities=10%  Similarity=0.113  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHH-HH-H--hhhhhhhhhhhhchhhHHHHHHHHHhHHHH
Q 023704          138 LCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQ-EI-H--KGRAAIECEKKNRASNHEQREIMEKNIISV  211 (278)
Q Consensus       138 l~~~rqeL~~evq~LekDL~~~~~d--~~kl~~LkaEIe~Lrq-El-~--~~raa~e~ekk~~~e~~eq~q~meknl~~m  211 (278)
                      +...+..+..+++.+++.++.++.-  .+++.+.++.++.... +. .  ....-+-.|-..|..+.+.+..-.+++-++
T Consensus       225 ~~~q~d~~~~~~~~~~~~~~~lq~~in~kr~~~se~~~~~a~~~~~~~~~~~~p~i~~~~~~N~~Ls~~L~~~t~~~~~l  304 (1113)
T PRK11281        225 LQKQRDYLTARIQRLEHQLQLLQEAINSKRLTLSEKTVQEAQSQDEAARIQANPLVAQELEINLQLSQRLLKATEKLNTL  304 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455566666666666666655  3344444444433311 10 0  001113334455666655555555555555


Q ss_pred             HHHHHHHHHHHHhH
Q 023704          212 AQQIERLQAELANA  225 (278)
Q Consensus       212 ~~e~eklrael~n~  225 (278)
                      .++-.+.+..+.+.
T Consensus       305 ~~~~~~~~~~l~~~  318 (1113)
T PRK11281        305 TQQNLRVKNWLDRL  318 (1113)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55444444444443

>PLN02678 seryl-tRNA synthetase

Probab=81.25  E-value=7.7  Score=38.88  Aligned_cols=33  Identities=9%  Similarity=0.167  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~  151 (278)
                      ..+-.+..+..++..++..|.+.++.++.+|..
T Consensus        33 d~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~   65 (448)
T PLN02678         33 DEVIALDKEWRQRQFELDSLRKEFNKLNKEVAK   65 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444455555556666666666666654

>PRK13995 potassium-transporting ATPase subunit C; Provisional

Probab=81.22  E-value=2.5  Score=38.08  Aligned_cols=39  Identities=10%  Similarity=-0.020  Sum_probs=25.4

Q ss_pred             ccCceEE-------EeecCCCcccc-c--------CCccCCCCCCCCCCCCCCCCch
Q 023704            3 IYGNSLH-------TTLHNHSQFTM-S--------GRRVLREPPLSTRALPPQHSPS   43 (278)
Q Consensus         3 ifG~tli-------vtfhp~~svTl-e--------GD~ydpeG~LsGGs~p~~~~~l   43 (278)
                      |.|+.||       =+|||.+|.|- +        .+-||+.+  ||||.-.+++|.
T Consensus        49 vvGS~LIgQ~Ft~~~YF~~RPSa~~y~~~~~~~~~~~~y~~~~--SggSNlgpsnp~  103 (203)
T PRK13995         49 EVGSELIGQSFTDARFFKGRVSAVNYNTYTKEDKGNGNYGGVS--SGSQNYAPTNPE  103 (203)
T ss_pred             EEeeeeecCCCCCCCCccCCCcccccccccccccccCCCCccc--ccccCCCCCCHH
Confidence            5788888       88999977762 1        22466554  788854445554

>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells

Probab=81.20  E-value=45  Score=30.74  Aligned_cols=99  Identities=19%  Similarity=0.221  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 023704           48 EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSS-VAASVKAERDAEVRELYEKSLKLDAELRVIESMHA  126 (278)
Q Consensus        48 e~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~-~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~  126 (278)
                      ..+-...+.+.|.-....+|....|.+-+.-+.++++.|..-.. .+...-.|.      | ...      +..+.+...
T Consensus        69 ~~~a~~aq~e~q~Aa~~yerA~~~h~aAKe~v~laEq~l~~~~~~~~D~~wqEm------L-n~A------~~kVneAE~  135 (239)
T PF05276_consen   69 RRKAKEAQQEAQKAALQYERANSMHAAAKEMVALAEQSLMSDSNWTFDPAWQEM------L-NHA------TQKVNEAEQ  135 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccHHHHHH------H-HHH------HHHHHHHHH
Confidence            33334444477777777777777777777666666665544321 122111111      2 111      233444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~  159 (278)
                      +...+..+-+........+...|+.|++++.+.
T Consensus       136 ek~~ae~eH~~~~~~~~~ae~~v~~Lek~lkr~  168 (239)
T PF05276_consen  136 EKTRAEREHQRRARIYNEAEQRVQQLEKKLKRA  168 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666677777788888899999999999988773

>COG1322 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]

Probab=81.19  E-value=64  Score=32.48  Aligned_cols=107  Identities=16%  Similarity=0.266  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------hh-hccH-HHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR--------DE-SKDM-AAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~--------~d-~~kl-~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      +...+.+.+..++.+.....+++.+.+.+-.+|.+-.        .+ .++| .-++..++++++.+   ...+..+=+.
T Consensus        82 l~~~~~~~~eq~~~l~~~~~ql~~~~~~~~~~i~e~~~~~~~el~~~~~~~Ll~~~~~~~e~f~e~l---~~~~~~s~~~  158 (448)
T COG1322          82 LQQQLLQSREQLQLLIESLAQLSSEFQELANEIFEELNRRLAELNQQNLKQLLKPLREVLEKFREQL---EQRIHESAEE  158 (448)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence            3344444455555555555555555555555554422        11 2222 22233334444433   3345556677


Q ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh-HHHHH
Q 023704          194 RASNHEQREIMEKNIISVAQQIERLQAELANAEKR-ARAAA  233 (278)
Q Consensus       194 ~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r-~~a~~  233 (278)
                      +..+++++..|-.++-.|++|+-.|-+=|.+...| .||-.
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

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=81.05  E-value=27  Score=28.03  Aligned_cols=100  Identities=14%  Similarity=0.224  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHH
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREI  203 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~  203 (278)
                      +.|+..++..+.........+...+..=+.+|..-... ...+.....=|..-.....++...++.|++.+.+.......
T Consensus         6 kre~~~~~~~l~~kr~e~~~~~~~~~~~e~~L~~~e~~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k~~ei~~   85 (126)
T PF13863_consen    6 KREMFLVQLALDTKREEIERREEQLKQREEELEKKEQELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEKEAEIKK   85 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHhHHHHHHHHHHHHHHHHh
Q 023704          204 MEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       204 meknl~~m~~e~eklrael~n  224 (278)
                      +...+..|-.++.+|...|..
T Consensus        86 l~~~l~~l~~~~~k~e~~l~~  106 (126)
T PF13863_consen   86 LKAELEELKSEISKLEEKLEE  106 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH

>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=80.93  E-value=27  Score=27.95  Aligned_cols=69  Identities=20%  Similarity=0.265  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ..+-.+..+|..++.+.-.+...-+++..++..+.++......    -+.+..+|+.++.+++..|....--|
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            3455556666666666666777777777777777766555333    35666777777777766665554443

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

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

Probab=80.88  E-value=42  Score=30.18  Aligned_cols=9  Identities=22%  Similarity=0.187  Sum_probs=4.4

Q ss_pred             CcccCceEE
Q 023704            1 MNIYGNSLH    9 (278)
Q Consensus         1 ~~ifG~tli    9 (278)
                      |.+|++++|
T Consensus         1 ~~~~~~~~v    9 (221)
T PF05700_consen    1 MSSINEVLV    9 (221)
T ss_pred             CCCCccccc
Confidence            344555554

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

>PF12592 DUF3763: Protein of unknown function (DUF3763); InterPro: IPR022547 This domain is found in bacterial regulartory ATPases 3

Probab=80.76  E-value=9.6  Score=27.50  Aligned_cols=54  Identities=17%  Similarity=0.279  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQA  220 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklra  220 (278)
                      +++.++++.+.++|.+.|..|.---.-+.-.-+=.-.||..|..++..++.+|.
T Consensus         3 ~e~~~qL~~~~~~l~~qR~~F~~~qPhlFI~~~wl~~IE~Sl~~l~eqL~q~~~   56 (57)
T PF12592_consen    3 EEALAQLDEAEHELRQQRSLFHQHQPHLFIDSEWLAAIEASLQQLAEQLEQLKQ   56 (57)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTT---TTS-HHHHHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcCCCcCcCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            567889999999999999999988888888889999999999999999998874

6.3. from EC, and is approximately 60 amino acids in length. The domain is found C-terminal to PF07728 from PFAM. There is a single completely conserved residue F that may be functionally important. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances; PDB: 3NBX_X.

>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]

Probab=80.75  E-value=62  Score=32.03  Aligned_cols=54  Identities=13%  Similarity=0.216  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023704           44 LHHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVK   97 (278)
Q Consensus        44 ~~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~   97 (278)
                      .+.+-.++..-++.+|..-...++++..+....|||+.++--++-+...+.-++
T Consensus       134 ~~~~~~~~~~~~q~lq~~~~~~er~~~~y~~~~qElq~k~t~~~afn~tikife  187 (464)
T KOG4637|consen  134 INAVGKKLREYHQQLQEKSLEYERLYEEYTRTSQELQMKRTAIEAFNETIKIFE  187 (464)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            556677777777788888888999999999999999988887777766665443

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

Probab=80.62  E-value=92  Score=33.92  Aligned_cols=45  Identities=11%  Similarity=0.167  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhh----hhchhhHHHHHHHHHhHHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEK----KNRASNHEQREIMEKNIIS  210 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ek----k~~~e~~eq~q~meknl~~  210 (278)
                      +++++.+++.++|-..++-..++.-.    -.+.++..|.-++-..|.-
T Consensus       293 Vk~~qeeLd~lkqt~t~a~gdseqatkylh~enmkltrqkadirc~LlE  341 (1265)
T KOG0976|consen  293 VKELQEELDTLKQTRTRADGDSEQATKYLHLENMKLTRQKADIRCALLE  341 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666666555544444332    2344444444444444443

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=80.60  E-value=72  Score=32.70  Aligned_cols=79  Identities=16%  Similarity=0.258  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhh---hhchhhHHHHHHHHHhHHHHH
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEK---KNRASNHEQREIMEKNIISVA  212 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ek---k~~~e~~eq~q~meknl~~m~  212 (278)
                      +|...+.+....+...-.+|..++.+ .+.++.++..|+.|.++|..+...|..=|   +++++.-+  ++       --
T Consensus       384 rL~e~~~e~~~~~r~~lekl~~~q~e~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~--k~-------R~  454 (531)
T PF15450_consen  384 RLSEAKNEWESDERKSLEKLDQWQNEMEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDTKIDTEG--KA-------RE  454 (531)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhhhccHHH--HH-------HH
Confidence            34444667788888888999999999 89999999999999999999998887766   33333322  22       22


Q ss_pred             HHHHHHHHHHHh
Q 023704          213 QQIERLQAELAN  224 (278)
Q Consensus       213 ~e~eklrael~n  224 (278)
                      ++|.-+|.||+.
T Consensus       455 ~eV~~vRqELa~  466 (531)
T PF15450_consen  455 REVGAVRQELAT  466 (531)
T ss_pred             HHHHHHHHHHHH
Confidence            478888888854

>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=80.44  E-value=11  Score=33.05  Aligned_cols=40  Identities=5%  Similarity=0.224  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhh
Q 023704          144 EMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       144 eL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~  183 (278)
                      +|..+|..|+++++....--.+.+.|+.+..-|..||...
T Consensus       124 eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~eL~~F  163 (171)
T PF04799_consen  124 ELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLESELERF  163 (171)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444333444444444444444444433

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.

