Citrus Sinensis ID: 032236

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140----
Protein Sequence
MANVESDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPNINGKDEEVHAIATPVEDNAKADDK
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHccccccccccHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHEccccHHcccccccc
Coil and Loop (DISEMBL)
manvesdstpsvpkkenitpvGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNlglqdfsgddkerkddpningkdeevhaiatpvednakaddk
Flexible Loop (DISEMBL)
manvesdstpsvpkkenitpvgSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLglqdfsgddkerkddpningkdeevhaiatpvednakaddk
Low Complexity Region (SEG)
MANVESDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPNINGKDEEVHAIATPVEDNAKADDK
Disordered region (IsUnstruct)
***********************************LNRIQGLKQDLQNWRSKLDTQVKIYRDELT*******************************************************************************
Disordered Region (DISOPRED)
*************************************RIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQE************************************************************
Disordered Region (DISEMBL)
**************KENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFS*********PNINGKDEEVHAIATPVEDNAKADDK
Disordered Region (DISPRO)
*****************ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNL*****************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MANVESDSTPSVPKKENITPVGSKxxxxxxxxxxxxxxxxxxxxxxxxxxxxLDTQVKIYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVTASLRNLGLQDFSGDDKERKDDPNINGKDEEVHAIATPVEDNAKADDK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	144
225432296	151	PREDICTED: uncharacterized protein LOC10	0.902	0.860	0.687	5e-46
224110554	148	predicted protein [Populus trichocarpa]	0.916	0.891	0.688	5e-46
224118970	142	predicted protein [Populus trichocarpa]	0.895	0.908	0.694	2e-43
388503336	145	unknown [Lotus japonicus]	0.944	0.937	0.659	3e-42
388499096	145	unknown [Lotus japonicus]	0.944	0.937	0.659	6e-42
255551727	139	conserved hypothetical protein [Ricinus	0.701	0.726	0.811	2e-41
351722909	143	uncharacterized protein LOC100306099 [Gl	0.930	0.937	0.647	4e-40
449432840	150	PREDICTED: uncharacterized protein LOC10	0.875	0.84	0.679	7e-40
356556080	143	PREDICTED: uncharacterized protein LOC10	0.930	0.937	0.633	1e-38
297804650	144	predicted protein [Arabidopsis lyrata su	0.930	0.930	0.594	4e-37

>gi|225432296|ref|XP_002273224.1| PREDICTED: uncharacterized protein LOC100249327 [Vitis vinifera] gi|297736870|emb|CBI26071.3| unnamed protein product [Vitis vinifera]

 Score =  189 bits (479), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 99/144 (68%), Positives = 118/144 (81%), Gaps = 14/144 (9%)

Query: 1   MANVESDSTPSVP-------KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKL 53
           MAN  SDSTP +P       +KEN+TP+GSKIAELNESR ELL+RIQGLKQDLQ+WRSKL
Sbjct: 1   MAN--SDSTPPLPVVAPLSSRKENVTPIGSKIAELNESRTELLSRIQGLKQDLQSWRSKL 58

Query: 54  DTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDK 113
           DTQVK+YRDEL+++KK+L+ EVEQLRSEFQ+LR+TLQQQQ+DVTASLRNLGLQD SGD K
Sbjct: 59  DTQVKVYRDELSELKKSLNGEVEQLRSEFQDLRTTLQQQQEDVTASLRNLGLQDVSGDAK 118

Query: 114 ERKD-----DPNINGKDEEVHAIA 132
           E +D     D  ++  D+EV A A
Sbjct: 119 EVQDTKEAEDTKVDANDKEVQAAA 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110554|ref|XP_002315556.1| predicted protein [Populus trichocarpa] gi|222864596|gb|EEF01727.1| predicted protein [Populus trichocarpa]

 Score =  188 bits (478), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 95/138 (68%), Positives = 118/138 (85%), Gaps = 6/138 (4%)

Query: 1   MANVESDS-TPSVP-----KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLD 54
           MAN +S + T S P     KKEN+TP+GSKIAELNESR ELLNRIQGLKQDLQ+WRSKLD
Sbjct: 1   MANSDSSTATLSAPLPLARKKENVTPIGSKIAELNESRTELLNRIQGLKQDLQSWRSKLD 60

Query: 55  TQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKE 114
           TQVKIYRDEL+++KK+L+VEV QLR+EFQEL++TLQQQQ+DVTASLRNLGLQD +GDD +
Sbjct: 61  TQVKIYRDELSELKKSLNVEVVQLRTEFQELKNTLQQQQEDVTASLRNLGLQDSAGDDAQ 120

Query: 115 RKDDPNINGKDEEVHAIA 132
              +P ++ +D+E+H+ A
Sbjct: 121 EAQEPKVDVEDQELHSSA 138

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118970|ref|XP_002331348.1| predicted protein [Populus trichocarpa] gi|222873381|gb|EEF10512.1| predicted protein [Populus trichocarpa]

 Score =  180 bits (456), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 93/134 (69%), Positives = 116/134 (86%), Gaps = 5/134 (3%)

Query: 1   MANVESDST--PSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVK 58
           MAN +S +   P  PKKEN  P+GSKIAELNESR++LLNRIQGLKQDLQ+WRSKLDTQVK
Sbjct: 1   MANSDSSTATLPIAPKKENTVPIGSKIAELNESRSDLLNRIQGLKQDLQSWRSKLDTQVK 60

Query: 59  IYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLG--LQDFSGDDKERK 116
           I+RDEL+++KK+L+VEV+QLR EFQEL++TLQQQQ+DVTASLRNLG  LQD +GD KE +
Sbjct: 61  IHRDELSELKKSLNVEVDQLRKEFQELKNTLQQQQEDVTASLRNLGVKLQDSTGDAKEAQ 120

Query: 117 DDPNINGKDEEVHA 130
            +P ++ +D+EVHA
Sbjct: 121 -EPMLDVEDQEVHA 133

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388503336|gb|AFK39734.1| unknown [Lotus japonicus]

 Score =  176 bits (445), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 97/147 (65%), Positives = 118/147 (80%), Gaps = 11/147 (7%)

Query: 1   MANVESDSTPSVP--KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVK 58
           MA+ +S S PS+P   KENITP+ SKIAELNESR+ELL RIQGLKQDLQ WRSKLDTQVK
Sbjct: 1   MADPDS-SAPSLPLSTKENITPISSKIAELNESRSELLGRIQGLKQDLQGWRSKLDTQVK 59

Query: 59  IYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDD 118
           +YRDEL+++KKTL+VEVEQLR+EFQ+LR+TLQQQQ+DVTASLRNLGLQD S D K+ +  
Sbjct: 60  VYRDELSELKKTLNVEVEQLRTEFQDLRTTLQQQQEDVTASLRNLGLQDVSADVKKAESQ 119

Query: 119 ----PNINGKDEEVHAIATPVEDNAKA 141
                 I+ K+++V     P EDN+K 
Sbjct: 120 EAKIEEIDQKEQQV----LPEEDNSKV 142

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499096|gb|AFK37614.1| unknown [Lotus japonicus]

 Score =  175 bits (443), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 97/147 (65%), Positives = 118/147 (80%), Gaps = 11/147 (7%)

Query: 1   MANVESDSTPSVP--KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVK 58
           MA+ +S S PS+P   KENITP+ SKIAELNESR+ELL RIQGLKQDLQ WRSKLDTQVK
Sbjct: 1   MADPDS-SAPSLPLSTKENITPISSKIAELNESRSELLGRIQGLKQDLQGWRSKLDTQVK 59

Query: 59  IYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDD 118
           +YRDEL+++KKTL+VEVEQLR+EFQ+LR+TLQQQQ+DVTASLRNLGLQD S D K+ +  
Sbjct: 60  VYRDELSELKKTLNVEVEQLRTEFQDLRTTLQQQQEDVTASLRNLGLQDVSTDVKKAESQ 119

Query: 119 ----PNINGKDEEVHAIATPVEDNAKA 141
                 I+ K+++V     P EDN+K 
Sbjct: 120 EAKIEEIDQKEQQV----LPEEDNSKV 142

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551727|ref|XP_002516909.1| conserved hypothetical protein [Ricinus communis] gi|223543997|gb|EEF45523.1| conserved hypothetical protein [Ricinus communis]

 Score =  173 bits (438), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 82/101 (81%), Positives = 94/101 (93%)

Query: 14  KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSV 73
           +KEN+TP+GSKIAELNESR ELLNRIQGLKQDLQNWR+KLDTQV IYRDEL+ +KK+L+ 
Sbjct: 20  RKENVTPIGSKIAELNESRTELLNRIQGLKQDLQNWRTKLDTQVTIYRDELSQLKKSLNT 79

Query: 74  EVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKE 114
           EVEQLRSEFQELR+TLQQQQ+DVT SL+NLGLQD +GD KE
Sbjct: 80  EVEQLRSEFQELRTTLQQQQEDVTTSLKNLGLQDSTGDAKE 120

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351722909|ref|NP_001237516.1| uncharacterized protein LOC100306099 [Glycine max] gi|255627547|gb|ACU14118.1| unknown [Glycine max]

 Score =  169 bits (427), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 92/142 (64%), Positives = 112/142 (78%), Gaps = 8/142 (5%)

Query: 1   MANVESDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIY 60
           MAN +S S P   KKENITP+ SKI ELNESR+ELL R+Q LKQDLQ+WRSKLDTQVK+Y
Sbjct: 1   MANPDS-SLPLSIKKENITPITSKIEELNESRSELLGRVQSLKQDLQSWRSKLDTQVKVY 59

Query: 61  RDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPN 120
           RDEL+++KKTL+VEV+QLR+EFQ+LR+TLQQQQ+DVTASLRNLGLQD S    + K  P+
Sbjct: 60  RDELSELKKTLNVEVDQLRAEFQDLRTTLQQQQEDVTASLRNLGLQDVS----DVKHAPS 115

Query: 121 INGKDEEV---HAIATPVEDNA 139
              K EE+     +  P EDN+
Sbjct: 116 QETKIEEIVKEEQVVVPEEDNS 137

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449432840|ref|XP_004134206.1| PREDICTED: uncharacterized protein LOC101223088 [Cucumis sativus]

 Score =  168 bits (425), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 89/131 (67%), Positives = 106/131 (80%), Gaps = 5/131 (3%)

Query: 1   MANVESDSTPS-VP---KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQ 56
           MA+ +S STPS  P   KKEN+TP+GSKI ELNESR+ELLNRIQ LKQDLQNWRSKLDTQ
Sbjct: 1   MADSDS-STPSPAPLSAKKENLTPIGSKITELNESRSELLNRIQSLKQDLQNWRSKLDTQ 59

Query: 57  VKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERK 116
           V  YR EL+++KK+L+VEVE LR+EFQELR+TLQQQQ+DVT SLRNLGLQD S D+ E +
Sbjct: 60  VHTYRSELSELKKSLNVEVEHLRTEFQELRTTLQQQQEDVTTSLRNLGLQDVSVDNNETQ 119

Query: 117 DDPNINGKDEE 127
               +   D+E
Sbjct: 120 HQHPVGSPDKE 130

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556080|ref|XP_003546355.1| PREDICTED: uncharacterized protein LOC100817224 [Glycine max]

 Score =  164 bits (415), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 90/142 (63%), Positives = 111/142 (78%), Gaps = 8/142 (5%)

Query: 1   MANVESDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIY 60
           M N +S S P   KKEN+TP+ SKIAELNESR+ELL R+Q LKQDLQ+WRSKLDTQVK+Y
Sbjct: 1   MENPDS-SLPLSIKKENVTPITSKIAELNESRSELLGRVQSLKQDLQSWRSKLDTQVKVY 59

Query: 61  RDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPN 120
           RDEL+++KKTL+VEV+QLR+EFQ+LR+TLQQQQ+DVTASLRNLGLQD S    + K  P 
Sbjct: 60  RDELSELKKTLNVEVDQLRAEFQDLRTTLQQQQEDVTASLRNLGLQDAS----DVKHAPL 115

Query: 121 INGKDEEV---HAIATPVEDNA 139
              K E++     +  P EDN+
Sbjct: 116 QETKIEKIVKEEQVVVPEEDNS 137

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297804650|ref|XP_002870209.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297316045|gb|EFH46468.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  159 bits (401), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 88/148 (59%), Positives = 114/148 (77%), Gaps = 14/148 (9%)

Query: 1   MANVESDST-------PSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKL 53
           MA   SDST       P+ PKK+N  PV SK+ ELNESRAELLNRIQ LKQDLQ+WR KL
Sbjct: 1   MAEQTSDSTAPLSVSSPTAPKKDNTNPVDSKLTELNESRAELLNRIQNLKQDLQSWRGKL 60

Query: 54  DTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDK 113
           DTQVK+YR+EL+ +KKTL++EVEQLR EF++L++TL QQQDDV+ASL++LGLQD S +  
Sbjct: 61  DTQVKVYREELSGLKKTLNLEVEQLREEFKDLKTTLNQQQDDVSASLKSLGLQD-SKEQM 119

Query: 114 ERKDDPNINGKDEEVHAIATPVEDNAKA 141
           E++ +      +E+V A++T  +DNAKA
Sbjct: 120 EKRSEVT----EEKVEALST--DDNAKA 141

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	144
TAIR|locus:2130719	147	AT4G15790 [Arabidopsis thalian	0.888	0.870	0.614	8e-37
UNIPROTKB|E2R6S6	607	RUFY3 "Uncharacterized protein	0.784	0.186	0.317	3.7e-05
TAIR|locus:2042644	230	AT2G16460 "AT2G16460" [Arabido	0.930	0.582	0.267	0.00016
DICTYBASE|DDB_G0286985	1024	zipA "zipper-like domain-conta	0.840	0.118	0.259	0.00095

TAIR|locus:2130719 AT4G15790 [Arabidopsis thaliana (taxid:3702)]

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 83/135 (61%), Positives = 108/135 (80%)

Query:     6 SDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELT 65
             S S+P+  KK+N  PV SK+ ELNESRAELLNRIQ LKQDLQ+WR KLDTQVK+YR+EL+
Sbjct:    16 SVSSPTATKKDNTNPVDSKLTELNESRAELLNRIQNLKQDLQSWRGKLDTQVKVYREELS 75