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family

Probab=80.38  E-value=33  Score=29.00  Aligned_cols=35  Identities=23%  Similarity=0.152  Sum_probs=14.7

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           61 LLQDNQRLAATHVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        61 ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      +-.+...........+.++......|..+......
T Consensus        24 l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~   58 (135)
T TIGR03495        24 ARADLERANRVLKAQQAELASKANQLIVLLALAKR   58 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            33333333333444444444444444444444433

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

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=80.37  E-value=86  Score=33.67  Aligned_cols=16  Identities=19%  Similarity=0.270  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023704          166 MAAIKAEIETERQEIH  181 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~  181 (278)
                      +...+.+++.+-.++.
T Consensus       579 l~~a~~~~~~~i~~lk  594 (782)
T PRK00409        579 IKEAKKEADEIIKELR  594 (782)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444444444443

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=80.36  E-value=90  Score=33.63  Aligned_cols=13  Identities=15%  Similarity=0.370  Sum_probs=9.5

Q ss_pred             HHHHHHHHhHHHH
Q 023704           57 DIQSLLQDNQRLA   69 (278)
Q Consensus        57 eIq~ll~dnqrla   69 (278)
                      ||+||+.+-+..+
T Consensus       357 E~qRLitEvE~ci  369 (861)
T PF15254_consen  357 EVQRLITEVEACI  369 (861)
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888866543

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=80.26  E-value=45  Score=30.11  Aligned_cols=56  Identities=13%  Similarity=0.144  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEI  173 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEI  173 (278)
                      .++.+-+|.-|..++.-=..|....+++...|...++-..-+... ..||.-.-.+|
T Consensus        96 ~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAeekL~~ANeei  152 (207)
T PF05010_consen   96 HKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAEEKLEKANEEI  152 (207)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444443333333 33443333333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>TIGR02231 conserved hypothetical protein

Probab=80.18  E-value=39  Score=34.09  Aligned_cols=47  Identities=19%  Similarity=0.203  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAE  226 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~  226 (278)
                      +..+.+-++.+.+++..++              .+....+.-+-.+.+++.+|+.+|....
T Consensus       126 ~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~l~~l~~~l~~l~  172 (525)
T TIGR02231       126 LKEWFQAFDFNGSEIERLL--------------TEDREAERRIRELEKQLSELQNELNALL  172 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4445555555555554444              3334444445556667777777765553

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.

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=80.13  E-value=28  Score=30.29  Aligned_cols=64  Identities=11%  Similarity=0.111  Sum_probs=51.1

Q ss_pred             HHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHH
Q 023704          157 AKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQA  220 (278)
Q Consensus       157 ~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklra  220 (278)
                      +.++...-....++.|.+.|+.++..+...++...+.+.++..+.++++.++=+|..=+++-|-
T Consensus        90 q~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARk  153 (161)
T TIGR02894        90 QNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARK  153 (161)
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444556778888888888888888889888888999999999999999888887776553

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

---

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	278
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
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 = 58.7 bits (142), Expect = 6e-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 = 50.6 bits (121), Expect = 3e-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 = 40.2 bits (94), Expect = 6e-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 = 42.5 bits (99), Expect = 1e-04
 Identities = 27/229 (11%), Positives = 69/229 (30%), Gaps = 59/229 (25%)

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 ANAEKRARAAAAAAAVNPSTSYAASYGNPDPGFGGS-LYADPYSMHQVQ 270
                                     G    G G + +  D    ++VQ
Sbjct: 145 LELR--------------PAKNVLIDG--VLGSGKTWVALDVCLSYKVQ 177

>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 = 38.0 bits (87), 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	278
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.73
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	97.63
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.51
1gxl_A	213	SMC, chromosome segregation SMC protein; SMC dimer	97.5
2wd5_B	213	Structural maintenance of chromosomes protein 3; D	97.44
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.31
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	97.1
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.99
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.88
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	96.81
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.45
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	96.4
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.38
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.27
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.14
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	96.06
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.94
2wd5_A	233	Structural maintenance of chromosomes protein 1A;	95.68
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	95.65
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	95.58
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	95.54
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.42
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.15
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	95.09
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	95.04
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	95.01
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	94.78
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	94.74
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	94.41
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	94.09
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	94.04
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	94.0
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	93.84
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	93.75
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	93.33
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	93.19
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	93.05
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	92.81
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	92.77
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.73
3hhm_B	373	NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidil	92.65
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	92.64
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	92.36
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	92.27
3iox_A	497	AGI/II, PA; alpha helix, PPII helix, supersandwich	92.26
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	92.22
2xnx_M	146	M protein, M1-BC1; cell adhesion, virulence factor	92.17
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	91.75
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	91.15
3jsv_C	94	NF-kappa-B essential modulator; ubiquitin, coiled-	91.07
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	90.82
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	90.69
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	90.61
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	90.59
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	90.27
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	90.17
2efk_A	301	CDC42-interacting protein 4; EFC domain, structura	89.96
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	89.68
1ez3_A	127	Syntaxin-1A; three helix bundle, endocytosis/exocy	89.52
3lay_A	175	Zinc resistance-associated protein; salmonella typ	89.48
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	89.28
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	89.0
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	88.83
2w6b_A	56	RHO guanine nucleotide exchange factor 7; X-RAY cr	88.7
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	88.68
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	88.45
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	88.24
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	88.22
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	88.22
3bas_A	89	Myosin heavy chain, striated muscle/general contro	88.14
2pih_A	151	Protein YMCA; regulate community development, stru	87.98
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	87.73
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	87.69
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.64
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	87.36
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	87.29
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	87.24
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	87.01
3haj_A	486	Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR,	86.61
4ad8_A	517	DNA repair protein RECN; DNA binding protein, ATPa	85.88
1t3j_A	96	Mitofusin 1; coiled coil antiparallel, dimer, memb	85.81
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	85.78
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	85.34
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	85.24
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	85.02
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	84.86
2pms_C	125	Pneumococcal surface protein A (PSPA); lactoferrin	84.6
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	84.25
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	83.76
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	83.11
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	81.6
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	81.57
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	81.43
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	81.25
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	81.1
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	80.93
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	80.67
4fla_A	152	Regulation of nuclear PRE-mRNA domain-containing 1	80.35
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	80.12

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

Probab=97.73  E-value=0.0038  Score=55.94  Aligned_cols=57  Identities=7%  Similarity=0.143  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhhhhHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          101 DAEVRELYEKSLKLDAELR------VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLA  157 (278)
Q Consensus       101 e~~~r~l~~k~~kleaelr------~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~  157 (278)
                      +..+..+-.++.+.+..+.      ...++..||..+..++..+.....++..++..++.++.
T Consensus        66 e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~  128 (256)
T 3na7_A           66 EQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQE  128 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555543      23444444444444444444444444444444444433

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

Probab=97.63  E-value=0.0016  Score=69.58  Aligned_cols=123  Identities=13%  Similarity=0.124  Sum_probs=45.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           65 NQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQE  144 (278)
Q Consensus        65 nqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqe  144 (278)
                      +..|-.....|++.|.....+...|...+.......+.++-+|-.....||......+..++++..+..++.++....++
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            33444444444444444444444444444433333333344442223333333333344444444445555554444444


Q ss_pred             HHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          145 MIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       145 L~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      +..+...++..+.+...+ ..++..|++|...|++++..+...+
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            444555555544444444 4556666666666666666655433

>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=97.51  E-value=0.0004  Score=74.53  Aligned_cols=10  Identities=0%  Similarity=0.159  Sum_probs=3.9

Q ss_pred             HHHHHHHHHH
Q 023704           47 LEDRIAIQHS   56 (278)
Q Consensus        47 Le~~L~~q~~   56 (278)
                      +++++.....
T Consensus       862 L~~eL~el~~  871 (1184)
T 1i84_S          862 KDEELQRTKE  871 (1184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3334433333

>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=97.50  E-value=2.7e-05  Score=66.68  Aligned_cols=53  Identities=9%  Similarity=0.060  Sum_probs=37.5

Q ss_pred             cccCceEE---------Eeec--CC-CcccccCCccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHH
Q 023704            2 NIYGNSLH---------TTLH--NH-SQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHS   56 (278)
Q Consensus         2 ~ifG~tli---------vtfh--p~-~svTleGD~ydpeG~LsGGs~p~~~~~l~~~Le~~L~~q~~   56 (278)
                      .+||+++|         +.+.  |+ ++||++||+++|+|.++||+.+..++++  ....+|...+.
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            36999999         3443  33 8999999999999999999864345555  33444444433

>2wd5_B Structural maintenance of chromosomes protein 3; DNA damage, cell cycle, cell division; 2.70A {Mus musculus}

Probab=97.44  E-value=2.2e-05  Score=67.85  Aligned_cols=42  Identities=17%  Similarity=0.226  Sum_probs=31.4

Q ss_pred             cccCceEE---------EeecCC-CcccccCCccCCCCCCCCCCCCCCCCch
Q 023704            2 NIYGNSLH---------TTLHNH-SQFTMSGRRVLREPPLSTRALPPQHSPS   43 (278)
Q Consensus         2 ~ifG~tli---------vtfhp~-~svTleGD~ydpeG~LsGGs~p~~~~~l   43 (278)
                      .+||+++|         +.+.++ ++||++||+++|+|.++||+.+...+.+
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 8999999999999999999865443444

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

Probab=97.31  E-value=0.052  Score=48.48  Aligned_cols=43  Identities=14%  Similarity=0.156  Sum_probs=22.0

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           58 IQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        58 Iq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      +|.+.....++......|..+|...+.++..+...+.....+.
T Consensus        13 LQ~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l   55 (256)
T 3na7_A           13 ISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEK   55 (256)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444445555555555555555555555444443

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

Probab=96.99  E-value=0.017  Score=61.65  Aligned_cols=85  Identities=8%  Similarity=0.054  Sum_probs=50.3

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHHhhhh
Q 023704          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD-MAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       107 l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k-l~~LkaEIe~LrqEl~~~ra  185 (278)
                      +.+...+|..++...+...+|+.++.+.+..|..+..+|..+++.+.+|........++ ...|...|..|++|.+++|.
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            34444555555555555566666666666666666666666666666666665554222 24666666677777777776


Q ss_pred             hhhhhh
Q 023704          186 AIECEK  191 (278)
Q Consensus       186 a~e~ek  191 (278)
                      .++.-.
T Consensus      1038 q~~~l~ 1043 (1080)
T 2dfs_A         1038 EKEELN 1043 (1080)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666543

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

Probab=96.88  E-value=0.17  Score=42.96  Aligned_cols=42  Identities=10%  Similarity=0.192  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD  165 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k  165 (278)
                      +...|.+-+.+.........+|...|..|..||.+.....++
T Consensus        74 LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k  115 (168)
T 3o0z_A           74 LQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEK  115 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444455666666666666665544333

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

Probab=96.81  E-value=0.11  Score=44.89  Aligned_cols=35  Identities=9%  Similarity=0.059  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~  159 (278)
                      +....+++..|.+|...-.+|......+..-+.+|
T Consensus       101 ~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~  135 (189)
T 2v71_A          101 RAIKEQLHKYVRELEQANDDLERAKRATIMSLEDF  135 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHH
Confidence            33333333333333333333333333333333333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.45  E-value=0.44  Score=56.13  Aligned_cols=58  Identities=7%  Similarity=0.119  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          170 KAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       170 kaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      ++++..+..++..+.+....-+..=.+.-+.++.++.++-...+|.++|..|+..+++
T Consensus      2013 r~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~ 2070 (3245)
T 3vkg_A         2013 REEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKN 2070 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444333333333333444445555555555555555555555555543

>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=96.40  E-value=0.03  Score=55.08  Aligned_cols=78  Identities=3%  Similarity=0.199  Sum_probs=46.4

Q ss_pred             hhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhccHHHHHHH
Q 023704           94 ASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVI-KQEMIKDLNEINGDLAKARDESKDMAAIKAE  172 (278)
Q Consensus        94 ~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~-rqeL~~evq~LekDL~~~~~d~~kl~~LkaE  172 (278)
                      ..+..+.+.+++.+             .+.++..+.+.. +....... -.+|...|+.|+..|..   ..++|..|+.-
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            33444555556666             444554444444 33332222 33666666666666554   35778888888


Q ss_pred             HHHHHHHHHhhhhhhh
Q 023704          173 IETERQEIHKGRAAIE  188 (278)
Q Consensus       173 Ie~LrqEl~~~raa~e  188 (278)
                      |+.++.+|+|++.+|+
T Consensus       140 Ledq~~kIQRLEvDId  155 (562)
T 3ghg_A          140 VRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            8888888888887775

>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=96.38  E-value=0.032  Score=54.53  Aligned_cols=23  Identities=17%  Similarity=0.120  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHhhhhhhhhhhhh
Q 023704          171 AEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       171 aEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      ++++.+++|+.+++..++..|+.
T Consensus       537 ~~~~~~~~~~~~le~~~~~~~~~  559 (597)
T 3oja_B          537 KETEDLEQENIALEKQLDNKRAK  559 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhHHhhhHHHHHHHhhhhhH
Confidence            33333444444444444444333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.27  E-value=0.75  Score=54.22  Aligned_cols=55  Identities=9%  Similarity=0.075  Sum_probs=32.1

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHH
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERL  218 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~ekl  218 (278)
                      .+|.+++++|..+..+|..+...|+.-.+....+-.+++.+++.|.+-.+=|..|
T Consensus      2028 ~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL 2082 (3245)
T 3vkg_A         2028 LKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNL 2082 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4455566666666666666666665555555556666666666666554434333

>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=96.14  E-value=0.076  Score=51.83  Aligned_cols=61  Identities=13%  Similarity=0.074  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHh
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEK  227 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~  227 (278)
                      ..+..+++..+++++.....++..++...+.-.+.+.|.+.+..+.+|+.++++|+...+.
T Consensus       519 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          519 AFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444445545555555555555666666777777777888888888888866653

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=95.94  E-value=0.15  Score=38.62  Aligned_cols=79  Identities=11%  Similarity=0.232  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           74 ALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (278)
Q Consensus        74 ~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~Le  153 (278)
                      .||++|..+..+-.++...+.+.+..-       -+=-.|.|.|+.....+..++.-++.++..+.-.+-+|..+|.+|.
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            455666666666555555554433322       1223466777777777778888888888888888888888887777


Q ss_pred             HHHHHH
Q 023704          154 GDLAKA  159 (278)
Q Consensus       154 kDL~~~  159 (278)
                      .+|.=+
T Consensus        77 eEl~fL   82 (86)
T 3swk_A           77 EEIAFL   82 (86)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>2wd5_A Structural maintenance of chromosomes protein 1A; DNA damage, cell cycle, cell division; 2.70A {Mus musculus}

Probab=95.68  E-value=0.0012  Score=58.08  Aligned_cols=34  Identities=18%  Similarity=0.237  Sum_probs=28.5

Q ss_pred             cccCceEE---------EeecC--C-CcccccCCccCCCCCCCCCC
Q 023704            2 NIYGNSLH---------TTLHN--H-SQFTMSGRRVLREPPLSTRA   35 (278)
Q Consensus         2 ~ifG~tli---------vtfhp--~-~svTleGD~ydpeG~LsGGs   35 (278)
                      .+||+++|         +.|..  . ++||++||+++|+|.++||+
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         45442  3 99999999999999999997

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

Probab=95.65  E-value=0.95  Score=39.05  Aligned_cols=13  Identities=31%  Similarity=0.360  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHH
Q 023704           77 QELSLAEQELRHL   89 (278)
Q Consensus        77 qEL~laqhEL~~l   89 (278)
                      +.+..++.+|.-+
T Consensus        24 q~~~~le~El~EF   36 (189)
T 2v71_A           24 QSFQEARDELVEF   36 (189)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333444444333

>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=95.58  E-value=0.52  Score=39.44  Aligned_cols=81  Identities=14%  Similarity=0.262  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           70 ATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus        70 ~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      .....|..+|..+.++|.....++..+...++ +++.+          .........|+..+..++.+-...|.+.....
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            44556777777777877777777777766663 33334          22345677788888888888888888888888


Q ss_pred             HHHHHHHHHHhh
Q 023704          150 NEINGDLAKARD  161 (278)
Q Consensus       150 q~LekDL~~~~~  161 (278)
                      ..|++||.++.+
T Consensus        82 ~~ie~ElEeLTa   93 (154)
T 2ocy_A           82 DKLNKEVEDLTA   93 (154)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888888663

>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=95.54  E-value=0.26  Score=39.34  Aligned_cols=72  Identities=13%  Similarity=0.241  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                      -++.+|-+.+.-+.+..+.-.-+..-|..|...|.+-.+- -+++.+|+.||+.|.++|+.+.+.+|..++.+
T Consensus        29 lLq~qLTqAQe~l~~~eaQAaTCNqTV~tL~~SL~~ekaq~q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~  101 (121)
T 3mq7_A           29 LLQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLRREN  101 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3445555555555555555555555566666666665544 45688888888888888887776655544443

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=95.42  E-value=0.085  Score=39.94  Aligned_cols=81  Identities=15%  Similarity=0.297  Sum_probs=58.4

Q ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023704           86 LRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD  165 (278)
Q Consensus        86 L~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k  165 (278)
                      |+-|..++..+..++           .+++.+   ++.++..+...+...+.-...|+.+..++..|.+|+....-  .|
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---RDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASL--AR   65 (86)
T ss_dssp             CHHHHHHHHHHHHHH-----------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHH--HH
T ss_pred             HHHHHHHHHHHHhhH-----------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH--HH
Confidence            445666666666665           366666   67788888889999999999999999999999999877541  11


Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 023704          166 MAAIKAEIETERQEIHKG  183 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~  183 (278)
                       ..|...|++|+.||.=+
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             45666666666665433

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

Probab=95.15  E-value=0.64  Score=38.04  Aligned_cols=56  Identities=11%  Similarity=0.149  Sum_probs=27.8

Q ss_pred             CcccccCCccCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHHH
Q 023704           16 SQFTMSGRRVLREPPLSTRALPPQHSPSLHHLEDRIAIQHSDIQSLLQD--NQRLAATHVALKQELSLA   82 (278)
Q Consensus        16 ~svTleGD~ydpeG~LsGGs~p~~~~~l~~~Le~~L~~q~~eIq~ll~d--nqrla~~~~~L~qEL~la   82 (278)
                      =+|++.|..|--.|+   ++   ..++.  .+-.   -....|..+-..  +..+.....++=--|+++
T Consensus        10 V~V~I~Gk~Y~i~g~---e~---ee~L~--~vA~---~vd~km~ei~~~~~~~~l~~~r~aVLaALNia   67 (138)
T 3hnw_A           10 AEVILGGKVIKLGGY---ES---EEYLQ--RVAS---YINNKITEFNKEESYRRMSAELRTDMMYLNIA   67 (138)
T ss_dssp             EEEEETTEEEEECSC---SC---HHHHH--HHHH---HHHHHHHHHTTCHHHHTSCHHHHHHHHHHHHH
T ss_pred             eEEEECCEEEEecCC---Cc---HHHHH--HHHH---HHHHHHHHHHhccCCCCCCHHHHHHHHHHHHH
Confidence            367888888875553   22   11222  2222   222234444422  555666665555555555

>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=95.09  E-value=0.17  Score=37.47  Aligned_cols=68  Identities=19%  Similarity=0.418  Sum_probs=46.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 023704           56 SDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADI  135 (278)
Q Consensus        56 ~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei  135 (278)
                      .+++.++.+|..|..++    +.|+..+.+                     |          |.+++++--|-..++.|+
T Consensus         9 kevEnLi~EN~eLl~TK----NaLnvvk~D---------------------L----------I~rvdELt~E~e~l~~El   53 (77)
T 2w83_C            9 REVENLILENTQLLETK----NALNIVKND---------------------L----------IAKVDELTCEKDVLQGEL   53 (77)
T ss_dssp             HHHHHHHHHHHHHHHHH----HHHHHHHHH---------------------H----------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH----HHHHHHHHH---------------------H----------HHHHHHHHhHHHHHHHHH
Confidence            47888999999888877    666776665                     3          666778888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 023704          136 EKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       136 ~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      ..+...+..+..++..++.|+.+
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            88888888888888888877765