Query:    66 DMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPNINGKD 125
              +KKTL++EVEQLR EF++L++TL QQQDDV+ASL++LGLQD     KE+ D  +    +
Sbjct:    76 GLKKTLNLEVEQLREEFKDLKTTLNQQQDDVSASLKSLGLQD----SKEQIDKRS-EVTE 130

Query:   126 EEVHAIATPVEDNAK 140
             E+V A++T  +DNAK
Sbjct:   131 EKVEALST--DDNAK 143

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|E2R6S6 RUFY3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 108 (43.1 bits), Expect = 3.7e-05, P = 3.7e-05
 Identities = 41/129 (31%), Positives = 63/129 (48%)

Query:    26 AELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQEL 85
             AE     AEL NR+   KQD  +  + L  +V    +ELT  +  L +E++Q R + QEL
Sbjct:   400 AERGRQSAELDNRL--FKQDFGDKINSLQLEV----EELTRQRHQLELELKQEREKLQEL 453

Query:    86 RSTLQQQQDDVTASLRNL-----GLQDFSGDDKERKDDPNINGK---DEEVHAIATPVED 137
             R+ LQQ++  + +  + L      L+ +  D K +  + N+  K   DE     A   E 
Sbjct:   454 RNDLQQRKSLIPSLRKKLLSFIRRLKQYRQDGKHKIQEENVKLKKPLDESHSTTALKNEG 513

Query:   138 N--AKADDK 144
             N  A A+DK
Sbjct:   514 NKVAAAEDK 522

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2042644 AT2G16460 "AT2G16460" [Arabidopsis thaliana (taxid:3702)]

 Score = 102 (41.0 bits), Expect = 0.00016, P = 0.00016
 Identities = 39/146 (26%), Positives = 69/146 (47%)

Query:     1 MANVESDSTPSVPKKENITPVGSKIAE-LNESRAELLNRIQGLKQDLQNWRSKLDTQVKI 59
             +A V S     VP K+    + S I E LN+S   +       K ++Q      D+ +  
Sbjct:    58 LALVRSLEAQGVPSKQ-AEAITSAITEVLNDSLENVSESFVS-KAEMQKIEMIQDSNLSK 115

Query:    60 YRDELTDMKK----TLSVEVEQLRSEFQELRSTLQQQQDDVTASLR-NLGLQDFSGDDK- 113
             ++ E+   ++     L  E E+LR + +++RS L+ + D VTA  R +L L+     D+ 
Sbjct:   116 FKSEVKSSQEHHFTVLQRETEKLRGDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDEL 175

Query:   114 --ERKDDPNINGK-DEEVHAIATPVE 136
               +  +  N+  K D E+HA+   +E
Sbjct:   176 ANQNTETTNLTNKLDREIHALRAQLE 201

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0005739 "mitochondrion" evidence=IDA

GO:0046872 "metal ion binding" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

DICTYBASE|DDB_G0286985 zipA "zipper-like domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 103 (41.3 bits), Expect = 0.00095, P = 0.00095
 Identities = 34/131 (25%), Positives = 65/131 (49%)

Query:     2 ANVESDSTPSVPKKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYR 61
             A +E  S  S  K E +     K  ELN  +   L ++Q   Q+LQN +S+L+ Q +   
Sbjct:   500 ALLEQQSEDSQSKDEKL-----KSVELNLQQT--LQQLQSKDQELQNVKSQLEQQSE--D 550

Query:    62 DELTDMK-KTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQDFSGDDKERKDDPN 120
              E  D K K++ + ++Q   + Q+++S L+QQ +   +    L   + +   + +  D  
Sbjct:   551 SESKDQKLKSVELTLQQTLQQLQDVKSQLEQQSEHNESKDEKLKSIELNLQQQLQSKDSE 610

Query:   121 INGKDEEVHAI 131
             ++ KDE++  +
Sbjct:   611 LSSKDEQLKCL 621


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.306   0.125   0.332    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      144       144   0.00091  102 3  11 23  0.44    32
                                                     30  0.48    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  520 (55 KB)
  Total size of DFA:  118 KB (2079 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  23.51u 0.12s 23.63t   Elapsed:  00:00:02
  Total cpu time:  23.51u 0.12s 23.63t   Elapsed:  00:00:02
  Start:  Fri May 10 22:34:02 2013   End:  Fri May 10 22:34:04 2013

GO:0005615 "extracellular space" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0044351 "macropinocytosis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	144
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.003
pfam10186	307	pfam10186, Atg14, UV radiation resistance protein	0.004

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

 Score = 35.8 bits (83), Expect = 0.003
 Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 7/87 (8%)

Query: 23  SKIAELNESRAEL---LNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR 79
            ++AEL E  AEL   L  +Q   Q+L+   S L+ +++  + EL  +K+ LS    +L 
Sbjct: 73  QELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQ-LSANAIELD 131

Query: 80  SEFQELRSTLQQQQ---DDVTASLRNL 103
            E +ELR  L + +   + + A    L
Sbjct: 132 EENRELREELAELKQENEALEAENERL 158

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

>gnl|CDD|220623 pfam10186, Atg14, UV radiation resistance protein and autophagy-related subunit 14

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 25/101 (24%), Positives = 45/101 (44%), Gaps = 1/101 (0%)

Query: 14  KKENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSV 73
           KKE +  + ++I++L E   +   RI+ LK+ L   RS L +             + L  
Sbjct: 69  KKERLNQIRARISQLKEEIEQKRERIEELKRALAQRRSDLSSASYQLEKRRASQLEKLQD 128

Query: 74  EVEQLRSEFQELRSTLQQQQDDVTASLRNL-GLQDFSGDDK 113
           E+++ RS+   L S L +++  +   L  L  L+      K
Sbjct: 129 EIKRTRSKLNALHSLLAEKRSFLCRELAKLFPLRRVIRGRK 169

The Atg14 or Apg14 proteins are hydrophilic proteins with a predicted molecular mass of 40.5 kDa, 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. Subcellular fractionation indicate that Apg14p and Apg6p are peripherally associated with a membrane structure(s). Apg14p was co-immunoprecipitated with Apg6p, suggesting that they form a stable protein complex. These results imply that Apg6/Vps30p has two distinct functions: in the autophagic process and in the vacuolar protein sorting pathway. Apg14p may be a component specifically required for the function of Apg6/Vps30p through the autophagic pathway. There are 17 auto-phagosomal component proteins which are categorized into six functional units, one of which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The AS-PI3K complex and the Atg2-Atg18 complex are essential for nucleation, and the specific function of the AS-PI3K apparently is to produce phosphatidylinositol 3-phosphate (PtdIns(3)P) at the pre-autophagosomal structure (PAS). The localisation of this complex at the PAS is controlled by Atg14. 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. This effect seems to be mediated through direct interaction of the human Atg14 with Beclin 1 in the human phosphatidylinositol 3-kinase class III complex. Length = 307

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	144
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	96.04
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	95.72
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	94.8
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	94.63
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	94.33
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	93.55
PRK11637	428	AmiB activator; Provisional	93.47
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	92.92
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.85
PF00038	312	Filament: Intermediate filament protein; InterPro:	92.77
PF05769	181	DUF837: Protein of unknown function (DUF837); Inte	92.74
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	91.97
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	91.62
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	91.46
PHA02562	562	46 endonuclease subunit; Provisional	91.43
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	91.39
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	90.69
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	90.68
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	90.21
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	90.0
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	89.94
PF05852	146	DUF848: Gammaherpesvirus protein of unknown functi	89.71
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	89.47
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	89.41
PF00038	312	Filament: Intermediate filament protein; InterPro:	89.36
PRK10884	206	SH3 domain-containing protein; Provisional	89.23
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	89.1
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	88.94
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	88.79
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	88.7
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	88.57
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	88.44
PRK11637	428	AmiB activator; Provisional	88.34
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	88.3
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	88.2
PF15272	196	BBP1_C: Spindle pole body component BBP1, C-termin	88.0
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	87.86
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	87.17
PHA02562	562	46 endonuclease subunit; Provisional	85.68
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	84.95
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	84.84
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	84.26
PRK04098	158	sec-independent translocase; Provisional	83.54
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	83.37
PRK08476	141	F0F1 ATP synthase subunit B'; Validated	83.17
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	83.1
PF05130	143	FlgN: FlgN protein; InterPro: IPR007809 Flagella s	83.05
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	82.65
PF05008	79	V-SNARE: Vesicle transport v-SNARE protein N-termi	82.57
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	82.49
KOG2685	421	consensus Cystoskeletal protein Tektin [Cytoskelet	82.2
PHA03161	150	hypothetical protein; Provisional	82.16
PRK11546	143	zraP zinc resistance protein; Provisional	81.95
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	81.94
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	81.93
PRK15422	79	septal ring assembly protein ZapB; Provisional	81.9
PF07195	239	FliD_C: Flagellar hook-associated protein 2 C-term	81.8
PF04871	136	Uso1_p115_C: Uso1 / p115 like vesicle tethering pr	81.72
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	81.35
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	80.09
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	80.04

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=96.04  E-value=0.1  Score=35.90  Aligned_cols=69  Identities=23%  Similarity=0.420  Sum_probs=52.4

Q ss_pred             CCccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhH-----HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 032236           16 ENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLD-----TQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTL   89 (144)
Q Consensus        16 ~~~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLD-----tQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttL   89 (144)
                      +.+.-++.+|.+|..||.+|+.+|..+...|+.-..-.+     ..++ |..-|..+|+.    |..+..-++.|+.++
T Consensus        14 P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~-y~~KL~~ikkr----m~~l~~~l~~lk~R~   87 (92)
T PF14712_consen   14 PDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDP-YVKKLVNIKKR----MSNLHERLQKLKKRA   87 (92)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhH-HHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence            456678999999999999999999999999998888333     2455 99999988874    444555555554443

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=95.72  E-value=0.095  Score=41.08  Aligned_cols=71  Identities=15%  Similarity=0.418  Sum_probs=49.1

Q ss_pred             hhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHh---hHHHHHHHHHHHHHHHHHHHh
Q 032236           22 GSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTL---SVEVEQLRSEFQELRSTLQQQ   92 (144)
Q Consensus        22 ~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~L---nsEVeqLRsEfqeLRttLqqQ   92 (144)
                      -+.|..|...=.+-=..++.+-.+|.+||.+|..-+..+..-...+...|   +.++++|+.++..++..|++.
T Consensus       109 ~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~D~~~l~~~~~~l~~~l~~~~g~I~~L~~~I~~~~~~I~~~  182 (184)
T PF05791_consen  109 KEIIEDLQDQIQKNQDKVQALINELNDFKDKLQKDSRNLKTDVDELQSILAGENGDIPQLQKQIENLNEEIKKD  182 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHTGGG-GG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhcccCCHHHHHHHHHHHHHHHHhh
Confidence            34556666666666667777788888888888888877777666666665   456788888888887777653

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

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

Probab=94.80  E-value=0.73  Score=35.69  Aligned_cols=59  Identities=29%  Similarity=0.478  Sum_probs=34.7

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHH----hhHHHHHHHHHHHHHHHHHHHhHHHHhhhhh
Q 032236           43 KQDLQNWRSKLDTQVKIYRDELTDMKKT----LSVEVEQLRSEFQELRSTLQQQQDDVTASLR  101 (144)
Q Consensus        43 K~DLq~WRskLDtQVKtYr~EL~dLK~~----LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L~  101 (144)
                      |.|+.+=+..+...+-..|.|+..++++    |.++.++|+.||..|+..|++++..+.+.++
T Consensus        46 k~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~L~~ei~~l~a~~k  108 (177)
T PF07798_consen   46 KSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQELREEINKLRAEVK  108 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555554444444444555555444432    5566777777777777777777776666443

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

Probab=94.63  E-value=1.2  Score=34.41  Aligned_cols=56  Identities=25%  Similarity=0.436  Sum_probs=42.6

Q ss_pred             HhHHhHHHHHHHHHHHHHHHHHHH----hhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 032236           27 ELNESRAELLNRIQGLKQDLQNWR----SKLDTQVKIYRDELTDMKKTLSVEVEQLRSEF   82 (144)
Q Consensus        27 ELneSr~ELL~Rvq~LK~DLq~WR----skLDtQVKtYr~EL~dLK~~LnsEVeqLRsEf   82 (144)
                      ++....-.+-..+..||.|++.=|    ..|.++...-+.|+..|+..|+.|+..|+.++
T Consensus        48 d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~L~~ei~~l~a~~  107 (177)
T PF07798_consen   48 DLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQELREEINKLRAEV  107 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555577888999998766    45777888888899999999999999888743

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=94.33  E-value=0.49  Score=49.57  Aligned_cols=83  Identities=23%  Similarity=0.474  Sum_probs=71.7

Q ss_pred             ccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH----------HHHHHHHH
Q 032236           18 ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR----------SEFQELRS   87 (144)
Q Consensus        18 ~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLR----------sEfqeLRt   87 (144)
                      ...+..++.|=.+.+.+|+..+.....+++.||.++++.+.....|+.++|+-|...++.+.          ..+...|.
T Consensus      1331 ~~~l~e~leee~e~~~~l~r~lsk~~~e~~~~~~k~e~~~~~~~eelee~kk~l~~~lq~~qe~~e~~~~~~~~Lek~k~ 1410 (1930)
T KOG0161|consen 1331 LDLLREQLEEEQEAKNELERKLSKANAELAQWKKKFEEEVLQRLEELEELKKKLQQRLQELEEQIEAANAKNASLEKAKN 1410 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677889999999999999999999999999999999999999999999999998887766          44566778


Q ss_pred             HHHHhHHHHhhhh
Q 032236           88 TLQQQQDDVTASL  100 (144)
Q Consensus        88 tLqqQ~e~~ta~L  100 (144)
                      .|++..++++.-+
T Consensus      1411 ~l~~el~d~~~d~ 1423 (1930)
T KOG0161|consen 1411 RLQQELEDLQLDL 1423 (1930)
T ss_pred             HHHhHHHHHHHHH
Confidence            8888887766555

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

Probab=93.55  E-value=2.3  Score=32.29  Aligned_cols=75  Identities=28%  Similarity=0.486  Sum_probs=50.0

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH----------HHHHHHHHHHHHHHHH
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSV----------EVEQLRSEFQELRSTL   89 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~Lns----------EVeqLRsEfqeLRttL   89 (144)
                      .+...|+.|...|.+|-.-|-.|-.....++. ...++..-+.++.+|....++          +|+.||.++++||.-.
T Consensus        34 ~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~-~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~my  112 (120)
T PF12325_consen   34 SLQEELARLEAERDELREEIVKLMEENEELRA-LKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMY  112 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHH
Confidence            34445555555565555555555555554433 345566667777777766654          8999999999999999


Q ss_pred             HHhHHH
Q 032236           90 QQQQDD   95 (144)
Q Consensus        90 qqQ~e~   95 (144)
                      +.|.+.
T Consensus       113 r~Qi~~  118 (120)
T PF12325_consen  113 REQIDQ  118 (120)
T ss_pred             HHHHHH
Confidence            999875

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 [].

>PRK11637 AmiB activator; Provisional

Probab=93.47  E-value=1.4  Score=37.87  Aligned_cols=83  Identities=14%  Similarity=0.204  Sum_probs=51.3

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH----------HhhHHHHHHHHHHHHHHHHHH
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKK----------TLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~----------~LnsEVeqLRsEfqeLRttLq   90 (144)
                      +..+++++.....++...++.++    .....+..+++....+|..+..          .++.++..|..++.+++..|.
T Consensus        45 ~~~~l~~l~~qi~~~~~~i~~~~----~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~  120 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSVRQQQ----QQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQA  120 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555554444444444333    3333444444444444444433          346788888899999999999


Q ss_pred             HhHHHHhhhhhhccccc
Q 032236           91 QQQDDVTASLRNLGLQD  107 (144)
Q Consensus        91 qQ~e~~ta~L~nL~lqd  107 (144)
                      ++.+.+...++.+..-+
T Consensus       121 ~~~~~l~~rlra~Y~~g  137 (428)
T PRK11637        121 AQERLLAAQLDAAFRQG  137 (428)
T ss_pred             HHHHHHHHHHHHHHHcC
Confidence            99888888888877644

>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=92.92  E-value=0.71  Score=35.87  Aligned_cols=54  Identities=26%  Similarity=0.464  Sum_probs=36.8

Q ss_pred             HhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhhhhhcc
Q 032236           50 RSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLG  104 (144)
Q Consensus        50 RskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L~nL~  104 (144)
                      |..+.+||++....|-+|++. +..++.|+.++.+|.+...+..+...+.|+.+-
T Consensus        29 ~~~~k~ql~~~d~~i~~Lk~~-~~d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~~   82 (155)
T PF06810_consen   29 RDNLKTQLKEADKQIKDLKKS-AKDNEELKKQIEELQAKNKTAKEEYEAKLAQMK   82 (155)
T ss_pred             HHHHHHHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456678888899999999883 566667777777777666655555555544443

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

>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=92.85  E-value=2.3  Score=34.21  Aligned_cols=64  Identities=19%  Similarity=0.432  Sum_probs=45.3

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQ   92 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ   92 (144)
                      ...+|..+.+.+.+|+.+++.|+.++.+        .+.|...+..+-..++.+++.|...+.++..+-++-
T Consensus        40 sQ~~id~~~~e~~~L~~e~~~l~~e~e~--------L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l  103 (251)
T PF11932_consen   40 SQKRIDQWDDEKQELLAEYRQLEREIEN--------LEVYNEQLERQVASQEQELASLEQQIEQIEETRQEL  103 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678889999999999999999998864        334566666666666666666666665555544443

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.

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

Probab=92.77  E-value=2.2  Score=34.39  Aligned_cols=84  Identities=20%  Similarity=0.452  Sum_probs=63.8

Q ss_pred             ccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHH---HHHHHHHHHHHH----------hhHHHHHHHHHHHH
Q 032236           18 ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVK---IYRDELTDMKKT----------LSVEVEQLRSEFQE   84 (144)
Q Consensus        18 ~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVK---tYr~EL~dLK~~----------LnsEVeqLRsEfqe   84 (144)
                      +..+-..|..+..-+..|..-+.+|+.++.++|.+++....   ....++..||+.          |..+|+.|+.|+.-
T Consensus        56 l~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~f  135 (312)
T PF00038_consen   56 LRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEF  135 (312)
T ss_dssp             HHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHH
Confidence            34556778888888999999999999999999998887653   344566666654          56678888888888


Q ss_pred             HHHHHHHhHHHHhhhhh
Q 032236           85 LRSTLQQQQDDVTASLR  101 (144)
Q Consensus        85 LRttLqqQ~e~~ta~L~  101 (144)
                      ++..-.+++..+.+.+.
T Consensus       136 l~~~heeEi~~L~~~~~  152 (312)
T PF00038_consen  136 LKQNHEEEIEELREQIQ  152 (312)
T ss_dssp             HHHHHHHHHHTTSTT--
T ss_pred             HHhhhhhhhhhhhhccc
Confidence            88888887777776664

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 ....

>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function

Probab=92.74  E-value=1.7  Score=34.72  Aligned_cols=75  Identities=19%  Similarity=0.437  Sum_probs=60.1

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHh-----------hHHHHHHHHHHHHHHHH
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTL-----------SVEVEQLRSEFQELRST   88 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~L-----------nsEVeqLRsEfqeLRtt   88 (144)
                      -+-.+++++..+-+.|+....+|.+.+.+-|        .|++|+..|+.--           |.++.+|..|=.+||.+
T Consensus        14 ~L~~rL~~~d~~ad~Ll~qa~~l~~~i~sm~--------~y~eei~~l~~~~~~~~~~~l~~En~qi~~Lq~EN~eL~~~   85 (181)
T PF05769_consen   14 RLVERLKDHDNAADSLLSQAEALNKQIESMR--------QYQEEIQELNELSKNRPRAGLQQENRQIRQLQQENRELRQS   85 (181)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhhcccchhHHHhhHHHHHHHHHHHHHHHH
Confidence            3567889999999999999999999998877        8999988886642           46788999999999999


Q ss_pred             HHHhHHHHhhhhhh
Q 032236           89 LQQQQDDVTASLRN  102 (144)
Q Consensus        89 LqqQ~e~~ta~L~n  102 (144)
                      |.+=+..+-.-...
T Consensus        86 leEhq~alelIM~K   99 (181)
T PF05769_consen   86 LEEHQSALELIMSK   99 (181)
T ss_pred             HHHHHHHHHHHHHH
Confidence            98776655443333

One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].

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

Probab=91.97  E-value=2.5  Score=36.93  Aligned_cols=84  Identities=18%  Similarity=0.347  Sum_probs=59.8

Q ss_pred             ccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHh---hhHHHHHHHHHHHHHH---HHHhhHHHHHHHHHHHHHHHHHHH
Q 032236           18 ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRS---KLDTQVKIYRDELTDM---KKTLSVEVEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        18 ~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRs---kLDtQVKtYr~EL~dL---K~~LnsEVeqLRsEfqeLRttLqq   91 (144)
                      +.+...++..|.++..++..+=..|-+++-.||+   .|+.+|+-|++.+..+   +..+|-+|.+||.+-.++...++.
T Consensus         8 ~~E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~e   87 (294)
T COG1340           8 LDELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQE   87 (294)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555556666666666666666666666655   5778999999877766   567899999999999999999888


Q ss_pred             hHHHHhhhhh
Q 032236           92 QQDDVTASLR  101 (144)
Q Consensus        92 Q~e~~ta~L~  101 (144)
                      ....+-.-..
T Consensus        88 L~~~~~~l~e   97 (294)
T COG1340          88 LRKEYRELKE   97 (294)
T ss_pred             HHHHHHHHHH
Confidence            6665443333

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

Probab=91.62  E-value=3.3  Score=40.69  Aligned_cols=80  Identities=23%  Similarity=0.400  Sum_probs=58.9

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH----HHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDEL----TDMKKTLSVEVEQLRSEFQELRSTLQQQQDDV   96 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL----~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~   96 (144)
                      +.++...++.....|-.++..+++.++.|...+..+.+..+.|+    .++-..++..++++..+.+..++..+.++..+
T Consensus       676 ~~~~~~~~~~~l~~l~~~l~~~~~e~~~~~~~~~~~~~e~~~e~~~~~~~~~~~~d~~i~~i~~~i~~~~~~~~~~~~~l  755 (1201)
T PF12128_consen  676 KEERKEQIEEQLNELEEELKQLKQELEELLEELKEQLKELRNELKAQWQELEAELDEQIEQIKQEIAAAKQEAKEQLKEL  755 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566677777788888999999999999999988888776554    66666677777777777777777776666655


Q ss_pred             hhhh
Q 032236           97 TASL  100 (144)
Q Consensus        97 ta~L  100 (144)
                      ...+
T Consensus       756 e~~~  759 (1201)
T PF12128_consen  756 EQQY  759 (1201)
T ss_pred             HHHH
Confidence            4443

>smart00502 BBC B-Box C-terminal domain

Probab=91.46  E-value=3.1  Score=28.14  Aligned_cols=80  Identities=21%  Similarity=0.334  Sum_probs=48.1

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhh
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTAS   99 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~   99 (144)
                      .+..++.+...+...|-..+..++.-...=+..+......|..-|..-+..|-.+++..+   .+....|..|+..+...
T Consensus        11 ~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~---~~~~~~l~~q~~~l~~~   87 (127)
T smart00502       11 KLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQK---ENKLKVLEQQLESLTQK   87 (127)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence            344556666666666666666777777777777777777777777777766655555444   33334444444444444


Q ss_pred             hhh
Q 032236          100 LRN  102 (144)
Q Consensus       100 L~n  102 (144)
                      +..
T Consensus        88 l~~   90 (127)
T smart00502       88 QEK   90 (127)
T ss_pred             HHH
Confidence            443

Coiled coil region C-terminal to (some) B-Box domains

>PHA02562 46 endonuclease subunit; Provisional

Probab=91.43  E-value=3.5  Score=35.58  Aligned_cols=51  Identities=22%  Similarity=0.431  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH---HHHHHhHHHHhhhhhhcc
Q 032236           54 DTQVKIYRDELTDMKKTLSVEVEQLRSEFQELR---STLQQQQDDVTASLRNLG  104 (144)
Q Consensus        54 DtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLR---ttLqqQ~e~~ta~L~nL~  104 (144)
                      ..+++.|+.-+..++..+...++.++.++.++.   ..|+.|++.+...|.+|+
T Consensus       194 ~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~  247 (562)
T PHA02562        194 QQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLV  247 (562)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334455555555555555555555555554444   444555555555555555

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=91.39  E-value=3  Score=27.76  Aligned_cols=58  Identities=17%  Similarity=0.339  Sum_probs=37.3

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 032236           30 ESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        30 eSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLq   90 (144)
                      ++|..++.+|+..-.+..+--..|+-.|...-.   ..|..+++.|...|+++..|+..|+
T Consensus        21 ~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~p~---s~r~~~~~kl~~yr~~l~~lk~~l~   78 (79)
T PF05008_consen   21 EQRKSLIREIERDLDEAEELLKQMELEVRSLPP---SERNQYKSKLRSYRSELKKLKKELK   78 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-H---HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCH---HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            467777777777666666666666666655522   5566666666677777666666554

The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.

>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=90.69  E-value=5.6  Score=30.16  Aligned_cols=36  Identities=28%  Similarity=0.461  Sum_probs=15.9

Q ss_pred             cCCccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHH
Q 032236           15 KENITPVGSKIAELNESRAELLNRIQGLKQDLQNWR   50 (144)
Q Consensus        15 k~~~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WR   50 (144)
                      .+.+..++..|.+|++-=.+|=..+..|..+|.+-+
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~  106 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLS  106 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444455555555554444444443333333333333

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 [].

>smart00787 Spc7 Spc7 kinetochore protein

Probab=90.68  E-value=5.7  Score=34.17  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHHHH
Q 032236           56 QVKIYRDELTDMKKTLSVEVEQLR   79 (144)
Q Consensus        56 QVKtYr~EL~dLK~~LnsEVeqLR   79 (144)
                      .|..+..+|.+....|+.|+.+|+
T Consensus       169 ~l~~~~~~l~~~~~~L~~e~~~L~  192 (312)
T smart00787      169 LLNSIKPKLRDRKDALEEELRQLK  192 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444445555555555554

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

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

Probab=90.21  E-value=6.1  Score=29.32  Aligned_cols=46  Identities=22%  Similarity=0.380  Sum_probs=33.2

Q ss_pred             cchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 032236           19 TPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDEL   64 (144)
Q Consensus        19 ~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL   64 (144)
                      .-+.+.|..+.+.-...-.+++.++.||..=+.....-=..|..||
T Consensus         6 ~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El   51 (132)
T PF07926_consen    6 SSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYEREL   51 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778888888888888888888888776665555555566555

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

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.00  E-value=3.5  Score=35.47  Aligned_cols=69  Identities=22%  Similarity=0.406  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH---HhhHHHHHHHHHHHHHHHHHHHhHHHHhhhhhhccccc
Q 032236           39 IQGLKQDLQNWRSKLDTQVKIYRDELTDMKK---TLSVEVEQLRSEFQELRSTLQQQQDDVTASLRNLGLQD  107 (144)
Q Consensus        39 vq~LK~DLq~WRskLDtQVKtYr~EL~dLK~---~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L~nL~lqd  107 (144)
                      ++.=++++|+=-..||.||..-...+.++++   .++.|+.+|..++.+++..|..+.+.+-..+|-+..=+
T Consensus        43 ~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~nG  114 (265)
T COG3883          43 LQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVNG  114 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3333445555556688888888888888775   56789999999999999999999999988888776544

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=89.94  E-value=6  Score=36.64  Aligned_cols=63  Identities=24%  Similarity=0.351  Sum_probs=32.9

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHh-------hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRS-------KLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQEL   85 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRs-------kLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeL   85 (144)
                      .++++++.-..+|+.-=..||++-..+|.       ++.+-|..++.|+..=+..|..|+.+|+..+++|
T Consensus        66 a~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l  135 (472)
T TIGR03752        66 AEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQL  135 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555544556666666654       4555555666555554444444444444444443

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.