>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=95.04  E-value=1.1  Score=36.01  Aligned_cols=97  Identities=14%  Similarity=0.204  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHH-----------HHHHHHHhhhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIE-----------TERQEIHKGRAAIEC  189 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe-----------~LrqEl~~~raa~e~  189 (278)
                      +..+..++.+++..+.+....+++|..+...+..+.+++....+...++-++.+           .|-..|..+...++.
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            344556666666666666666666666666666666665543333333333333           333445555566666


Q ss_pred             hhhhchhhHHHHHHHHHhHHHHHHHHHH
Q 023704          190 EKKNRASNHEQREIMEKNIISVAQQIER  217 (278)
Q Consensus       190 ekk~~~e~~eq~q~meknl~~m~~e~ek  217 (278)
                      +...+.++....+-|+..+-.+-..++-
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            6666666666666665555444444443

>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=95.01  E-value=0.72  Score=36.22  Aligned_cols=84  Identities=17%  Similarity=0.234  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK-ARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~-~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e  196 (278)
                      ||.+.++-+.|..++....++...+++|..++..++.+-.. +.....++..|+.+|..=+.|+.++..+++--......
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 23337778888888888777887766655554444444


Q ss_pred             hHHHH
Q 023704          197 NHEQR  201 (278)
Q Consensus       197 ~~eq~  201 (278)
                      +..+.
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=94.78  E-value=0.4  Score=45.56  Aligned_cols=70  Identities=13%  Similarity=0.231  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ..|.++|..++.-..++.+.-..+.--|-.|..-|..-.+. .+++.+|+.||..+.++|+.+++.|+..|
T Consensus       400 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  470 (471)
T 3mq9_A          400 HLLQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLR  470 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444555555544444444444444444444444333333 45788888888888888888888887654

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

Probab=94.74  E-value=0.96  Score=42.90  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           70 ATHVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        70 ~~~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      .....|||+|..++..+..++.+..+
T Consensus       397 ~~~~~~~~~~~~~~~~~~~~~~~~~~  422 (471)
T 3mq9_A          397 NVTHLLQQELTEAQKGFQDVEAQAAT  422 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHhhh
Confidence            34445666666666665555554443

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=94.41  E-value=0.91  Score=35.85  Aligned_cols=47  Identities=13%  Similarity=0.256  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          116 AELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       116 aelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      +++..+.-+++.+.--+.|...-.+.|..+..+++.|..++..++..
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            33444555555555555555555555555555555555555544443

>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=94.09  E-value=0.52  Score=46.44  Aligned_cols=93  Identities=12%  Similarity=0.219  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHH-hhhhhhhhhhhhchhhHHHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIH-KGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~-~~raa~e~ekk~~~e~~eq~  201 (278)
                      .++.-|..++..+.++...+++...-+..+...|.+      ++.... +.+....|+. .+|..|.|-|..=..++.++
T Consensus        61 DltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~------rq~q~~-dNdNtynE~S~ELRRrIqyLKekVdnQlsnI  133 (562)
T 3ghg_A           61 DFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRG------DFSSAN-NRDNTYNRVSEDLRSRIEVLKRKVIEKVQHI  133 (562)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSS------HHHHHH-HHHHHHHHTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHH------HHHhhh-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555544444444434333333322      111111 3333444444 55555555555556666777


Q ss_pred             HHHHHhHHHHHHHHHHHHHHH
Q 023704          202 EIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       202 q~meknl~~m~~e~eklrael  222 (278)
                      +++++||-....+|.||.-+|
T Consensus       134 rvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          134 QLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777776666

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=94.04  E-value=0.42  Score=37.80  Aligned_cols=84  Identities=10%  Similarity=0.232  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQ  200 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq  200 (278)
                      ++.++..|..+..-+......+.+|..++.+...++              ..|.-|++++.--+.+|+-|...+-.+-+.
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            445566666666666665555555555555544444              235555555555667777777777777666


Q ss_pred             HHHHHHhHHHHHHHHHHH
Q 023704          201 REIMEKNIISVAQQIERL  218 (278)
Q Consensus       201 ~q~meknl~~m~~e~ekl  218 (278)
                      ...++..+-.+-+++.+|
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            666666666666655543

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=93.84  E-value=1.1  Score=35.77  Aligned_cols=77  Identities=9%  Similarity=0.164  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e  199 (278)
                      ..|.||..++..|+.|....+.+......|+..|.+.... ...+..+...|..|..+|.++|..++---..+.+++.
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 5666666777777777777766666544444444443

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

Probab=93.75  E-value=0.93  Score=35.09  Aligned_cols=33  Identities=15%  Similarity=0.291  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          126 AELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       126 ~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      +++..++.++..|.........++..|..++.+
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            344444444444444444455555555555444

>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=93.33  E-value=2.5  Score=33.76  Aligned_cols=32  Identities=16%  Similarity=0.259  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      .+.........|.+.++.|..+|..|.++|.+
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

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=93.19  E-value=0.6  Score=34.96  Aligned_cols=48  Identities=13%  Similarity=0.322  Sum_probs=25.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHh
Q 023704          113 KLDAELRVIESMHAELDRVRADIEKLCVI-------KQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       113 kleaelr~~e~lk~El~qlr~ei~~l~~~-------rqeL~~evq~LekDL~~~~  160 (278)
                      -|++||++-..+..||.+++.+...+...       .++|..+++.+.++|.+++
T Consensus        18 ALeaEIqAKQ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e~~~l~~~~eelq   72 (81)
T 1wt6_A           18 ALEEEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAHVRQLQERMELLQ   72 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666777777777776666655554443       3444444444444444433

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=93.05  E-value=1  Score=36.17  Aligned_cols=77  Identities=14%  Similarity=0.229  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHH
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e  199 (278)
                      ..+.||..++..|+.|....+.+......|+..|.+.... ...+..+...|..|..++.++|..++---.-+.+++.
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            3455666666666666666666666666777777666665 5566666666666666666666666544444444443

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=92.81  E-value=3.1  Score=33.31  Aligned_cols=16  Identities=6%  Similarity=0.287  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023704          143 QEMIKDLNEINGDLAK  158 (278)
Q Consensus       143 qeL~~evq~LekDL~~  158 (278)
                      ..|..+++.+..||.+
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

>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=92.77  E-value=3.1  Score=33.18  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023704           70 ATHVALKQELSLAEQELRHLSSVAASV   96 (278)
Q Consensus        70 ~~~~~L~qEL~laqhEL~~l~~~i~~~   96 (278)
                      ..+.-|+++|..++.-|+..+....+-
T Consensus        25 N~T~lLq~qLTqAQe~l~~~eaQAaTC   51 (121)
T 3mq7_A           25 NVTHLLQQELTEAQKGFQDVEAQAATA   51 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445567778888887777766555543

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=92.73  E-value=3.1  Score=33.16  Aligned_cols=14  Identities=21%  Similarity=0.442  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHH
Q 023704          145 MIKDLNEINGDLAK  158 (278)
Q Consensus       145 L~~evq~LekDL~~  158 (278)
                      |..+++.+..||.+
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

>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=92.65  E-value=3.7  Score=38.68  Aligned_cols=129  Identities=16%  Similarity=0.233  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHh---HHHHHHHHHHHhhhhHHHHHHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAE---RDAEVRELYEKSLKLDAELRVIE  122 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae---~e~~~r~l~~k~~kleaelr~~e  122 (278)
                      .+-++|...+...+....+.+++...+..+.|||+.+..-+.-....+.-.+-.   +|..+.+-+++-.        .+
T Consensus       123 ~~~~~l~e~~~~~~~~~~~~~~~~~~~~~~~~e~~~k~~a~~af~~~~~~f~~q~~~~e~~~~~~~~~~~--------~~  194 (373)
T 3hhm_B          123 AVGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQMKRTAIEAFNETIKIFEEQCQTQERYSKEYIEKFK--------RE  194 (373)
T ss_dssp             GGGC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--------TT
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh--------hh
Confidence            455566677777888888899999999999999998887777665555433322   1222223322211        11


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          123 SMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       123 ~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      +-..|+..+..-.+.|+...+++....+.|+++|....   .....+..++.+|+=++..++.
T Consensus       195 ~~~~e~~~~~~n~~~l~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~lkp~l~ql~k  254 (373)
T 3hhm_B          195 GNEKEIQRIMHNYDKLKSRISEIIDSRRRLEEDLKKQA---AEYREIDKRMNSIKPDLIQLRK  254 (373)
T ss_dssp             TCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cChHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccChHHHHHHH
Confidence            12235555555555666666666666666666665533   2334556666666666655554

>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=92.64  E-value=1.7  Score=33.46  Aligned_cols=84  Identities=17%  Similarity=0.253  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           74 ALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (278)
Q Consensus        74 ~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~Le  153 (278)
                      .|...|..+..-|...+..|..           |-+.+.++++++..+.-+++.+.--+.|...-.+.|..+..+.+.|.
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           33444566777778888888888888888888888888888887777


Q ss_pred             HHHHHHhhhhccHHH
Q 023704          154 GDLAKARDESKDMAA  168 (278)
Q Consensus       154 kDL~~~~~d~~kl~~  168 (278)
                      .++..++....+|..
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            777776666555543

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

Probab=92.36  E-value=1.3  Score=33.24  Aligned_cols=58  Identities=14%  Similarity=0.266  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704          101 DAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARD  161 (278)
Q Consensus       101 e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~  161 (278)
                      |..|...+|.+..|..+   ++++|.+-..|..+.+.+...+..|..+.++|..|...|+.
T Consensus        12 E~KIq~avdtI~lLqmE---ieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~   69 (81)
T 2jee_A           12 EAKVQQAIDTITLLQME---IEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQE   69 (81)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            34444566666666666   77777777788888888888888888888888888777664

>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=92.27  E-value=1.6  Score=34.53  Aligned_cols=94  Identities=16%  Similarity=0.251  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHE  199 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~e  199 (278)
                      .+.+..++.+++.++.++...+++|...       +.+-..| ..++..|..-+..--+.|..++.+|.--|.   +--+
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            4556666777777777777777777666       5555556 778888888888888888888888876554   3455


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          200 QREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       200 q~q~meknl~~m~~e~eklrael~n  224 (278)
                      |++.....-=.+..|+.+|.+|=.+
T Consensus        78 qL~~Lt~~Re~V~~eL~rLQ~eNd~  102 (112)
T 1x79_B           78 QMAVLMQSREQVSEELVRLQKDNDS  102 (112)
T ss_dssp             HHHHHHHHHHHHHTC----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccc
Confidence            6666666666677777777766433

>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=92.26  E-value=4.3  Score=39.72  Aligned_cols=101  Identities=21%  Similarity=0.220  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           73 VALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEI  152 (278)
Q Consensus        73 ~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~L  152 (278)
                      ..-|-+|+.-|.||-+.+......+++-|.-+.++-.+.+.++||   ++++++.=.+..++-+.   .......++...
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            345678999999999999999999988888888886666667776   55555443333333222   122233333444


Q ss_pred             HHHHHHHhhhhccHHHHHHHHHHHHHHHHh
Q 023704          153 NGDLAKARDESKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       153 ekDL~~~~~d~~kl~~LkaEIe~LrqEl~~  182 (278)
                      .+|+.+++   .++.+-..++....+++..
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            44444433   3555555555555555553

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=92.22  E-value=0.57  Score=37.59  Aligned_cols=51  Identities=24%  Similarity=0.497  Sum_probs=27.7

Q ss_pred             hHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704           97 KAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus        97 ~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      +.++|.+|..|          -+.++.++.++..+..+.+.   ...+|...|..|+.||..-+
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          45555555555555443333   34455666666666666544

>2xnx_M M protein, M1-BC1; cell adhesion, virulence factor, streptococcal toxic shock S; 3.30A {Streptococcus pyogenes}

Probab=92.17  E-value=1  Score=37.23  Aligned_cols=62  Identities=16%  Similarity=0.212  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhh
Q 023704          122 ESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAA  186 (278)
Q Consensus       122 e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa  186 (278)
                      ..++.++...++....+.+..+.+.+++..++.++..+..+.+-..+.+   .+|+.+|.-.|.+
T Consensus        69 ~~l~rdleasr~akk~~ea~la~l~~~~~~LeAE~aKLeEekQIseASR---qgLrRDLeASReA  130 (146)
T 2xnx_M           69 EAITREQEINRNLLGNAKLELDQLSSEKEQLTIEKAKLEEEKQISDASR---QSLRRDLDASREA  130 (146)
T ss_dssp             TTHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTC--------------------
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHH---HHHHHHHHHHHHH
Confidence            3344444444444444444444555555555555555543333222222   4444444444444

>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=91.75  E-value=0.74  Score=35.51  Aligned_cols=43  Identities=5%  Similarity=0.250  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      .++.++.++.+++.++.+|...+.++..++..+.+.+..+..+
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            3566677888888899999999999999999999999998764

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=91.15  E-value=2.6  Score=33.72  Aligned_cols=38  Identities=13%  Similarity=0.309  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      +..|+..|.+|++++..-...+++...+...|..++..
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

>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=91.07  E-value=0.98  Score=34.76  Aligned_cols=51  Identities=12%  Similarity=0.285  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHH
Q 023704          171 AEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAE  221 (278)
Q Consensus       171 aEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrae  221 (278)
                      ..|.-|++++.--+.+|.-|+..+-.+-+..+.+...+-.+-+++.+|.+|
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            344444444445555555555555555555555555555555555555543

>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=90.82  E-value=1.2  Score=34.61  Aligned_cols=61  Identities=13%  Similarity=0.263  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhh----hccH------------HHHHHHHHHHHHHHHhhhhhh
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAK--ARDE----SKDM------------AAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~--~~~d----~~kl------------~~LkaEIe~LrqEl~~~raa~  187 (278)
                      ++..++.+|..|...+..|..++..|+-.|..  ++.|    .-|+            ...+.+|+.|+.|+.++|..+
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            44455555555555555566666666666555  1222    1222            245566666666666666543

>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=90.69  E-value=8.3  Score=37.48  Aligned_cols=67  Identities=15%  Similarity=0.217  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      +..|+..+.+.+..+..+....+++..+++.+..-+++.-..  .+.|..|+..++.++..|+++...+
T Consensus       123 i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~~~~i~~L~~~~~~l~~ki~~l~~~~  191 (464)
T 1m1j_B          123 VNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNIPSSLRVLRAVIDSLHKKIQKLENAI  191 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666666666666666666666666666665554332  5677778888888877777776655

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=90.61  E-value=6.1  Score=32.28  Aligned_cols=100  Identities=19%  Similarity=0.294  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           72 HVALKQELSLAEQELRHLSSVAASVKAERDAEVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNE  151 (278)
Q Consensus        72 ~~~L~qEL~laqhEL~~l~~~i~~~~ae~e~~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~  151 (278)
                      ...|+-|+..++..+......+..+...+-.|.-++ -|...|||||+.-+.|-..|      .+.....|++|..+--.
T Consensus        62 i~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDi-RKLrELEADLKEKDsMVe~L------T~TiG~LrKELEdEklK  134 (167)
T 4gkw_A           62 IGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDM-RKLGELEADLKEKDSMVESL------TETIGILRKELENEKLK  134 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTHHHHHTHHHHHHHHHHH------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhH-HHHHHHHhHHhhhhHHHHHH------HHHHHHHHHHHHHHHHH
Confidence            344555555556666665555665655554444433 34444555554444332111      11222233333333322


Q ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          152 INGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       152 LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      +..-|..       ...|+-|-+.+++.|..-|+
T Consensus       135 ~~E~MdS-------FE~LkvENE~vkerl~mYR~  161 (167)
T 4gkw_A          135 AAENMDS-------FEKLSMENENLKEKIAHYRA  161 (167)
T ss_dssp             HHHHHHH-------HHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHH-------HHHHhhhhHhHHHHHHHHHH
Confidence            2222222       23456666666666665554

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=90.59  E-value=6.1  Score=32.27  Aligned_cols=97  Identities=18%  Similarity=0.215  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHH-------HHHHHHHHhhhhhhhhh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEI-------ETERQEIHKGRAAIECE  190 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEI-------e~LrqEl~~~raa~e~e  190 (278)
                      -+++..-.+||..+|++...++...+.....+.+-...-+.-.-|.-||.+|.+.+       ++|.+-|--+|..+|.|
T Consensus        52 qKRn~~HQKEi~~Lrae~~~~QRn~~K~~~~Lkrn~~qQnQQSlDiRKLrELEADLKEKDsMVe~LT~TiG~LrKELEdE  131 (167)
T 4gkw_A           52 QKRNVAHQKEIGKLRAELGTAQRNLEKADQLLKRNSQQQNQQSLDMRKLGELEADLKEKDSMVESLTETIGILRKELENE  131 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhHHHhHhhhhHHHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            45566667788888888777666655555544444333333334455666666655       66777777888888888


Q ss_pred             hhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023704          191 KKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       191 kk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r  228 (278)
                      |-.-.|.+..              .|||.-|-.+...|
T Consensus       132 klK~~E~MdS--------------FE~LkvENE~vker  155 (167)
T 4gkw_A          132 KLKAAENMDS--------------FEKLSMENENLKEK  155 (167)
T ss_dssp             HHHHHHHHHH--------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--------------HHHHhhhhHhHHHH
Confidence            7654444332              35666665555544

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

Probab=90.27  E-value=3.4  Score=34.35  Aligned_cols=80  Identities=11%  Similarity=0.129  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHH
Q 023704          134 DIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQ  213 (278)
Q Consensus       134 ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~  213 (278)
                      .|..|...+..+..+|..++.+|..   ..+-+..|..|+..|+-++..+...+.--++-|.++++..      |-.|++
T Consensus        69 ~I~~L~~El~~l~~ki~dLeeel~e---K~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RW------M~rk~q  139 (152)
T 3a7p_A           69 TLAILQKELKSKEQEIRRLKEVIAL---KNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARW------LKKTEK  139 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHH
Confidence            3334444444444444445544444   2334556778888888888888877777777777777654      445777


Q ss_pred             HHHHHHHHH
Q 023704          214 QIERLQAEL  222 (278)
Q Consensus       214 e~eklrael  222 (278)
                      |.++|-.+.
T Consensus       140 EAe~MN~an  148 (152)
T 3a7p_A          140 ETEAMNSEI  148 (152)
T ss_dssp             HHHHC----
T ss_pred             HHHHHHHhc
Confidence            888775443

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

Probab=90.17  E-value=2.5  Score=31.61  Aligned_cols=66  Identities=14%  Similarity=0.139  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhhHHHH
Q 023704          167 AAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAELANAEKRARAA  232 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael~n~~~r~~a~  232 (278)
                      ..|.+.|+.+=..|.-++-.|+..|-.|..+..+.+....+-....+|.++|+.|..+-..|=++.
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            445555555555666666666667777777777777777777778889999999998888877654

>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=89.96  E-value=9.5  Score=33.46  Aligned_cols=19  Identities=5%  Similarity=0.004  Sum_probs=11.5

Q ss_pred             hhhHHHHHHHHHhHHHHHH
Q 023704          195 ASNHEQREIMEKNIISVAQ  213 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~  213 (278)
                      ...++++|.||...+..-+
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            3456777777766554443

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

Probab=89.68  E-value=8.5  Score=32.49  Aligned_cols=55  Identities=15%  Similarity=0.225  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHhH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAASVKAER  100 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~~~~ae~  100 (278)
                      .|+.+|......++..---..|+-..+..+...+....+.++-|+..+..+...+
T Consensus        10 ~LekQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k   64 (168)
T 3o0z_A           10 QLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSK   64 (168)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555554444444444455555555555444444444444444444444444

>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=89.52  E-value=6.1  Score=30.61  Aligned_cols=65  Identities=11%  Similarity=0.299  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIK---DLNEINGDLAKARDE-SKDMAAIKAEIETERQEIHK  182 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~---evq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~  182 (278)
                      +..++.++.+|..++..+.++.........   ....+.++|...-.+ ......++..|+.|.++..+
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            566666666666666666666665554332   113455555555555 44455666666666665543

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=89.48  E-value=2  Score=36.44  Aligned_cols=27  Identities=19%  Similarity=0.337  Sum_probs=20.4

Q ss_pred             hhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          161 DESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       161 ~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      -|..++.+|-.||..|+.++...|..+
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            346889999999999888877655443

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

Probab=89.28  E-value=5.8  Score=32.24  Aligned_cols=12  Identities=8%  Similarity=-0.086  Sum_probs=7.0