>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae

Probab=89.71  E-value=6.8  Score=31.19  Aligned_cols=65  Identities=23%  Similarity=0.442  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHH--HHHHHHhhhHHHHHHHHHHHHHHHHHhh----HHHHHHHHHHHHHHHHHHHhHHHHhhh
Q 032236           34 ELLNRIQGLKQ--DLQNWRSKLDTQVKIYRDELTDMKKTLS----VEVEQLRSEFQELRSTLQQQQDDVTAS   99 (144)
Q Consensus        34 ELL~Rvq~LK~--DLq~WRskLDtQVKtYr~EL~dLK~~Ln----sEVeqLRsEfqeLRttLqqQ~e~~ta~   99 (144)
                      ..+.+++.+++  ++++=-+.+++.+...+.|++-|+. .|    ..+|.|....-|||..|...++.+++.
T Consensus        45 ~~~r~~~~~r~~~~~~~~v~~~~~~i~~k~~El~~L~~-~d~~kv~~~E~L~d~v~eLkeel~~el~~l~~~  115 (146)
T PF05852_consen   45 KSLRSHNSLREECEIKNKVSSLETEISEKKKELSHLKK-FDRKKVEDLEKLTDRVEELKEELEFELERLQSA  115 (146)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            45666777765  5667777888999999999999887 55    578999999999999999999998776

>smart00502 BBC B-Box C-terminal domain

Probab=89.47  E-value=4.9  Score=27.18  Aligned_cols=53  Identities=11%  Similarity=0.245  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhH
Q 032236           41 GLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQ   93 (144)
Q Consensus        41 ~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~   93 (144)
                      .-...+.++...|+..+..........+..+..+++.|+.-+.+-+..|-.++
T Consensus        14 ~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l   66 (127)
T smart00502       14 KKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDL   66 (127)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334445555555544444444444444444444444444443333333333

Coiled coil region C-terminal to (some) B-Box domains

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

Probab=89.41  E-value=6  Score=38.63  Aligned_cols=67  Identities=27%  Similarity=0.464  Sum_probs=48.4

Q ss_pred             cchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 032236           19 TPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELR   86 (144)
Q Consensus        19 ~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLR   86 (144)
                      .-++..+.+|.++..++-.|+..++.++..+...+ +..+.+..++...+..+..++..++.++.+++
T Consensus       740 ~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  806 (1163)
T COG1196         740 EELEEELEELEEELEELQERLEELEEELESLEEAL-AKLKEEIEELEEKRQALQEELEELEEELEEAE  806 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566777777778888888888888888888777 66666666666666666666666666666654

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

Probab=89.36  E-value=5.1  Score=32.37  Aligned_cols=67  Identities=24%  Similarity=0.588  Sum_probs=35.2

Q ss_pred             HHhHhHHhHHHHHHHHHHHHH-------HHHHHHhhhHHH----HHHHHHHHHHHHHH----------hhHHHHHHHHHH
Q 032236           24 KIAELNESRAELLNRIQGLKQ-------DLQNWRSKLDTQ----VKIYRDELTDMKKT----------LSVEVEQLRSEF   82 (144)
Q Consensus        24 ki~ELneSr~ELL~Rvq~LK~-------DLq~WRskLDtQ----VKtYr~EL~dLK~~----------LnsEVeqLRsEf   82 (144)
                      .|..||+-=...+.||+.|..       ++..|+.+....    -..|..||.+|+..          |-.++..|+.++
T Consensus         5 eL~~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~   84 (312)
T PF00038_consen    5 ELQSLNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEEL   84 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHH
Confidence            466777777777777777655       444454442121    22366666655544          445666666666


Q ss_pred             HHHHHHHH
Q 032236           83 QELRSTLQ   90 (144)
Q Consensus        83 qeLRttLq   90 (144)
                      .++|..+.
T Consensus        85 ~~~r~k~e   92 (312)
T PF00038_consen   85 EDLRRKYE   92 (312)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665443

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 ....

>PRK10884 SH3 domain-containing protein; Provisional

Probab=89.23  E-value=5.3  Score=32.57  Aligned_cols=18  Identities=22%  Similarity=0.324  Sum_probs=7.9

Q ss_pred             hhHHHHHHHHHHHHHHHH
Q 032236           71 LSVEVEQLRSEFQELRST   88 (144)
Q Consensus        71 LnsEVeqLRsEfqeLRtt   88 (144)
                      ++..+..|+.+-++|+..
T Consensus       130 ~~~~~~~L~~~n~~L~~~  147 (206)
T PRK10884        130 SDSVINGLKEENQKLKNQ  147 (206)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444444444433

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=89.10  E-value=4  Score=37.78  Aligned_cols=61  Identities=28%  Similarity=0.424  Sum_probs=36.9

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH------------------HhhHHHHHHHHHHHHHHHHHHH
Q 032236           30 ESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKK------------------TLSVEVEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        30 eSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~------------------~LnsEVeqLRsEfqeLRttLqq   91 (144)
                      +.=.-|..+++.++++++.    |..|=+..+.|-..||+                  .|..|.++|+++.+.++..|++
T Consensus        59 DTlrTlva~~k~~r~~~~~----l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~  134 (472)
T TIGR03752        59 DTLRTLVAEVKELRKRLAK----LISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQ  134 (472)
T ss_pred             chHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445577777777777664    55556666666666655                  3444666777776666555544


Q ss_pred             hHH
Q 032236           92 QQD   94 (144)
Q Consensus        92 Q~e   94 (144)
                      -+.
T Consensus       135 l~~  137 (472)
T TIGR03752       135 LQR  137 (472)
T ss_pred             HHH
Confidence            333

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.

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

Probab=88.94  E-value=8.4  Score=29.18  Aligned_cols=12  Identities=33%  Similarity=0.714  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHH
Q 032236           75 VEQLRSEFQELR   86 (144)
Q Consensus        75 VeqLRsEfqeLR   86 (144)
                      +..+.++|.+++
T Consensus       139 ~~~~~~e~~~l~  150 (191)
T PF04156_consen  139 IKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHH
Confidence            333444444444

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 [].

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=88.79  E-value=3.9  Score=34.50  Aligned_cols=49  Identities=20%  Similarity=0.314  Sum_probs=32.6

Q ss_pred             cCCccchhhHHhHhHHhHHHHHHH-------HHHHHHHHHHHHhhhHHHHHHHHHH
Q 032236           15 KENITPVGSKIAELNESRAELLNR-------IQGLKQDLQNWRSKLDTQVKIYRDE   63 (144)
Q Consensus        15 k~~~~pi~~ki~ELneSr~ELL~R-------vq~LK~DLq~WRskLDtQVKtYr~E   63 (144)
                      .+.+..+..++.++.....+|..|       |+.|+..+...+..|+.++..+...
T Consensus       253 ~~~i~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e~~~~~~~  308 (444)
T TIGR03017       253 NPIIQNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAEIKKVTSS  308 (444)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556667777777777777664       6777777777777777666554443

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.

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

Probab=88.70  E-value=11  Score=31.73  Aligned_cols=67  Identities=24%  Similarity=0.480  Sum_probs=31.4

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhH-------HHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHHH
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLD-------TQVKIYRDELTDMKKTLS---VEVEQLRSEFQELRS   87 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLD-------tQVKtYr~EL~dLK~~Ln---sEVeqLRsEfqeLRt   87 (144)
                      +.+.+..+++...+|..|-+.|+.++..=|....       ..+..+|.||..++..+.   .++.+|+.+++.++.
T Consensus       168 L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~  244 (325)
T PF08317_consen  168 LDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEE  244 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555555555555544433       234444444444443332   234444444444433

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

Probab=88.57  E-value=13  Score=31.32  Aligned_cols=54  Identities=20%  Similarity=0.240  Sum_probs=26.6

Q ss_pred             HhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH
Q 032236           25 IAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR   79 (144)
Q Consensus        25 i~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLR   79 (144)
                      ++=++.-+..|..++..|+.|...=+. .-.+|..+..+|...+..|..|+..|+
T Consensus       144 ~~ll~gl~~~L~~~~~~L~~D~~~L~~-~~~~l~~~~~~l~~~~~~L~~e~~~Lk  197 (325)
T PF08317_consen  144 MQLLEGLKEGLEENLELLQEDYAKLDK-QLEQLDELLPKLRERKAELEEELENLK  197 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444455555566666665544442 223444444455555555555555544

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=88.44  E-value=5.7  Score=34.02  Aligned_cols=61  Identities=21%  Similarity=0.436  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHhhhHHHH--------------HHHHHHHHHHHHHhhH-------HHHHHHHHHHHHHHHHHHhHHHH
Q 032236           38 RIQGLKQDLQNWRSKLDTQV--------------KIYRDELTDMKKTLSV-------EVEQLRSEFQELRSTLQQQQDDV   96 (144)
Q Consensus        38 Rvq~LK~DLq~WRskLDtQV--------------KtYr~EL~dLK~~Lns-------EVeqLRsEfqeLRttLqqQ~e~~   96 (144)
                      +++.+|.||+.|..++...|              +.++.||.-|.+--..       -|..|...++.++..-+.+++++
T Consensus        64 ~l~~ak~eLqe~eek~e~~l~~Lq~ql~~l~akI~k~~~el~~L~TYkD~EYPvK~vqIa~L~rqlq~lk~~qqdEldel  143 (258)
T PF15397_consen   64 QLQQAKAELQEWEEKEESKLSKLQQQLEQLDAKIQKTQEELNFLSTYKDHEYPVKAVQIANLVRQLQQLKDSQQDELDEL  143 (258)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677778888877655444              4455555555443322       35556667777777777777665


Q ss_pred             hh
Q 032236           97 TA   98 (144)
Q Consensus        97 ta   98 (144)
                      .-
T Consensus       144 ~e  145 (258)
T PF15397_consen  144 NE  145 (258)
T ss_pred             HH
Confidence            43

>PRK11637 AmiB activator; Provisional

Probab=88.34  E-value=9.9  Score=32.79  Aligned_cols=49  Identities=22%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHHHHHH
Q 032236           42 LKQDLQNWRSKLDTQVKIYRDELTDMKKTLS---VEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        42 LK~DLq~WRskLDtQVKtYr~EL~dLK~~Ln---sEVeqLRsEfqeLRttLq   90 (144)
                      ++.+++.=+..|.++.+..+.++..|++.+.   .++.+|+.+-+.|...|.
T Consensus       199 ~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~  250 (428)
T PRK11637        199 LLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIA  250 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444443322   344445444444444444

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

Probab=88.30  E-value=8.1  Score=30.72  Aligned_cols=59  Identities=20%  Similarity=0.268  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 032236           32 RAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        32 r~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLq   90 (144)
                      -.+|-..+..|+..+..|+.+++.-.+..........+....||+.|+..-+.|++-|+
T Consensus       129 i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~ql~~~l~  187 (189)
T PF10211_consen  129 IEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQNQQLKAQLE  187 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344444444445555555555555555555555555566666666665555555443

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 [].

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

Probab=88.20  E-value=12  Score=30.20  Aligned_cols=75  Identities=24%  Similarity=0.482  Sum_probs=50.6

Q ss_pred             hHhHHhHHHHHHHHHHH----HHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH-------------HHHHHHHHH
Q 032236           26 AELNESRAELLNRIQGL----KQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR-------------SEFQELRST   88 (144)
Q Consensus        26 ~ELneSr~ELL~Rvq~L----K~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLR-------------sEfqeLRtt   88 (144)
                      .||.+.+ .||+||+..    ..+.+.=...+...+..|...|.||+..|+.=+...+             .+|+.=+..
T Consensus       153 ~El~~A~-~LL~~v~~~~~~~~~~~~~l~~~i~~~L~~~~~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k~~~  231 (264)
T PF06008_consen  153 DELKEAE-DLLSRVQKWFQKPQQENESLAEAIRDDLNDYNAKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKKKQE  231 (264)
T ss_pred             HHHHHHH-HHHHHHHHHHhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444 789999875    3466666677888999999999999998876444443             355555556


Q ss_pred             HHHhHHHHhhhhh
Q 032236           89 LQQQQDDVTASLR  101 (144)
Q Consensus        89 LqqQ~e~~ta~L~  101 (144)
                      |+.++..++..|.
T Consensus       232 l~~~~~~~~~~L~  244 (264)
T PF06008_consen  232 LSEQQNEVSETLK  244 (264)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666655555443

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

>PF15272 BBP1_C: Spindle pole body component BBP1, C-terminal

Probab=88.00  E-value=5.2  Score=33.15  Aligned_cols=76  Identities=22%  Similarity=0.316  Sum_probs=55.1

Q ss_pred             hHHhHhHHhHH------HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHh--------------hHHHHHHHHHH
Q 032236           23 SKIAELNESRA------ELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTL--------------SVEVEQLRSEF   82 (144)
Q Consensus        23 ~ki~ELneSr~------ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~L--------------nsEVeqLRsEf   82 (144)
                      +-|.||+.|+.      .|+++-+.||+        +..+.+.++..++.|...|              +-++-.++.--
T Consensus        52 ElI~ELkqsKklydnYYkL~~KY~~LK~--------~~~~~~~l~~~i~~le~~lvd~~~~kd~~i~~~~~~l~~~~~r~  123 (196)
T PF15272_consen   52 ELINELKQSKKLYDNYYKLYSKYQELKK--------SSKQSEDLQSRISNLEKQLVDQMIEKDREIRTLQDELLSLELRN  123 (196)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HhHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            45888888885      79999999998        7777788777777777777              33333444444


Q ss_pred             HHHHHHHHHhHHHHhhhhhhcccc
Q 032236           83 QELRSTLQQQQDDVTASLRNLGLQ  106 (144)
Q Consensus        83 qeLRttLqqQ~e~~ta~L~nL~lq  106 (144)
                      ++|.+..+.+...-.+.|++|..|
T Consensus       124 ~el~~~r~~e~~~YesRI~dLE~~  147 (196)
T PF15272_consen  124 KELQNERERERIAYESRIADLERQ  147 (196)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHH
Confidence            566666667777778888888876

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

Probab=87.86  E-value=0.16  Score=48.33  Aligned_cols=87  Identities=23%  Similarity=0.496  Sum_probs=0.0

Q ss_pred             CccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH----------H
Q 032236           17 NITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQEL----------R   86 (144)
Q Consensus        17 ~~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeL----------R   86 (144)
                      ++..+-..+.+-.+++.+|-..|..+..+|..||.++++.+-.--.+|-+.|+.|...+..+...+.++          +
T Consensus       272 e~~~L~eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~~~~~~~~LeK~k  351 (859)
T PF01576_consen  272 ELEQLREQLEEEEEAKSELERQLSKLNAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEEANAKVSSLEKTK  351 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667777888889999999999999999999999999998888899999999988888777665554          4


Q ss_pred             HHHHHhHHHHhhhhhhc
Q 032236           87 STLQQQQDDVTASLRNL  103 (144)
Q Consensus        87 ttLqqQ~e~~ta~L~nL  103 (144)
                      ..|+.+++|++..|.+.
T Consensus       352 ~rL~~EleDl~~eLe~~  368 (859)
T PF01576_consen  352 KRLQGELEDLTSELEKA  368 (859)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            45666667666555443

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.