Q ss_pred             cccCceEEEeec
Q 023704            2 NIYGNSLHTTLH   13 (278)
Q Consensus         2 ~ifG~tlivtfh   13 (278)
                      +|||..+.|.++
T Consensus        13 ~I~Gk~Y~i~g~   24 (138)
T 3hnw_A           13 ILGGKVIKLGGY   24 (138)
T ss_dssp             EETTEEEEECSC
T ss_pred             EECCEEEEecCC
Confidence            466666665553

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=89.00  E-value=3.5  Score=30.33  Aligned_cols=29  Identities=14%  Similarity=0.337  Sum_probs=16.3

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 023704          164 KDMAAIKAEIETERQEIHKGRAAIECEKK  192 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~raa~e~ekk  192 (278)
                      .|+..|..+++.....+..+-..++...|
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            34555566666666666655555555444

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

Probab=88.83  E-value=3.7  Score=31.20  Aligned_cols=34  Identities=15%  Similarity=0.334  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          125 HAELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       125 k~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      ..+|..+|..|..+...+..|..++..+..|+.+
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            3344444444444444444444444444333333

>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=88.70  E-value=0.9  Score=31.51  Aligned_cols=39  Identities=23%  Similarity=0.297  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHH
Q 023704          166 MAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIM  204 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~m  204 (278)
                      +=+|+.++..|++|..++...+|.|.+++-++-.=+.-|
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            457999999999999999999999999986654444433

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=88.68  E-value=2.2  Score=35.14  Aligned_cols=67  Identities=15%  Similarity=0.257  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchh
Q 023704          130 RVRADIEKLCVIKQEMIKDLNEINGDLAKARDE--SKDMAAIKAEIETERQEIHKGRAAIECEKKNRAS  196 (278)
Q Consensus       130 qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d--~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e  196 (278)
                      .|..+.+.|.....+|+.-|..|.+|+..-...  -.++..+..+|+.++.+|..+..-|.-||-.--.
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            356677888888899999999999999887766  7889999999999999999999999999865443

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=88.45  E-value=6.9  Score=29.84  Aligned_cols=27  Identities=7%  Similarity=0.211  Sum_probs=14.1

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 023704          165 DMAAIKAEIETERQEIHKGRAAIECEK  191 (278)
Q Consensus       165 kl~~LkaEIe~LrqEl~~~raa~e~ek  191 (278)
                      ++-.+..+++++...+......++-.+
T Consensus        68 ql~e~~dE~~Sl~~q~~~~~~qLdkL~   94 (96)
T 3q8t_A           68 QQLELDDELKSVENQMRYAQMQLDKLK   94 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345555555555555555555544443

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

Probab=88.24  E-value=2.3  Score=31.81  Aligned_cols=54  Identities=15%  Similarity=0.268  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HhhhhccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          135 IEKLCVIKQEMIKDLNEINGDLAK---ARDESKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       135 i~~l~~~rqeL~~evq~LekDL~~---~~~d~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      +..|-.....|..++..|+..|..   |..|..++..|.++++.+.++|..+-..-+
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            334444444566667777777775   345688899999999999999988766554

>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=88.22  E-value=7.7  Score=32.29  Aligned_cols=13  Identities=23%  Similarity=0.355  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHhHH
Q 023704          214 QIERLQAELANAE  226 (278)
Q Consensus       214 e~eklrael~n~~  226 (278)
                      .+++|+..+..++
T Consensus       116 r~~~L~~ql~e~~  128 (154)
T 2ocy_A          116 LNKRLTEQLREKD  128 (154)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3455556665544

>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=88.22  E-value=9.7  Score=36.36  Aligned_cols=44  Identities=9%  Similarity=0.064  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           46 HLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL   89 (278)
Q Consensus        46 ~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l   89 (278)
                      .|.+-|..++..|..-|.+.+.+..+...+..+.......|+..
T Consensus        24 ~i~d~L~k~e~~V~~~l~~LE~~l~elsn~ts~v~~Lvk~iq~~   67 (409)
T 1m1j_C           24 GIADFFNKYRLTTDGELLEIEGLLQQATNSTGSIEYLIQHIKTI   67 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555555555555555555544444444444444444444444

>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=88.14  E-value=5.3  Score=29.94  Aligned_cols=48  Identities=15%  Similarity=0.214  Sum_probs=35.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          112 LKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       112 ~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      .+.|.+   +..+..++..++..+.+....+++|..+...+..+.+++...
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   445677888888888888888888888888888877776544

>2pih_A Protein YMCA; regulate community development, structural genomics, PSI-2, protein structure initiative; 2.10A {Bacillus subtilis} SCOP: a.281.1.1

Probab=87.98  E-value=4.5  Score=33.18  Aligned_cols=104  Identities=11%  Similarity=0.192  Sum_probs=75.1

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc--HHHHHHHHHHHHHHHHh
Q 023704          105 RELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD--MAAIKAEIETERQEIHK  182 (278)
Q Consensus       105 r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k--l~~LkaEIe~LrqEl~~  182 (278)
                      ..++|++-.|...|+..++++ ++..+...+.. ...-+.|-.+.+.+.+++..++.-++.  ..+...++..+..+|..
T Consensus         7 ~~I~d~A~eL~~aI~eseeyk-~yk~A~~~i~~-D~eaq~li~eF~~~Q~~~~~~q~~Gk~~~~~e~~~el~~l~~~l~~   84 (151)
T 2pih_A            7 KDIVQQARNLAKMISETEEVD-FFKRAEAQINE-NDKVSTIVNQIKALQKQAVNLKHYEKHEALKQVEAKIDALQEELEE   84 (151)
T ss_dssp             HHHHHHHHHHHHHHTTBHHHH-HHHHHHHHHHH-CHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCHHHH-HHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHHHHcCCccchHHHHHHHHHHHHHHHc
Confidence            458899999999999998886 77777777765 445567777788888888888876653  57888888888888887


Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHhHHHHHHHHHHHHHHH
Q 023704          183 GRAAIECEKKNRASNHEQREIMEKNIISVAQQIERLQAEL  222 (278)
Q Consensus       183 ~raa~e~ekk~~~e~~eq~q~meknl~~m~~e~eklrael  222 (278)
                      -....+|            ..-|..|-.|-.+|-+.=++-
T Consensus        85 np~V~~y------------~~Ae~~l~~LL~~I~~iI~~~  112 (151)
T 2pih_A           85 IPVIQEF------------RDSQMEVNDLLQLVAHTISNQ  112 (151)
T ss_dssp             SHHHHHH------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHH------------HHHHHHHHHHHHHHHHHHHHH
Confidence            6655555            334555666666666554433

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

Probab=87.69  E-value=4.6  Score=30.69  Aligned_cols=51  Identities=14%  Similarity=0.266  Sum_probs=25.9

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704          107 LYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDE  162 (278)
Q Consensus       107 l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d  162 (278)
                      .+||..-||.+   +..+..+|..++..  .-.....-+...|..|.+.|.....+
T Consensus        21 yIdKVR~LEqq---N~~Le~~i~~l~~~--~~~~~~~~ye~~i~~Lr~~i~~~~~e   71 (93)
T 3s4r_A           21 LIDKVRFLEQQ---NKILLAELEQLKGQ--GKSRLGDLYEEEMRELRRQVDQLTND   71 (93)
T ss_dssp             HHHHHHHHHHH---HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHHhhc--cCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666   55555555555432  11223333455555555555555544

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.64  E-value=16  Score=34.50  Aligned_cols=30  Identities=7%  Similarity=-0.062  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHhhhhhhhhhhhhchhhHHHH
Q 023704          172 EIETERQEIHKGRAAIECEKKNRASNHEQR  201 (278)
Q Consensus       172 EIe~LrqEl~~~raa~e~ekk~~~e~~eq~  201 (278)
                      |-+.++.++.....+++.=+-.+.+.+.+.
T Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  479 (487)
T 3oja_A          450 ENARLKKLNGEADLALASANATLQELVVRE  479 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhhhhhhhHhcccHHHHHHHHH
Confidence            444444444444444444444444444443

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=87.36  E-value=4.3  Score=30.30  Aligned_cols=20  Identities=5%  Similarity=0.064  Sum_probs=9.5

Q ss_pred             ccHHHHHHHHHHHHHHHHhh
Q 023704          164 KDMAAIKAEIETERQEIHKG  183 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~  183 (278)
                      ++-.+|..||+.++.++..+
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            33444455555555554443

>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=87.29  E-value=21  Score=34.67  Aligned_cols=26  Identities=15%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             hccHHHHHHHHHHHHHHHHhhhhhhh
Q 023704          163 SKDMAAIKAEIETERQEIHKGRAAIE  188 (278)
Q Consensus       163 ~~kl~~LkaEIe~LrqEl~~~raa~e  188 (278)
                      .+.|..|+.-|+.++.+|+|++.+|.
T Consensus       131 i~~IrvLq~~l~~q~skIQRLE~dI~  156 (491)
T 1m1j_A          131 VNRIKALQNSIQEQVVEMKRLEVDID  156 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67788888888888888888888775

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=87.24  E-value=7.3  Score=28.80  Aligned_cols=23  Identities=9%  Similarity=0.354  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 023704          124 MHAELDRVRADIEKLCVIKQEMI  146 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~  146 (278)
                      ++.+|.+++.++......-++|.
T Consensus        38 lE~eL~~~r~e~~~q~~EYq~Ll   60 (84)
T 1gk4_A           38 LQDEIQNMKEEMARHLREYQDLL   60 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444443333333333

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

Probab=87.01  E-value=8.7  Score=29.42  Aligned_cols=24  Identities=13%  Similarity=0.201  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          167 AAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      ..|..+++.+...+..+...++..
T Consensus        54 ~~lE~eld~~ee~L~ea~~kLee~   77 (101)
T 3u1c_A           54 RVTEDSRDQVLEELHKSEDSLLFA   77 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555444444433

>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=86.61  E-value=23  Score=33.90  Aligned_cols=48  Identities=17%  Similarity=0.257  Sum_probs=27.1

Q ss_pred             cHHHHHHHHHHHHHHHHhhhhhh------------hhhhhhchhhHHHHHHHHHhHHHHHH
Q 023704          165 DMAAIKAEIETERQEIHKGRAAI------------ECEKKNRASNHEQREIMEKNIISVAQ  213 (278)
Q Consensus       165 kl~~LkaEIe~LrqEl~~~raa~------------e~ekk~~~e~~eq~q~meknl~~m~~  213 (278)
                      ++..++..++..++++..++..|            +|+ ..-...++++|.||..-|..-+
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            34555555555555554444433            222 3445667788888877766655

>4ad8_A DNA repair protein RECN; DNA binding protein, ATPase domain; HET: DNA; 4.00A {Deinococcus radiodurans}