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

Probab=87.17  E-value=7.2  Score=39.42  Aligned_cols=95  Identities=21%  Similarity=0.338  Sum_probs=70.9

Q ss_pred             cchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHh-----------------hhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Q 032236           19 TPVGSKIAELNESRAELLNRIQGLKQDLQNWRS-----------------KLDTQVKIYRDELTDMKKTLSVEVEQLRSE   81 (144)
Q Consensus        19 ~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRs-----------------kLDtQVKtYr~EL~dLK~~LnsEVeqLRsE   81 (144)
                      +-+.++|+++..-.+.-=.++++++++|.+-|.                 ++---|.-|+..++++++.+|.+|.-.+.+
T Consensus       319 teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e  398 (1074)
T KOG0250|consen  319 TEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEE  398 (1074)
T ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            445666666666666666677788888888777                 233446677888899999998888888888


Q ss_pred             HHHHHHHHHHhHHHHhhhhhhcc--cccCCCCcc
Q 032236           82 FQELRSTLQQQQDDVTASLRNLG--LQDFSGDDK  113 (144)
Q Consensus        82 fqeLRttLqqQ~e~~ta~L~nL~--lqd~~~d~~  113 (144)
                      ...=...|+++.+.+...+..|+  ++++..+..
T Consensus       399 ~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~  432 (1074)
T KOG0250|consen  399 RENKLEQLKKEVEKLEEQINSLREELNEVKEKAK  432 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888889999999988888887  555554433

>PHA02562 46 endonuclease subunit; Provisional

Probab=85.68  E-value=15  Score=31.76  Aligned_cols=66  Identities=18%  Similarity=0.332  Sum_probs=38.0

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH---HHhhHHHHHHHHHHHHHHHH
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMK---KTLSVEVEQLRSEFQELRST   88 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK---~~LnsEVeqLRsEfqeLRtt   88 (144)
                      .+|..|......+-.++..+...+.+-+..++..+..++.++..+.   ..|.++++.|+.++.+++..
T Consensus       181 ~~i~~l~~~i~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~  249 (562)
T PHA02562        181 QQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMD  249 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3444444444444455555555555555555555666666666555   55666777777777777543

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

Probab=84.95  E-value=7.9  Score=41.04  Aligned_cols=89  Identities=19%  Similarity=0.452  Sum_probs=70.6

Q ss_pred             CCccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH-----------HHHHHHHHHhh---HHHHHHHHH
Q 032236           16 ENITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYR-----------DELTDMKKTLS---VEVEQLRSE   81 (144)
Q Consensus        16 ~~~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr-----------~EL~dLK~~Ln---sEVeqLRsE   81 (144)
                      .++.|++..+.+|...=++...-+-.|+.+...|+-+-.-=|.+|+           .|++.|+..|-   ..++-|..+
T Consensus      1257 ~el~plq~~l~el~~e~~~~~ael~~l~~e~~~wK~R~q~L~~k~k~~d~~~~~kL~~ei~~Lk~el~~ke~~~~el~~~ 1336 (1822)
T KOG4674|consen 1257 FELAPLQNELKELKAELQEKVAELKKLEEENDRWKQRNQDLLEKYKDSDKNDYEKLKSEISRLKEELEEKENLIAELKKE 1336 (1822)
T ss_pred             hhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999999999998887777754           45666655543   345566788


Q ss_pred             HHHHHHHHHHhHHHHhhhhhhcc
Q 032236           82 FQELRSTLQQQQDDVTASLRNLG  104 (144)
Q Consensus        82 fqeLRttLqqQ~e~~ta~L~nL~  104 (144)
                      |..+|.++++|.+.++...+++-
T Consensus      1337 ~~~~q~~~k~qld~l~~e~~~lt 1359 (1822)
T KOG4674|consen 1337 LNRLQEKIKKQLDELNNEKANLT 1359 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999988877766653

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=84.84  E-value=13  Score=29.18  Aligned_cols=61  Identities=25%  Similarity=0.479  Sum_probs=49.8

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhH
Q 032236           29 NESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQ   93 (144)
Q Consensus        29 neSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~   93 (144)
                      .+.+..+..+|..|...++.+..+.+..|    .+|..+|..|...+..|++....+.+.|..+-
T Consensus       102 ~~~~~~~~~~i~~L~~~i~~~q~~~~~~i----~~L~~f~~~l~~D~~~l~~~~~~l~~~l~~~~  162 (184)
T PF05791_consen  102 QKDKEDLKEIIEDLQDQIQKNQDKVQALI----NELNDFKDKLQKDSRNLKTDVDELQSILAGEN  162 (184)
T ss_dssp             HT-HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhHHHHHHHHhccc
Confidence            67788999999999999988887766555    68889999999999999988888888776543

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

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

Probab=84.26  E-value=13  Score=29.63  Aligned_cols=67  Identities=25%  Similarity=0.405  Sum_probs=30.0

Q ss_pred             HHhHhHHhHHHHHHHHHHHHHHHHHH--HhhhHHHHHHHHHHHHHHHHHhh-------HHHHHHHHHHHHHHHHHH
Q 032236           24 KIAELNESRAELLNRIQGLKQDLQNW--RSKLDTQVKIYRDELTDMKKTLS-------VEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        24 ki~ELneSr~ELL~Rvq~LK~DLq~W--RskLDtQVKtYr~EL~dLK~~Ln-------sEVeqLRsEfqeLRttLq   90 (144)
                      .|..+.....+|-.+|..+|..-.+.  |..+-..++..+.++..|++.|.       ..|++++.+.+.++.++.
T Consensus        77 ~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~an  152 (188)
T PF03962_consen   77 EIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKIAKEAAN  152 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence            33333333444444444443322222  44444444444445544444444       335555555555555544

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

>PRK04098 sec-independent translocase; Provisional

Probab=83.54  E-value=5.6  Score=32.01  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHhhHHHHHHHH
Q 032236           61 RDELTDMKKTLSVEVEQLRS   80 (144)
Q Consensus        61 r~EL~dLK~~LnsEVeqLRs   80 (144)
                      +.|+...|..|.+.++.||+
T Consensus        60 k~e~~k~k~~l~~~~~~l~~   79 (158)
T PRK04098         60 KEEALKYKKEFESAVESLKK   79 (158)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            33334445555555665655

>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function

Probab=83.37  E-value=14  Score=32.19  Aligned_cols=71  Identities=31%  Similarity=0.495  Sum_probs=37.6

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHh-----hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRS-----KLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRs-----kLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqq   91 (144)
                      +..++..|.+-..++..++..|++.|.....     +++..-+.....+...+..|+.++..|+.++.+|+..|..
T Consensus       332 l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~  407 (451)
T PF03961_consen  332 LKEKLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEELER  407 (451)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455666666666666666666666555543     1222222333344444455555666666666555555544

The proteins are in the region of 500-600 amino acid residues in length.

>PRK08476 F0F1 ATP synthase subunit B'; Validated

Probab=83.17  E-value=17  Score=27.27  Aligned_cols=83  Identities=20%  Similarity=0.292  Sum_probs=45.2

Q ss_pred             ccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHh-------------------hHH----
Q 032236           18 ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTL-------------------SVE----   74 (144)
Q Consensus        18 ~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~L-------------------nsE----   74 (144)
                      +.||..-|.+=.+.=.+-|.....++.++..++......+...|.|-..++...                   +.+    
T Consensus        29 ~kPi~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~~l~~Ar~eA~~~~~~a~~~A~~ea~~~~~~A~~~~~~~~~~a  108 (141)
T PRK08476         29 YKPLLKFMDNRNASIKNDLEKVKTNSSDVSEIEHEIETILKNAREEANKIRQKAIAKAKEEAEKKIEAKKAELESKYEAF  108 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555556666666555555555554444433333222                   222    


Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHhhhh
Q 032236           75 VEQLRSEFQELRSTLQQQQDDVTASL  100 (144)
Q Consensus        75 VeqLRsEfqeLRttLqqQ~e~~ta~L  100 (144)
                      ..+|+.+..++...|+.|.++++..+
T Consensus       109 ~~~l~~e~~~~~~~l~~qv~~~~~~~  134 (141)
T PRK08476        109 AKQLANQKQELKEQLLSQMPEFKEAL  134 (141)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            23455666677777777777766654

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

Probab=83.10  E-value=22  Score=35.20  Aligned_cols=38  Identities=16%  Similarity=0.377  Sum_probs=14.2

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH
Q 032236           42 LKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR   79 (144)
Q Consensus        42 LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLR   79 (144)
                      |+.+...|+.++....+.-+..+..=...|..++.++.
T Consensus       661 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~  698 (1201)
T PF12128_consen  661 LKNEREQLKQEIEEAKEERKEQIEEQLNELEEELKQLK  698 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444433333333333333333333333333

>PF05130 FlgN: FlgN protein; InterPro: IPR007809 Flagella synthesis protein FlgN is an export chaperone involved in flagellar synthesis []

Probab=83.05  E-value=13  Score=25.59  Aligned_cols=83  Identities=25%  Similarity=0.306  Sum_probs=62.0

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHH-----HHH---HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHH
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQ-----VKI---YRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQD   94 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQ-----VKt---Yr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e   94 (144)
                      ..|.++..-+..|+.+|..+-+..+.|..++...     +..   -+.+|..+...|..-++.++..-..-+..|+..++
T Consensus        37 ~~l~~~~~~k~~l~~~l~~le~~r~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~n~~N~~ll~~~~~  116 (143)
T PF05130_consen   37 DELEELVEEKQELLEELRELEKQRQQLLAKLGAEPEEATLSELIEEREELQALWRELRELLEELQELNERNQQLLEQALE  116 (143)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccccHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677888889999999999999999999988765     222   45667777777777777777777777777777777


Q ss_pred             HHhhhhhhccc
Q 032236           95 DVTASLRNLGL  105 (144)
Q Consensus        95 ~~ta~L~nL~l  105 (144)
                      -+...|.-+.-
T Consensus       117 ~~~~~l~~l~~  127 (143)
T PF05130_consen  117 FVQQLLNLLQP  127 (143)
T ss_dssp             HHHHHHHHCCH
T ss_pred             HHHHHHHHHhc
Confidence            77666666653

This entry represents a FlgN-like domain, consisting of a 4 long helices bundle, where the last helix is shorter than the three others.; GO: 0009296 flagellum assembly, 0019861 flagellum; PDB: 2FUP_A 3OPC_A.

>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=82.65  E-value=15  Score=27.17  Aligned_cols=52  Identities=25%  Similarity=0.446  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHh---hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 032236           36 LNRIQGLKQDLQNWRS---KLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRS   87 (144)
Q Consensus        36 L~Rvq~LK~DLq~WRs---kLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRt   87 (144)
                      +..|+.||.+++.-+.   .|-+.+.+.+.+|...+.+...+=..|..++.+++.
T Consensus        58 ~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~  112 (132)
T PF07926_consen   58 IKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQ  112 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            4445555554443222   222333334444444444444444444444444433

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

>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles

Probab=82.57  E-value=9.9  Score=25.23  Aligned_cols=45  Identities=22%  Similarity=0.445  Sum_probs=28.6

Q ss_pred             HhHHhHHHHHHHHHHHHHHHH----HHHhhhHHHHHHHHHHHHHHHHHh
Q 032236           27 ELNESRAELLNRIQGLKQDLQ----NWRSKLDTQVKIYRDELTDMKKTL   71 (144)
Q Consensus        27 ELneSr~ELL~Rvq~LK~DLq----~WRskLDtQVKtYr~EL~dLK~~L   71 (144)
                      +....-.|.-.=|..|.-+++    +=|..+.+.|+.||.+|..||+.|
T Consensus        29 ~~e~~l~ea~~~l~qMe~E~~~~p~s~r~~~~~kl~~yr~~l~~lk~~l   77 (79)
T PF05008_consen   29 EIERDLDEAEELLKQMELEVRSLPPSERNQYKSKLRSYRSELKKLKKEL   77 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333333333333444444443    678888999999999998888765

The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.

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

Probab=82.49  E-value=10  Score=33.17  Aligned_cols=64  Identities=23%  Similarity=0.516  Sum_probs=36.1

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHH---HhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNW---RSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~W---RskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLq   90 (144)
                      ..+.++.+-|.+|-.+|+.|..-.+.-   |..+..+|..|+++-.+    +|..+..|+.++.+++.++.
T Consensus        34 ~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~e----in~kl~eL~~~~~~l~e~~~  100 (294)
T COG1340          34 KEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDE----INAKLQELRKEYRELKEKRN  100 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhh
Confidence            344555555555555555555444433   44556677766666443    45555557776666666554

>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]

Probab=82.20  E-value=8.9  Score=35.25  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=20.6

Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHH
Q 032236           45 DLQNWRSKLDTQVKIYRDELTDMK   68 (144)
Q Consensus        45 DLq~WRskLDtQVKtYr~EL~dLK   68 (144)
                      +.|+||.+|.+|++.--.|+.+.-
T Consensus       282 etqdar~kL~~ql~k~leEi~~~e  305 (421)
T KOG2685|consen  282 ETQDARNKLEWQLAKTLEEIADAE  305 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            789999999999999888876643

>PHA03161 hypothetical protein; Provisional

Probab=82.16  E-value=17  Score=29.36  Aligned_cols=64  Identities=17%  Similarity=0.321  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHH--HHHHHHhhhHHHHHHHHHHHHHHHHHhh----HHHHHHHHHHHHHHHHHHHhHHHHh
Q 032236           33 AELLNRIQGLKQ--DLQNWRSKLDTQVKIYRDELTDMKKTLS----VEVEQLRSEFQELRSTLQQQQDDVT   97 (144)
Q Consensus        33 ~ELL~Rvq~LK~--DLq~WRskLDtQVKtYr~EL~dLK~~Ln----sEVeqLRsEfqeLRttLqqQ~e~~t   97 (144)
                      ..+|.+.+.+|+  ++++--+.+++.+..-+.|++-|++ +|    ..+|.|..-..|||..|..+++.++
T Consensus        44 ~~~lr~~~~~~~~~~i~~~v~~l~~~I~~k~kE~~~L~~-fd~kkl~~~E~L~drv~eLkeel~~ELe~l~  113 (150)
T PHA03161         44 KKSLIKHENLKKQKSIEGMLQAVDLSIQEKKKELSLLKA-FDRHKLSAAEDLQDKILELKEDIHFEIEALN  113 (150)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            467888888886  6888888999999999999999987 55    5788899999999999999998765

>PRK11546 zraP zinc resistance protein; Provisional

Probab=81.95  E-value=12  Score=29.70  Aligned_cols=71  Identities=13%  Similarity=0.246  Sum_probs=37.8

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHhHHHHhhhhh
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVE-VEQLRSEFQELRSTLQQQQDDVTASLR  101 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsE-VeqLRsEfqeLRttLqqQ~e~~ta~L~  101 (144)
                      ++.+.++.-..+.......|+++|..=|..|+...-+=.-.         .+ |.+|.+|+.+||+.|.++.-.....++
T Consensus        47 EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD---------~~kI~aL~kEI~~Lr~kL~e~r~~~~~~~~  117 (143)
T PRK11546         47 EQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPD---------SSKINAVAKEMENLRQSLDELRVKRDIAMA  117 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666667777777777776665555444432221111         11 445555555555555555554444444


Q ss_pred             h
Q 032236          102 N  102 (144)
Q Consensus       102 n  102 (144)
                      .
T Consensus       118 k  118 (143)
T PRK11546        118 E  118 (143)
T ss_pred             H
Confidence            4

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=81.94  E-value=31  Score=30.77  Aligned_cols=18  Identities=33%  Similarity=0.571  Sum_probs=9.2

Q ss_pred             HHHHHHHhHHHHhhhhhh
Q 032236           85 LRSTLQQQQDDVTASLRN  102 (144)
Q Consensus        85 LRttLqqQ~e~~ta~L~n  102 (144)
                      |+..|+.|.+.....|+|
T Consensus       331 L~~eL~~~~~~~~~~l~~  348 (582)
T PF09731_consen  331 LRQELKRQEEAHEEHLKN  348 (582)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            455555555555555544

Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=81.93  E-value=18  Score=30.58  Aligned_cols=45  Identities=22%  Similarity=0.361  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhH---HHHHHHHHHHHHHHHHhhHHHHHH
Q 032236           34 ELLNRIQGLKQDLQNWRSKLD---TQVKIYRDELTDMKKTLSVEVEQL   78 (144)
Q Consensus        34 ELL~Rvq~LK~DLq~WRskLD---tQVKtYr~EL~dLK~~LnsEVeqL   78 (144)
                      .|..++..+..+|...+.+..   -.|...+.++..|+..|+.|+..+
T Consensus       258 ~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e~~~~  305 (444)
T TIGR03017       258 NLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAEIKKV  305 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555566666666555432   245555666666666666655544

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.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=81.90  E-value=3.6  Score=30.14  Aligned_cols=35  Identities=20%  Similarity=0.435  Sum_probs=25.6

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQV   57 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQV   57 (144)
                      ..+..+..+|.+|-..-+.||++.+.|-.+|..=+
T Consensus        39 ~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LL   73 (79)
T PRK15422         39 QEVQNAQHQREELERENNHLKEQQNGWQERLQALL   73 (79)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556678888888888888888888876543

>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []

Probab=81.80  E-value=6.9  Score=31.29  Aligned_cols=46  Identities=24%  Similarity=0.469  Sum_probs=38.0

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 032236           46 LQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        46 Lq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqq   91 (144)
                      +..+-..|+.|++.|...+..+...|...-++|+..|..|-+.|.+
T Consensus       191 i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~me~~i~~  236 (239)
T PF07195_consen  191 ITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQFSAMESLISQ  236 (239)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567778888888899999999999988888999988888777654

This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum

>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein

Probab=81.72  E-value=21  Score=27.26  Aligned_cols=17  Identities=29%  Similarity=0.534  Sum_probs=10.8

Q ss_pred             HHhhhhhhcccccCCCCc
Q 032236           95 DVTASLRNLGLQDFSGDD  112 (144)
Q Consensus        95 ~~ta~L~nL~lqd~~~d~  112 (144)
                      .....|+.||. +++.|.
T Consensus       102 kyk~rLk~LG~-eVSddE  118 (136)
T PF04871_consen  102 KYKERLKELGE-EVSDDE  118 (136)
T ss_pred             HHHHHHHHcCC-CccCCc
Confidence            34567888997 455444

This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane

>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=81.35  E-value=11  Score=35.80  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=13.4

Q ss_pred             hhHHhHhHHhHHHHHHHHHHHHHHH
Q 032236           22 GSKIAELNESRAELLNRIQGLKQDL   46 (144)
Q Consensus        22 ~~ki~ELneSr~ELL~Rvq~LK~DL   46 (144)
                      .+|+++..+-|..|..|++.+-+-+
T Consensus       599 aeR~e~a~d~Qe~L~~R~~~vl~~l  623 (717)
T PF10168_consen  599 AERYEEAKDKQEKLMKRVDRVLQLL  623 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555555444

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 [].

>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=80.09  E-value=19  Score=31.89  Aligned_cols=55  Identities=33%  Similarity=0.436  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHH
Q 032236           34 ELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDD   95 (144)
Q Consensus        34 ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~   95 (144)
                      -|+-||++||++-.+.       +..|..|=.-|-+.|..-+.+|+.|--+|-.+|.+.++.
T Consensus        81 ~LlKkl~~l~keKe~L-------~~~~e~EEE~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~  135 (310)
T PF09755_consen   81 TLLKKLQQLKKEKETL-------ALKYEQEEEFLTNDLSRKLNQLRQEKVELENQLEQEQEY  135 (310)
T ss_pred             HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            4788889988876543       456777767777888888888888877777777766654

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=80.04  E-value=36  Score=30.72  Aligned_cols=85  Identities=18%  Similarity=0.318  Sum_probs=53.9

Q ss_pred             CCcCCccchhhHHhHhHHhHHHHHHHHHHHHHHHH----HHHh----------hhHHHHHHHHHHHHHHHHHhhHHHHHH
Q 032236           13 PKKENITPVGSKIAELNESRAELLNRIQGLKQDLQ----NWRS----------KLDTQVKIYRDELTDMKKTLSVEVEQL   78 (144)
Q Consensus        13 ~rk~~~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq----~WRs----------kLDtQVKtYr~EL~dLK~~LnsEVeqL   78 (144)
                      +....+.++...+.|+.+.+..|-..++.||.+++    --..          +|+.||.       |+-..--.||..|
T Consensus       209 ~~~~~l~~~~~el~eik~~~~~L~~~~e~Lk~~~~~e~~~~~~~LqEEr~R~erLEeqlN-------d~~elHq~Ei~~L  281 (395)
T PF10267_consen  209 QQNLGLQKILEELREIKESQSRLEESIEKLKEQYQREYQFILEALQEERYRYERLEEQLN-------DLTELHQNEIYNL  281 (395)
T ss_pred             cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-------HHHHHHHHHHHHH
Confidence            34446778888889999999999888888887544    2111          3344433       3333333455555


Q ss_pred             HHHHHHHHH-----------HHHHhHHHHhhhhhhcc
Q 032236           79 RSEFQELRS-----------TLQQQQDDVTASLRNLG  104 (144)
Q Consensus        79 RsEfqeLRt-----------tLqqQ~e~~ta~L~nL~  104 (144)
                      |.+|..|-.           -|++=+|...+.+..|+
T Consensus       282 KqeLa~~EEK~~Yqs~eRaRdi~E~~Es~qtRisklE  318 (395)
T PF10267_consen  282 KQELASMEEKMAYQSYERARDIWEVMESCQTRISKLE  318 (395)
T ss_pred             HHHHHhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            555544443           35666788888888888

Its function is unknown.

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	144
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	95.79
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	95.21
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	94.59
3s84_A	273	Apolipoprotein A-IV; four helix bundle, transport	94.46
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	94.12
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.7
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	91.29
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	90.16
3kqg_A	182	Langerin, C-type lectin domain family 4 member K;	89.98
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	89.96
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	89.95
2a3d_A	73	Protein (de novo three-helix bundle); NMR {Synthet	89.93
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	89.92
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	89.61
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	89.2
3cl3_D	130	NF-kappa-B essential modulator; death effector dom	89.19
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	89.18
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	89.18
1gk6_A	59	Vimentin; intermediate filament, dimer, parallel c	88.73
2xv5_A	74	Lamin-A/C; structural protein, intermediate filame	88.48
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	88.42
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	88.27
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	87.83
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	86.37
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	85.95
3r2p_A	185	Apolipoprotein A-I; amphipathic alpha-helix, major	85.83
2qyw_A	102	Vesicle transport through interaction with T-SNAR	85.3
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	85.06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	84.76
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	84.26
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	84.17
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	83.64
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	83.2
1nfn_A	191	Apolipoprotein E3; lipid transport, heparin-bindin	82.88
2wt7_A	63	Proto-oncogene protein C-FOS; transcription, trans	82.83
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	82.12
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	81.43
3lof_A	113	Heat shock 70 kDa protein 1; structural genomics,	81.2
1mz9_A	45	Cartilage oligomeric matrix protein; pentameric co	80.97
1vcs_A	102	Vesicle transport through interaction with T- snar	80.46

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

Probab=95.79  E-value=0.1  Score=41.45  Aligned_cols=63  Identities=17%  Similarity=0.270  Sum_probs=41.4

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRS   87 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRt   87 (144)
                      +...|..+...-.+|-.++..|+.++..||.|++.+.......+    ..|..|+..||..-..|+.
T Consensus        47 LE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~----~~Lq~el~~l~~~~~~l~~  109 (189)
T 2v71_A           47 LEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQV----SVLEDDLSQTRAIKEQLHK  109 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence            34566777777889999999999999999999987744332222    3333444444444444433

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=94.59  E-value=0.27  Score=39.84  Aligned_cols=71  Identities=21%  Similarity=0.425  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHH----HHHHHHHHhhhHHHHHHHHHHHH----HHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhhhhh
Q 032236           32 RAELLNRIQGL----KQDLQNWRSKLDTQVKIYRDELT----DMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRN  102 (144)
Q Consensus        32 r~ELL~Rvq~L----K~DLq~WRskLDtQVKtYr~EL~----dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L~n  102 (144)
                      +..|-..+++|    ++-.+.++.+|+.++...|.-|.    ++|..|..-++.|+..|.++..-|++|.+.+...+.-
T Consensus       149 ~~kl~~~~e~L~~ql~~~a~~L~~~l~~~~eeLr~~L~p~ae~lr~~l~~~~e~l~~~l~~~~~~~~qq~e~f~~~~~p  227 (273)
T 3s84_A          149 QEKLNHQLEGLTFQMKKNAEELKARISASAEELRQRLAPLAEDVRGNLRGNTEGLQKSLAELGGHLDQQVEEFRRRVEP  227 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHh
Confidence            44555555554    45567788888888887777664    6777777778889999999999999998888777643

>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}

Probab=94.46  E-value=0.6  Score=37.78  Aligned_cols=73  Identities=22%  Similarity=0.447  Sum_probs=46.9

Q ss_pred             hHHHHHHHHHHHHHHHH----HHHhhhHHHHHHHHHHHH----HHHHHhhHHHHHHHHHH----HHHHHHHHHhHHHHhh
Q 032236           31 SRAELLNRIQGLKQDLQ----NWRSKLDTQVKIYRDELT----DMKKTLSVEVEQLRSEF----QELRSTLQQQQDDVTA   98 (144)
Q Consensus        31 Sr~ELL~Rvq~LK~DLq----~WRskLDtQVKtYr~EL~----dLK~~LnsEVeqLRsEf----qeLRttLqqQ~e~~ta   98 (144)
                      .+..+-.-|+.++..|.    ..+.++..++..||..|.    +||+.++..|+.||.-+    .+||..|.+-.+.+..
T Consensus        38 l~~~l~~~le~lr~~L~Py~~el~~~~~~~~eelr~kL~p~~~el~~~l~~~~eeLr~~L~p~~eelr~kl~~~veelk~  117 (273)
T 3s84_A           38 VSQKIGDNLRELQQRLEPYADQLRTQVNTQAEQLRRQLTPYAQRMERVLRENADSLQASLRPHADELKAKIDQNVEELKG  117 (273)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            34444455566666553    344455556666666665    67777888888888777    7777777777777766


Q ss_pred             hhhhc
Q 032236           99 SLRNL  103 (144)
Q Consensus        99 ~L~nL  103 (144)
                      .|.-+
T Consensus       118 ~L~Py  122 (273)
T 3s84_A          118 RLTPY  122 (273)
T ss_dssp             HHHHH
T ss_pred             HhHhH
Confidence            66544

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

Probab=94.12  E-value=0.39  Score=35.45  Aligned_cols=54  Identities=20%  Similarity=0.246  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 032236           33 AELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        33 ~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLq   90 (144)
                      .+|-.++..|+.++..||.|+..+-+    |-...-.+|..|+.+||..-..|...|+
T Consensus         6 rdL~~~~~~L~~E~e~~k~K~~~~~~----e~~~~~~~Lq~El~~lr~~~~~l~~~iR   59 (111)
T 2v66_B            6 RDLQADNQRLKYEVEALKEKLEHQYA----QSYKQVSVLEDDLSQTRAIKEQLHKYVR   59 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788999999999999999987543    3333444555666666666555555443