Probab=85.88  E-value=24  Score=33.82  Aligned_cols=17  Identities=6%  Similarity=0.024  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHHHh
Q 023704          166 MAAIKAEIETERQEIHK  182 (278)
Q Consensus       166 l~~LkaEIe~LrqEl~~  182 (278)
                      +..+....+.++.++..
T Consensus       287 ~~~l~~~~~~~~~~l~~  303 (517)
T 4ad8_A          287 LEDVVEFGAQAAEELAG  303 (517)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333344444444433

>1t3j_A Mitofusin 1; coiled coil antiparallel, dimer, membrane protein; 2.50A {Mus musculus} SCOP: h.4.16.1

Probab=85.81  E-value=2.6  Score=32.49  Aligned_cols=44  Identities=2%  Similarity=0.160  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhh
Q 023704          142 KQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       142 rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      .++|..+|..|++++..+..--++.+-|+.+-.-|..||.....
T Consensus        49 ~~eL~~EI~~L~~eI~~LE~iqs~aK~LRnKA~~L~~eLe~F~~   92 (96)
T 1t3j_A           49 QKHLEEEIARLSKEIDQLEKMQNNSKLLRNKAVQLESELENFSK   92 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555544444455555555545445444433

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=85.78  E-value=15  Score=30.98  Aligned_cols=50  Identities=12%  Similarity=0.212  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023704           45 HHLEDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHLSSVAA   94 (278)
Q Consensus        45 ~~Le~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l~~~i~   94 (278)
                      ..+-.+|...|.+.+....+.+++...+..+.+|++....-+.-....+.
T Consensus        13 e~v~~~L~e~h~qy~~ks~~yd~l~e~y~r~sqEiq~Kr~AieAF~E~ik   62 (170)
T 3l4q_C           13 EAVGAQLKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIK   62 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            45677888888888889999999999999999999888877777666655

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=85.34  E-value=11  Score=28.80  Aligned_cols=24  Identities=13%  Similarity=0.271  Sum_probs=11.1

Q ss_pred             hhHHHHHHHHHhHHHHHHHHHHHH
Q 023704          196 SNHEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       196 e~~eq~q~meknl~~m~~e~eklr  219 (278)
                      +..+.++..+.-|..-...++|||
T Consensus        71 e~~dE~~Sl~~q~~~~~~qLdkL~   94 (96)
T 3q8t_A           71 ELDDELKSVENQMRYAQMQLDKLK   94 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333444444444444444555554

>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=85.24  E-value=12  Score=29.48  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=7.6

Q ss_pred             ccHHHHHHHHHHHHHHHHhhhh
Q 023704          164 KDMAAIKAEIETERQEIHKGRA  185 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~ra  185 (278)
                      .+|..|....+.+..+|.++..
T Consensus        77 ~qL~~Lt~~Re~V~~eL~rLQ~   98 (112)
T 1x79_B           77 EQMAVLMQSREQVSEELVRLQK   98 (112)
T ss_dssp             HHHHHHHHHHHHHHTC------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            3444444444444444444433

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=85.02  E-value=15  Score=30.44  Aligned_cols=73  Identities=11%  Similarity=0.158  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhchhhHHHHHHHHHhHHHH
Q 023704          136 EKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNRASNHEQREIMEKNIISV  211 (278)
Q Consensus       136 ~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~~e~~eq~q~meknl~~m  211 (278)
                      .+.......+..+|..|+..+.+..   .+-......+..|..+|.++...+.-+|..+....+.+..+=..|.+|
T Consensus        66 ekasqrEd~yEeqIk~L~~kLKEAE---~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el~~~  138 (155)
T 2efr_A           66 EKYSQKEDKYEEEIKVLSDKLKEAE---TRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEEL  138 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3333344444444544444443322   233333344444444455555555555555544444444433444443

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

Probab=84.86  E-value=12  Score=28.89  Aligned_cols=37  Identities=19%  Similarity=0.356  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023704          124 MHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKAR  160 (278)
Q Consensus       124 lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~  160 (278)
                      +..++..+..++.+-...|.+...+...|+++|.++.
T Consensus        24 ~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLT   60 (97)
T 2eqb_B           24 RDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556666666666767777777777777777766654

>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=84.60  E-value=7.6  Score=31.26  Aligned_cols=70  Identities=19%  Similarity=0.307  Sum_probs=41.0

Q ss_pred             HHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh-chhhHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q 023704          154 GDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN-RASNHEQREIMEKNIISVAQQIERLQAELAN  224 (278)
Q Consensus       154 kDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~-~~e~~eq~q~meknl~~m~~e~eklrael~n  224 (278)
                      .||..-++...+|.+|...|+.|..++..+...+..-... +++- --..+.++.+..--.|.+|.+++|-.
T Consensus        51 sele~k~aeLe~leeL~~ki~eL~~kvA~le~e~~~~e~~~~~~~-~~~e~le~~la~KkAEleKtqa~Ld~  121 (125)
T 2pms_C           51 SKLDAKKAKLSKLEELSDKIDELDAEIAKLEDQLKAAEENNNVED-YFKEGLEKTIAAKKAELEKTEADLKK  121 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----CH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhcccchH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334445666666666666666666666532222 2333 33677788888877888888888843

>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=84.25  E-value=7.5  Score=28.93  Aligned_cols=8  Identities=25%  Similarity=0.576  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 023704          128 LDRVRADI  135 (278)
Q Consensus       128 l~qlr~ei  135 (278)
                      |.+++.++
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

>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=83.76  E-value=13  Score=35.50  Aligned_cols=98  Identities=16%  Similarity=0.191  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 023704          115 DAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKNR  194 (278)
Q Consensus       115 eaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~~  194 (278)
                      ..+++.+|.+-.+|..+..++..|....+..-.+-+       .  ....-....-...++|..++.++++.+-      
T Consensus        37 ~~~l~~LE~~l~elsn~ts~v~~Lvk~iq~~~~~~Q-------~--~~~d~~e~~tq~skkml~~~~~~e~~~~------  101 (409)
T 1m1j_C           37 DGELLEIEGLLQQATNSTGSIEYLIQHIKTIYPSEK-------Q--TLPQSIEQLTQKSKKIIEEIIRYENTIL------  101 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSST-------T--CCSSCHHHHHHHHHHHHHHHHHTHHHHH------
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-------C--CCCCchhhHHHHHHHHHHHHHHHHHHhc------
Confidence            344555666666666666666665555555422100       0  0000012223334444445444433221      


Q ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHHHHhHHhh
Q 023704          195 ASNHEQREIMEKNIISVAQQIERLQAELANAEKR  228 (278)
Q Consensus       195 ~e~~eq~q~meknl~~m~~e~eklrael~n~~~r  228 (278)
                       ..-.+++.|+.-|-+....|+.|+..|..-+.+
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             122455556666666667777777766655543

>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=83.11  E-value=6.4  Score=28.78  Aligned_cols=32  Identities=19%  Similarity=0.154  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          128 LDRVRADIEKLCVIKQEMIKDLNEINGDLAKA  159 (278)
Q Consensus       128 l~qlr~ei~~l~~~rqeL~~evq~LekDL~~~  159 (278)
                      |.+...-|..+....++...+|+.|..++.+|
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            33333334444444444444444444444443

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=81.60  E-value=8.8  Score=30.43  Aligned_cols=44  Identities=25%  Similarity=0.382  Sum_probs=31.3

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          103 EVRELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDL  149 (278)
Q Consensus       103 ~~r~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~ev  149 (278)
                      +.|.++++..+.|.|   ++.++.++..++..+.......+++..+.
T Consensus         5 e~~~~~~~~~~~e~e---~~~l~~~~~el~~~l~~~~~~~~e~g~~~   48 (125)
T 1joc_A            5 ERRALLERCLKGEGE---IEKLQTKVLELQRKLDNTTAAVQELGREN   48 (125)
T ss_dssp             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh---HHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            346788888888888   77778888888877776665555554433

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

Probab=81.57  E-value=21  Score=29.53  Aligned_cols=30  Identities=17%  Similarity=0.112  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          119 RVIESMHAELDRVRADIEKLCVIKQEMIKD  148 (278)
Q Consensus       119 r~~e~lk~El~qlr~ei~~l~~~rqeL~~e  148 (278)
                      +.++.++.|+..++.+...+......|..+
T Consensus        96 K~~e~l~DEl~aLqlq~n~lE~kl~kLq~E  125 (152)
T 3a7p_A           96 KNTERLNAALISGTIENNVLQQKLSDLKKE  125 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666666665555555555554443

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=81.43  E-value=7.9  Score=26.49  Aligned_cols=43  Identities=5%  Similarity=0.127  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhh
Q 023704          135 IEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       135 i~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~  187 (278)
                      +.+|....+.|..+|..|..|+..          |+.+|...+.|-.|+-.-|
T Consensus         6 i~~Lss~V~~L~~kVdqLssdV~a----------l~~~v~~ak~eA~RAN~Rl   48 (52)
T 1jcd_A            6 ADQASSDAQTANAKADQASNDANA----------ARSDAQAAKDDAARANQRA   48 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHhh
Confidence            334444444444555555444333          3344445555555544433

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

Probab=81.25  E-value=9  Score=26.96  Aligned_cols=47  Identities=13%  Similarity=0.298  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccH
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDM  166 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl  166 (278)
                      ..=++|.-|....+.|+.|...-..|+.++..+.+.++.+++++..|
T Consensus        14 eylevK~ALaaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~~L   60 (63)
T 2w6a_A           14 EYLELKKALATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENLQL   60 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhhhh
Confidence            34456777777888888888888888888888888888888776544

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=81.10  E-value=2.5  Score=34.53  Aligned_cols=9  Identities=44%  Similarity=0.464  Sum_probs=3.3

Q ss_pred             HHHHHHHHH
Q 023704           71 THVALKQEL   79 (278)
Q Consensus        71 ~~~~L~qEL   79 (278)
                      .+..|..+|
T Consensus        33 ~l~~l~~~l   41 (135)
T 2e7s_A           33 DYNTLKREL   41 (135)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            333333333

>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=80.93  E-value=7.6  Score=26.44  Aligned_cols=42  Identities=26%  Similarity=0.286  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704           48 EDRIAIQHSDIQSLLQDNQRLAATHVALKQELSLAEQELRHL   89 (278)
Q Consensus        48 e~~L~~q~~eIq~ll~dnqrla~~~~~L~qEL~laqhEL~~l   89 (278)
                      ++++.....++..+-..|.+|+.....-+++|...+.+|..|
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            777888888888999999999999999999998888888765