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=91.29  E-value=2  Score=29.60  Aligned_cols=75  Identities=13%  Similarity=0.325  Sum_probs=55.2

Q ss_pred             ccchhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHhHH
Q 032236           18 ITPVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQEL---RSTLQQQQD   94 (144)
Q Consensus        18 ~~pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeL---RttLqqQ~e   94 (144)
                      +..+..+|..++--++.|..-+.+++.++.+||.|.++.+.        +|.++-.++-.||.++-++   |.-|..+.+
T Consensus         2 i~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~~--------~R~~~E~d~~~LrkdvD~a~l~r~dLE~kve   73 (86)
T 3swk_A            2 MRELRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEML--------QREEAENTLQSFRQDVDNASLARLDLERKVE   73 (86)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            45577889999999999999999999999999988766543        4566666666666655553   556666666


Q ss_pred             HHhhhh
Q 032236           95 DVTASL  100 (144)
Q Consensus        95 ~~ta~L  100 (144)
                      +++.-|
T Consensus        74 sL~eEl   79 (86)
T 3swk_A           74 SLQEEI   79 (86)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655444

>2nrj_A HBL B protein; enterotoxin, hemolysis, transmembrane, structural genomics, PSI-2, protein structure initiative; 2.03A {Bacillus cereus} SCOP: h.4.4.2

Probab=90.16  E-value=1.1  Score=37.18  Aligned_cols=72  Identities=14%  Similarity=0.224  Sum_probs=56.5

Q ss_pred             hhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH---HHHHHHHHHHHHHHHHHhH
Q 032236           22 GSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVE---VEQLRSEFQELRSTLQQQQ   93 (144)
Q Consensus        22 ~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsE---VeqLRsEfqeLRttLqqQ~   93 (144)
                      -+.|..|...=...-..++.+..+|.++|.+|...+.+...-...|...|+++   +++|+.++..++..++...
T Consensus       122 ~~~L~~L~~~i~~~q~~~~~~~~~L~~F~~~l~~d~~~f~~~~~~l~~~L~~~~~~I~~Lq~eI~~l~~~I~~~~  196 (346)
T 2nrj_A          122 KEGITDLRGEIQQNQKYAQQLIEELTKLRDSIGHDVRAFGSNKELLQSILKNQGADVDADQKRLEEVLGSVNYYK  196 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTGGGCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHhHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHH
Confidence            34566677777777788889999999999999999888888888888777765   6688888888887776333

>3kqg_A Langerin, C-type lectin domain family 4 member K; trimer, NECK and CRD, coiled coil, immune system; 2.30A {Homo sapiens}

Probab=89.98  E-value=0.47  Score=33.56  Aligned_cols=44  Identities=20%  Similarity=0.416  Sum_probs=24.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHH
Q 032236           51 SKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDD   95 (144)
Q Consensus        51 skLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~   95 (144)
                      ++|.++|..-+.+|..+ ..|+..|++|++++..|+..|++|...
T Consensus         2 ~~l~~~~~~l~~~~~~~-~~l~~~~~~l~~~l~~~~~~l~~~~~~   45 (182)
T 3kqg_A            2 STLNAQIPELKSDLEKA-SALNTKIRALQGSLENMSKLLKRQNDI   45 (182)
T ss_dssp             -----------CHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666655544 467888888888888888888876553

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

Probab=89.96  E-value=2.3  Score=30.88  Aligned_cols=45  Identities=27%  Similarity=0.451  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhhh
Q 032236           55 TQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASL  100 (144)
Q Consensus        55 tQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L  100 (144)
                      .+++.+..|+..|+..|..| ..+|.+...-++.|.++++++|++|
T Consensus        19 ~~~~~~~~e~~~L~~~l~eE-~~~R~~aE~~~~~ie~ElEeLTasL   63 (97)
T 2eqb_B           19 RELSDRDDEVKRLREDIAKE-NELRTKAEEEADKLNKEVEDLTASL   63 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444556666666666544 3456677777777777777777776

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

Probab=89.95  E-value=4.4  Score=31.57  Aligned_cols=65  Identities=11%  Similarity=0.143  Sum_probs=44.4

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRST   88 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRtt   88 (144)
                      -...+|..|.+.--+++.++..++..+....    ..+..-+.+|..++..+..++..++.+...++..
T Consensus       101 ~~~~~i~~lE~eile~~e~ie~~~~~l~~~~----~~l~~~~~~l~~~~~~~~~~~~e~~~e~~~l~~~  165 (256)
T 3na7_A          101 IAKERSNQANREIENLQNEIKRKSEKQEDLK----KEMLELEKLALELESLVENEVKNIKETQQIIFKK  165 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677777777788888888877776544    4455666777777777777777777666655433

>2a3d_A Protein (de novo three-helix bundle); NMR {Synthetic construct} SCOP: k.9.1.1

Probab=89.93  E-value=0.32  Score=33.94  Aligned_cols=61  Identities=31%  Similarity=0.430  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHh------hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 032236           31 SRAELLNRIQGLKQDLQNWRS------KLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        31 Sr~ELL~Rvq~LK~DLq~WRs------kLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqq   91 (144)
                      |-.|.-+|+..+|..||.--+      -.+..+-.|..||.-.|-.=|-|||.||.|-..+|..||-
T Consensus         3 swaefkqrlaaiktrlqalggseaelaafekeiaafeselqaykgkgnpevealrkeaaairdelqa   69 (73)
T 2a3d_A            3 SWAEFKQRLAAIKTRLQALGGSEAELAAFEKEIAAFESELQAYKGKGNPEVEALRKEAAAIRDELQA   69 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSGGGTHHHHHHHHHHHHHHHHHSSSCCSSTTTHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHH
Confidence            445677888888888876543      2455666777777777777899999999999999998874

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

Probab=89.92  E-value=2  Score=30.05  Aligned_cols=32  Identities=22%  Similarity=0.438  Sum_probs=27.3

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHh
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRS   51 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRs   51 (144)
                      -+..|++++...-.+|=.||++|+.+|++=|+
T Consensus        10 ~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~   41 (79)
T 3cvf_A           10 ETQQKVQDLETRNAELEHQLRAMERSLEEARA   41 (79)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            35678999999999999999999999987654

>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=89.61  E-value=4.8  Score=31.04  Aligned_cols=47  Identities=28%  Similarity=0.442  Sum_probs=34.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhhh
Q 032236           53 LDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASL  100 (144)
Q Consensus        53 LDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L  100 (144)
                      |...++.+..|+..|...|..|- .+|.+...-++.|.+++|++|++|
T Consensus        49 l~~~~~~~~~e~~~L~~~l~~E~-~~R~~aE~~~~~ie~ElEeLTasL   95 (154)
T 2ocy_A           49 LKRELSDRDDEVKRLREDIAKEN-ELRTKAEEEADKLNKEVEDLTASL   95 (154)
T ss_dssp             HHTHHHHHHHHHHHHHHHHHHHH-HHHHHHHTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566677777777777776553 467777778888888888888887

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

Probab=89.20  E-value=4.2  Score=28.34  Aligned_cols=21  Identities=33%  Similarity=0.585  Sum_probs=17.1

Q ss_pred             HHhHhHHhHHHHHHHHHHHHH
Q 032236           24 KIAELNESRAELLNRIQGLKQ   44 (144)
Q Consensus        24 ki~ELneSr~ELL~Rvq~LK~   44 (144)
                      .|+.||+-=.-.|.||+.|-+
T Consensus        10 ~mq~LNdRlAsyIdKVR~LEq   30 (93)
T 3s4r_A           10 ELQELNDRFANLIDKVRFLEQ   30 (93)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            578888888888899988765

>3cl3_D NF-kappa-B essential modulator; death effector domain, coiled-coil, coiled coil, cytoplasm, disease mutation, ectodermal dysplasia; 3.20A {Homo sapiens}

Probab=89.19  E-value=0.36  Score=37.01  Aligned_cols=76  Identities=22%  Similarity=0.305  Sum_probs=25.6

Q ss_pred             hhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHh
Q 032236           21 VGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVT   97 (144)
Q Consensus        21 i~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~t   97 (144)
                      +-+-++||++|++.| +---..|+-|++=--.+.-++.....|+.++|..+...|.+|+=..+-|.++|+=++-.++
T Consensus         4 vtSL~~ELqEsqskL-~~Ae~~k~~Leek~~~~e~~~~~~~~Elee~kqq~~~~~d~L~lQ~esmeaalkmEr~~~~   79 (130)
T 3cl3_D            4 ASGSLGELQESQSRL-EAATKECQALEGRARAASEQARQLESEREALQQQHSVQVDQLRMQGQSVEAALRMERQAAS   79 (130)
T ss_dssp             ------------------------------------------------CTTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345678999998875 3445567777776566777788888899999999999999999999999999987776555

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

Probab=89.18  E-value=2.7  Score=28.98  Aligned_cols=33  Identities=18%  Similarity=0.273  Sum_probs=27.7

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhh
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSK   52 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRsk   52 (144)
                      -+..|++++..--.+|=.||++|+++|.+=+++
T Consensus         4 ~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~   36 (72)
T 3cve_A            4 NSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSE   36 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            357889999999999999999999999876543

>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A

Probab=89.18  E-value=2.7  Score=31.46  Aligned_cols=48  Identities=15%  Similarity=0.410  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHH----HHHHHHhhHHHHHHHHH----HHHHHHHHHHhHHHHhhhhh
Q 032236           54 DTQVKIYRDEL----TDMKKTLSVEVEQLRSE----FQELRSTLQQQQDDVTASLR  101 (144)
Q Consensus        54 DtQVKtYr~EL----~dLK~~LnsEVeqLRsE----fqeLRttLqqQ~e~~ta~L~  101 (144)
                      ...+..||..|    .+|++.++..|++||.-    .++||+.|.+.++.+.++|.
T Consensus       110 ~~~~e~lr~~l~Py~~el~~~~~~~~e~Lr~~L~p~~e~lr~~l~~~~e~lk~~l~  165 (185)
T 3r2p_A          110 QEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLA  165 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33444444443    35666677777766643    56788888888888777764

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

Probab=88.73  E-value=2.1  Score=27.66  Aligned_cols=43  Identities=16%  Similarity=0.339  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 032236           37 NRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRS   80 (144)
Q Consensus        37 ~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRs   80 (144)
                      ..|..|..+|+.=|..+..|...| .+|-+.|.+|..||..-|.
T Consensus         7 ~~i~~le~el~~~r~e~~~q~~eY-q~LlniK~~Le~EIatYRk   49 (59)
T 1gk6_A            7 DKVEELLSKNYHLENEVARLKKLV-GDLLNVKMALDIEIATYRK   49 (59)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhHHHHHHHHH
Confidence            456677788888888888999999 5788899999999877664

>2xv5_A Lamin-A/C; structural protein, intermediate filaments, nuclear membrane LEFT-handed coiled coil, right-handed coiled coil; HET: MSE; 2.40A {Homo sapiens}

Probab=88.48  E-value=3.6  Score=28.01  Aligned_cols=48  Identities=23%  Similarity=0.431  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 032236           32 RAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRS   80 (144)
Q Consensus        32 r~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRs   80 (144)
                      +..+-..|..|..+|+.=|..+..|...| .+|-++|.+|..||..-|.
T Consensus         7 ~~~~~~~i~~lE~eL~~~r~e~~~ql~EY-q~LlniKl~Le~EIatYRk   54 (74)
T 2xv5_A            7 RDTSRRLLAEKEREMAEMRARMQQQLDEY-QELLDIKLALDMEIHAYRK   54 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence            45555677788899999999999999999 5788999999999977764

>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=88.42  E-value=2.7  Score=31.88  Aligned_cols=38  Identities=34%  Similarity=0.478  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHh---hHHHHHHHHHHHHHHHHHHHhH
Q 032236           56 QVKIYRDELTDMKKTL---SVEVEQLRSEFQELRSTLQQQQ   93 (144)
Q Consensus        56 QVKtYr~EL~dLK~~L---nsEVeqLRsEfqeLRttLqqQ~   93 (144)
                      +|+..++||..|+..|   ..|||+||.+++.+...|....
T Consensus        72 ~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~~~  112 (121)
T 3mq7_A           72 KVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIADKK  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhHhhhcc
Confidence            4666666666666554   3577777777777766665443

>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C

Probab=88.27  E-value=2.3  Score=29.49  Aligned_cols=47  Identities=13%  Similarity=0.439  Sum_probs=27.4

Q ss_pred             HhHhHHhHHHHHHHHHHHHHHHHHH------HhhhHHHHHHHHHHHHH-HHHHh
Q 032236           25 IAELNESRAELLNRIQGLKQDLQNW------RSKLDTQVKIYRDELTD-MKKTL   71 (144)
Q Consensus        25 i~ELneSr~ELL~Rvq~LK~DLq~W------RskLDtQVKtYr~EL~d-LK~~L   71 (144)
                      |.+....-.|...=|..|--++++-      |.++.+.|+.|+.+|.. ||..|
T Consensus        36 i~~ie~~ldEA~ell~qMelE~~~~~~p~~~R~~~~~klr~Yk~dl~~~lk~~l   89 (97)
T 3onj_A           36 LKHVEQQQDELFDLLDQMDVEVNNSIGDASERATYKAKLREWKKTIQSDIKRPL   89 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444445555555554      77777788888777766 66544

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=87.83  E-value=6.5  Score=28.87  Aligned_cols=66  Identities=21%  Similarity=0.278  Sum_probs=40.3

Q ss_pred             chhhHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH---HhhHHHHHHHHHHHHH
Q 032236           20 PVGSKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKK---TLSVEVEQLRSEFQEL   85 (144)
Q Consensus        20 pi~~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~---~LnsEVeqLRsEfqeL   85 (144)
                      +-+..|..|.--=..|-..+..+|.+-|.|-..|..||..-..||..-+.   ..-.|.++||.+..++
T Consensus        12 ~rD~~Ie~Lkreie~lk~ele~l~~E~q~~v~ql~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~l   80 (120)
T 3i00_A           12 EKDHLIERLYREISGLKAQLENMKTESQRVVLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDEL   80 (120)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666556666666777777777777777777777777766442   2334555555555544