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=80.67  E-value=17  Score=27.66  Aligned_cols=24  Identities=13%  Similarity=0.284  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhhh
Q 023704          167 AAIKAEIETERQEIHKGRAAIECE  190 (278)
Q Consensus       167 ~~LkaEIe~LrqEl~~~raa~e~e  190 (278)
                      ..+..+++.+...+..+...++..
T Consensus        54 q~lE~eld~~~e~l~~a~~kLe~~   77 (101)
T 3u59_A           54 KGTEDEVEKYSESVKEAQEKLEQA   77 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444433

>4fla_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural genomics consortium, SGC, transcription; 2.20A {Homo sapiens}

Probab=80.35  E-value=19  Score=29.61  Aligned_cols=58  Identities=19%  Similarity=0.208  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH
Q 023704          121 IESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQ  178 (278)
Q Consensus       121 ~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~Lrq  178 (278)
                      +..+.+|+..-+.-++-|....+.....+...++.+.+.+.-..++..++.+|++.-+
T Consensus        88 n~rL~~E~~dR~~L~~~L~~~~~~~~~~l~e~e~~leeyK~Kl~rv~~vkkeL~~hi~  145 (152)
T 4fla_A           88 NGRLAAELEDRRQLARMLVEYTQNQKDVLSEKEKKLEEYKQKLARVTQVRKELKSHIQ  145 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5566666666666677777777777777777788888877778888888888876543

>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=80.12  E-value=9.7  Score=27.79  Aligned_cols=20  Identities=25%  Similarity=0.265  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHhhhhhh
Q 023704          168 AIKAEIETERQEIHKGRAAI  187 (278)
Q Consensus       168 ~LkaEIe~LrqEl~~~raa~  187 (278)
                      +...+|..|+.+|.+.++.+
T Consensus        51 ekd~eI~~LqseLDKfrSVl   70 (72)
T 3nmd_A           51 QKDELIQMLQNELDKYRSVI   70 (72)
T ss_dssp             HHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHHHHhhccC
Confidence            34455556666666666544

---

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	278
d1f5na1	300	Interferon-induced guanylate-binding protein 1 (GB	90.5
d2efla1	288	Formin-binding protein 1, FNBP1 {Human (Homo sapie	90.22
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	89.08
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	87.17
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	86.55
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	86.43
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	84.59
d2piha1	123	Uncharacterized protein YmcA {Bacillus subtilis [T	81.82
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	81.75
d1ez3a_	124	Syntaxin 1A N-terminal domain {Rat (Rattus norvegi	81.42
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	80.98
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	80.89

>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=90.50  E-value=3.8  Score=33.45  Aligned_cols=14  Identities=21%  Similarity=0.275  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHH
Q 023704          208 IISVAQQIERLQAE  221 (278)
Q Consensus       208 l~~m~~e~eklrae  221 (278)
                      .-.|-+|+++|+.+
T Consensus       286 ~~~l~~ei~~Lk~~  299 (300)
T d1f5na1         286 SRIMKNEIQDLQTK  299 (300)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            33344455555443

>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=90.22  E-value=3.8  Score=33.06  Aligned_cols=21  Identities=14%  Similarity=0.061  Sum_probs=14.2

Q ss_pred             chhhHHHHHHHHHhHHHHHHH
Q 023704          194 RASNHEQREIMEKNIISVAQQ  214 (278)
Q Consensus       194 ~~e~~eq~q~meknl~~m~~e  214 (278)
                      -...++++|.||...+...++
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=89.08  E-value=2.6  Score=30.53  Aligned_cols=30  Identities=17%  Similarity=0.158  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023704           66 QRLAATHVALKQELSLAEQELRHLSSVAAS   95 (278)
Q Consensus        66 qrla~~~~~L~qEL~laqhEL~~l~~~i~~   95 (278)
                      -.+-..+..|+.+++..+++-..+...++.
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            344556666666666666666666655553

>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=87.17  E-value=2.2  Score=30.93  Aligned_cols=32  Identities=19%  Similarity=0.348  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          127 ELDRVRADIEKLCVIKQEMIKDLNEINGDLAK  158 (278)
Q Consensus       127 El~qlr~ei~~l~~~rqeL~~evq~LekDL~~  158 (278)
                      ++.+++.+++.+...++.|..++...+.=+.+
T Consensus         9 ~~q~lq~el~~~~~q~~~le~q~~E~~~vl~e   40 (107)
T d1fxka_           9 QFQQLQQQAQAISVQKQTVEMQINETQKALEE   40 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444433333

>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=86.55  E-value=2.6  Score=30.57  Aligned_cols=25  Identities=4%  Similarity=0.139  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          120 VIESMHAELDRVRADIEKLCVIKQE  144 (278)
Q Consensus       120 ~~e~lk~El~qlr~ei~~l~~~rqe  144 (278)
                      ....+..++..+...++.+....+|
T Consensus         9 ~~q~lq~el~~~~~q~~~le~q~~E   33 (107)
T d1fxka_           9 QFQQLQQQAQAISVQKQTVEMQINE   33 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444433

>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=86.43  E-value=0.6  Score=34.28  Aligned_cols=33  Identities=9%  Similarity=0.313  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLN  150 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq  150 (278)
                      +..+-.+..+...+..+++.|.+.+..++.+|.
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

>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=84.59  E-value=5.3  Score=35.34  Aligned_cols=53  Identities=8%  Similarity=0.264  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          141 IKQEMIKDLNEINGDLAKARDESKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       141 ~rqeL~~evq~LekDL~~~~~d~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      ....+..+...++...........++..|+.+|+.++.++..+....++++-+
T Consensus       290 el~~lee~~~~L~~~w~~ek~~l~~i~~Lk~~Le~lr~~le~A~r~gd~e~Aa  342 (387)
T d1qvra2         290 EIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAA  342 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHH
Confidence            33333344444444443333335566777777777777777776666666643

>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=81.82  E-value=6  Score=29.02  Aligned_cols=83  Identities=12%  Similarity=0.232  Sum_probs=60.1

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc--HHHHHHHHHHHHHHHHhh
Q 023704          106 ELYEKSLKLDAELRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEINGDLAKARDESKD--MAAIKAEIETERQEIHKG  183 (278)
Q Consensus       106 ~l~~k~~kleaelr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~LekDL~~~~~d~~k--l~~LkaEIe~LrqEl~~~  183 (278)
                      .+++++..|...|+..++++ ++..+...+.. ...-+.|-.+.+.+..++..++..++.  ..+...+++.+..++..-
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 67666666643 444556666778888888887766543  467778899998888877


Q ss_pred             hhhhhhh
Q 023704          184 RAAIECE  190 (278)
Q Consensus       184 raa~e~e  190 (278)
                      ...-+|-
T Consensus        85 p~v~~y~   91 (123)
T d2piha1          85 PVIQEFR   91 (123)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666654

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=81.75  E-value=7.8  Score=28.48  Aligned_cols=36  Identities=6%  Similarity=0.142  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKDLNEIN  153 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~evq~Le  153 (278)
                      ....+.++.++..+...+..+.....++..-++.|+
T Consensus         7 ~~~~~~l~~~l~~l~~~i~~l~~~~~e~~~~~~~L~   42 (133)
T d1fxkc_           7 VAQLNIYQSQVELIQQQMEAVRATISELEILEKTLS   42 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555555554444443

>d1ez3a_ a.47.2.1 (A:) Syntaxin 1A N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 1A N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.42  E-value=7.9  Score=28.19  Aligned_cols=98  Identities=11%  Similarity=0.278  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhhh-hccHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 023704          118 LRVIESMHAELDRVRADIEKLCVIKQEMIKD---LNEINGDLAKARDE-SKDMAAIKAEIETERQEIHKGRAAIECEKKN  193 (278)
Q Consensus       118 lr~~e~lk~El~qlr~ei~~l~~~rqeL~~e---vq~LekDL~~~~~d-~~kl~~LkaEIe~LrqEl~~~raa~e~ekk~  193 (278)
                      +..++.++.+|..++..+.++..........   ...+..+|...-.+ ..+-..++..|+.|.+.+....    .++.+
T Consensus         9 f~eV~~Ir~~I~~i~~~v~~i~~~~~~~l~~~~~~~~~~~~l~~~~~~i~~~a~~ik~~Lk~l~~~~~~~~----~~~~~   84 (124)
T d1ez3a_           9 FEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQEE----GLNRS   84 (124)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----TTSCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----ccCCC
Confidence            6677777778877777777777665443332   23455555555545 4455666666666665543211    11122


Q ss_pred             chh---hHHHHHHHHHhHHHHHHHHHHHH
Q 023704          194 RAS---NHEQREIMEKNIISVAQQIERLQ  219 (278)
Q Consensus       194 ~~e---~~eq~q~meknl~~m~~e~eklr  219 (278)
                      .++   -.-|..+.-+.|..+..+--.++
T Consensus        85 s~~~Rir~~q~~~L~~kf~e~m~~yq~~q  113 (124)
T d1ez3a_          85 SADLRIRKTQHSTLSRKFVEVMSEYNATQ  113 (124)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111   23355566666666655544433

>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=80.98  E-value=8.3  Score=33.99  Aligned_cols=42  Identities=17%  Similarity=0.298  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh----------ccHHHHHHHHHHHHH
Q 023704          137 KLCVIKQEMIKDLNEINGDLAKARDES----------KDMAAIKAEIETERQ  178 (278)
Q Consensus       137 ~l~~~rqeL~~evq~LekDL~~~~~d~----------~kl~~LkaEIe~Lrq  178 (278)
                      .+....++|..++..+..++..++.++          ..+|.++.+++.+..
T Consensus       310 ~~l~~i~~Lk~~Le~lr~~le~A~r~gd~e~AaeL~y~~ip~le~el~~l~~  361 (387)
T d1qvra2         310 EILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALSE  361 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHhhchHHHHHHHHHHHHH
Confidence            333444555555666666665544331          334555555554433

>d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: MW0975(SA0943)-like
family: MW0975(SA0943)-like
domain: Hypothetical protein MW0975 (SA0943)
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.89  E-value=7.7  Score=27.77  Aligned_cols=21  Identities=10%  Similarity=0.109  Sum_probs=9.4

Q ss_pred             ccHHHHHHHHHHHHHHHHhhh
Q 023704          164 KDMAAIKAEIETERQEIHKGR  184 (278)
Q Consensus       164 ~kl~~LkaEIe~LrqEl~~~r  184 (278)
                      .++..+...+..+...+..+.
T Consensus       144 ~~~~~l~~~~~~l~~~~~~~~  164 (185)
T d2ap3a1         144 ATQQGVNEKSKAIEQNYKKLK  164 (185)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444333