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

Probab=86.37  E-value=4.2  Score=38.49  Aligned_cols=69  Identities=14%  Similarity=0.228  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHh------hhHHHHHHHHHHHHHHHHHhhH---HHHHHHHHHHHHHHHHHHhHHHHhhhhhhcc
Q 032236           36 LNRIQGLKQDLQNWRS------KLDTQVKIYRDELTDMKKTLSV---EVEQLRSEFQELRSTLQQQQDDVTASLRNLG  104 (144)
Q Consensus        36 L~Rvq~LK~DLq~WRs------kLDtQVKtYr~EL~dLK~~Lns---EVeqLRsEfqeLRttLqqQ~e~~ta~L~nL~  104 (144)
                      ...+..||+|+..=..      .+..+|+....|+..|++.+..   |.+.|....++++..|++....+......|.
T Consensus       959 ~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~~L~~kv~~L~~e~~~L~ 1036 (1080)
T 2dfs_A          959 STETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLK 1036 (1080)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555444332      3445666666666666654432   3344444444444444444433333333333

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

Probab=85.95  E-value=1.5  Score=30.97  Aligned_cols=30  Identities=17%  Similarity=0.226  Sum_probs=17.8

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Q 032236           63 ELTDMKKTLSVEVEQLRSEFQELRSTLQQQ   92 (144)
Q Consensus        63 EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ   92 (144)
                      |+..=+..|..|.++|+.|-.....+|+.=
T Consensus        45 e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A           45 NAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445556667777776666666665543

>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A

Probab=85.83  E-value=9.1  Score=28.51  Aligned_cols=28  Identities=29%  Similarity=0.528  Sum_probs=11.9

Q ss_pred             HHHHhhHHHHHHHHHH----HHHHHHHHHhHH
Q 032236           67 MKKTLSVEVEQLRSEF----QELRSTLQQQQD   94 (144)
Q Consensus        67 LK~~LnsEVeqLRsEf----qeLRttLqqQ~e   94 (144)
                      ++..|..-|+.||.-|    .++|+.|.+.++
T Consensus       149 lr~~l~~~~e~lk~~l~Py~ee~k~kl~~~le  180 (185)
T 3r2p_A          149 MRDRARAHVDALRTHLAPYSDELRQRLAARLE  180 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3444444444444442    344444444443

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=85.30  E-value=3.7  Score=28.74  Aligned_cols=33  Identities=15%  Similarity=0.566  Sum_probs=21.8

Q ss_pred             HHHHHHHHHH----HHhhhHHHHHHHHHHHHHHHHHh
Q 032236           39 IQGLKQDLQN----WRSKLDTQVKIYRDELTDMKKTL   71 (144)
Q Consensus        39 vq~LK~DLq~----WRskLDtQVKtYr~EL~dLK~~L   71 (144)
                      |+.|--++++    -|+++.+.|+.||.+|..||.-|
T Consensus        65 l~qMelE~r~~p~s~R~~~~~klr~Yk~dL~~lk~el  101 (102)
T 2qyw_A           65 LAEMEEELRYAPLTFRNPMMSKLRNYRKDLAKLHREV  101 (102)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3444444443    67888888888888887776544

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=85.06  E-value=3.8  Score=27.75  Aligned_cols=41  Identities=24%  Similarity=0.553  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH
Q 032236           38 RIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLR   79 (144)
Q Consensus        38 Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLR   79 (144)
                      .|..|..+|+.=|..+..|...| .+|-+.|.+|..||..-|
T Consensus        34 ~i~~lE~eL~~~r~e~~~q~~EY-q~LlnvK~~Ld~EIatYR   74 (84)
T 1gk4_A           34 TIGRLQDEIQNMKEEMARHLREY-QDLLNVKMALDIEIATYR   74 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHHHHHHHH
Confidence            33444455555555555555555 344455555555554433

>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=84.76  E-value=4.5  Score=33.53  Aligned_cols=33  Identities=27%  Similarity=0.325  Sum_probs=13.0

Q ss_pred             HHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHH
Q 032236           24 KIAELNESRAELLNRIQGLKQDLQNWRSKLDTQ   56 (144)
Q Consensus        24 ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQ   56 (144)
                      .+.++...-..|-.++....+.++.=+.+++..
T Consensus       457 e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~  489 (597)
T 3oja_B          457 EVNELRAEVQQLTNEQIQQEQLLQGLHAEIDTN  489 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            344443333333333333333444434444333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=84.17  E-value=3.8  Score=29.35  Aligned_cols=16  Identities=19%  Similarity=0.295  Sum_probs=6.8

Q ss_pred             hhhHHHHHHHHHHHHH
Q 032236           51 SKLDTQVKIYRDELTD   66 (144)
Q Consensus        51 skLDtQVKtYr~EL~d   66 (144)
                      ...+.+++.|+.-|+.
T Consensus        71 ~~~~~~l~~~q~~i~~   86 (129)
T 3tnu_B           71 QRGELALKDARNKLAE   86 (129)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3334444444444443

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=83.64  E-value=4  Score=29.33  Aligned_cols=32  Identities=9%  Similarity=0.184  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 032236           37 NRIQGLKQDLQNWRSKLDTQVKIYRDELTDMK   68 (144)
Q Consensus        37 ~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK   68 (144)
                      +...+|..-|.+-....+.+++.|+.-|+.|.
T Consensus        59 ~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE   90 (131)
T 3tnu_A           59 SMKASLENSLEETKGRYCMQLAQIQEMIGSVE   90 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444555555566655555443

>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=83.20  E-value=8.7  Score=26.16  Aligned_cols=59  Identities=24%  Similarity=0.444  Sum_probs=39.4

Q ss_pred             hhhHHhHhHHh----HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 032236           21 VGSKIAELNES----RAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRS   80 (144)
Q Consensus        21 i~~ki~ELneS----r~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRs   80 (144)
                      +...|.++...    ...+=..|..|..+|+.=|..+..|...| .+|-++|.+|..||..-|.
T Consensus        15 Le~~l~e~E~~~~~~l~~~q~~i~~lE~el~~~r~e~~~ql~EY-q~LlnvK~~Le~EIatYRk   77 (86)
T 1x8y_A           15 KEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEY-QELLDIKLALDMEIHAYRK   77 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHHHHHHHHH
Confidence            34555554432    22334455667778888888888888888 4677888888888876664

>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A

Probab=82.88  E-value=4.3  Score=31.08  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=13.6

Q ss_pred             HHHHHHHHHhHHHHhhhhhhcc
Q 032236           83 QELRSTLQQQQDDVTASLRNLG  104 (144)
Q Consensus        83 qeLRttLqqQ~e~~ta~L~nL~  104 (144)
                      .+||..+.+.++.+.+.|.-.+
T Consensus       142 eelr~kl~~~~eeLr~~l~P~~  163 (191)
T 1nfn_A          142 RKLRKRLLRDADDLQKRLAVYQ  163 (191)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhHHHH
Confidence            4666666666666666665443

>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription regulation, nucleus, activator, repressor, DNA-binding, phosphoprotein, differentiation; 2.30A {Mus musculus} PDB: 1fos_E* 1a02_F* 1s9k_D

Probab=82.83  E-value=5.4  Score=25.71  Aligned_cols=40  Identities=23%  Similarity=0.307  Sum_probs=29.2

Q ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 032236           47 QNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQ   90 (144)
Q Consensus        47 q~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLq   90 (144)
                      +.|-..|..+|..+..+-    ..|..+|..|+.+...|+..|.
T Consensus        22 k~~~~~Le~~v~~L~~~n----~~L~~ei~~L~~e~~~Lk~~l~   61 (63)
T 2wt7_A           22 RELTDTLQAETDQLEDEK----SALQTEIANLLKEKEKLEFILA   61 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Confidence            457777888887666554    4455678889999988888774

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=82.12  E-value=11  Score=27.75  Aligned_cols=52  Identities=13%  Similarity=0.337  Sum_probs=37.4

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 032236           29 NESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRS   87 (144)
Q Consensus        29 neSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRt   87 (144)
                      .+.|..++   ..||.++..||..|+.=--.++..+..|+..+|    +|..||.+=|.
T Consensus        10 ~d~rD~~I---e~Lkreie~lk~ele~l~~E~q~~v~ql~~~i~----~Le~eL~e~r~   61 (120)
T 3i00_A           10 KDEKDHLI---ERLYREISGLKAQLENMKTESQRVVLQLKGHVS----ELEADLAEQQH   61 (120)
T ss_dssp             CCTHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
T ss_pred             CCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence            34556554   459999999999988877777777777776544    56666666653

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=81.43  E-value=2.8  Score=26.98  Aligned_cols=29  Identities=28%  Similarity=0.489  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHH---HHHhHHHHhhhhh
Q 032236           73 VEVEQLRSEFQELRST---LQQQQDDVTASLR  101 (144)
Q Consensus        73 sEVeqLRsEfqeLRtt---LqqQ~e~~ta~L~  101 (144)
                      ++|+.||.|..+||..   |+++.+.+.+.|.
T Consensus        19 ~d~eaLk~E~~eLk~k~~~L~~~~~el~~~l~   50 (53)
T 2yy0_A           19 PEIELLRLELAEMKEKYEAIVEENKKLKAKLA   50 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6677777777776653   3344444444443

>3lof_A Heat shock 70 kDa protein 1; structural genomics, HSPA1B, HSP70, PSI-2, prote structure initiative; 2.40A {Homo sapiens} PDB: 2lmg_A

Probab=81.20  E-value=10  Score=25.79  Aligned_cols=68  Identities=15%  Similarity=0.194  Sum_probs=49.5

Q ss_pred             HHhHhHHhHHHHHHHHHHHHHHHHH--HHhhhHH-HHHHHHHHHHHHHHHhhHH----HHHHHHHHHHHHHHHHH
Q 032236           24 KIAELNESRAELLNRIQGLKQDLQN--WRSKLDT-QVKIYRDELTDMKKTLSVE----VEQLRSEFQELRSTLQQ   91 (144)
Q Consensus        24 ki~ELneSr~ELL~Rvq~LK~DLq~--WRskLDt-QVKtYr~EL~dLK~~LnsE----VeqLRsEfqeLRttLqq   91 (144)
                      +..++-+.|.+|=+-|-.+++-|.+  +..+|.. ..+.....|.+++..|...    ++.++.-+.+|......
T Consensus         3 ~~re~ieakN~lEs~iy~~e~~l~e~~~~~kl~~eek~~i~~~i~e~~~wL~~~~~a~~e~i~~k~~eL~~~~~~   77 (113)
T 3lof_A            3 AAAERVSAKNALESYAFNMKSAVEDEGLKGKISEADKKKVLDKCQEVISWLDANTLAEKDEFEHKRKELEQVCNP   77 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCGGGBTTBCHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcchhhhccCCHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHH
Confidence            4566778888888888888888877  8888864 4456788888888888764    66666666666655544

>1mz9_A Cartilage oligomeric matrix protein; pentameric coiled-coil domain, protein binding; HET: VDY; 1.70A {Mus musculus} SCOP: h.1.7.1 PDB: 1vdf_A 1fbm_A

Probab=80.97  E-value=4.6  Score=24.94  Aligned_cols=35  Identities=37%  Similarity=0.469  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 032236           34 ELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLS   72 (144)
Q Consensus        34 ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~Ln   72 (144)
                      .|+.++..++.=++.=|.-+..|||    |++.||++++
T Consensus         6 ~l~~~~~~~~~~~~~~~~~~~qqvk----E~~~lr~ti~   40 (45)
T 1mz9_A            6 QMLRELQETNAALQDVRELLRQQVK----EITFLKNTVM   40 (45)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHhhHHHHHHH----HHHHHHhhHh
Confidence            5788888888888888888999998    7777777654

>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1

Probab=80.46  E-value=6  Score=27.57  Aligned_cols=33  Identities=9%  Similarity=0.371  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHH----HHhhhHHHHHHHHHHHHHHHHH
Q 032236           38 RIQGLKQDLQN----WRSKLDTQVKIYRDELTDMKKT   70 (144)
Q Consensus        38 Rvq~LK~DLq~----WRskLDtQVKtYr~EL~dLK~~   70 (144)
                      =|+.|--++++    -|..+.+.|+.|+.+|..||..
T Consensus        53 ll~qMelE~r~~p~~~R~~~~~klr~Yk~dL~~lk~e   89 (102)
T 1vcs_A           53 LLEQMDLEVREIPPQSRGMYSNRMRSYKQEMGKLETD   89 (102)
T ss_dssp             HHHHHHHHHTTSCTTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445444    5777788888888777655543

---

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	144
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	90.79
d1gs9a_	144	Apolipoprotein E {Human (Homo sapiens), E4 [TaxId:	89.72
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	88.32
d1ivsa1	66	Valyl-tRNA synthetase (ValRS) C-terminal domain {T	87.17
d1vcsa1	89	Vesicle transport v-SNARE protein Vti1-like 2 {Mou	82.03

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

Probab=90.79  E-value=0.5  Score=32.23  Aligned_cols=15  Identities=20%  Similarity=0.273  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHH
Q 032236           34 ELLNRIQGLKQDLQN   48 (144)
Q Consensus        34 ELL~Rvq~LK~DLq~   48 (144)
                      +|=.+|+.+...+..
T Consensus        38 el~~~l~e~~~~l~~   52 (144)
T d1gs9a_          38 ELRALMDETMKELKA   52 (144)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344444444444444

>d1gs9a_ a.24.1.1 (A:) Apolipoprotein E {Human (Homo sapiens), E4 [TaxId: 9606]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Apolipoprotein
family: Apolipoprotein
domain: Apolipoprotein E
species: Human (Homo sapiens), E4 [TaxId: 9606]

Probab=89.72  E-value=0.29  Score=33.49  Aligned_cols=12  Identities=25%  Similarity=0.326  Sum_probs=5.0

Q ss_pred             HHHHhhHHHHHH
Q 032236           67 MKKTLSVEVEQL   78 (144)
Q Consensus        67 LK~~LnsEVeqL   78 (144)
                      ++..|..+++.|
T Consensus        68 ~~~~l~~~~e~l   79 (144)
T d1gs9a_          68 TRARLSKELQAA   79 (144)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHH
Confidence            444444444433

>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=88.32  E-value=2.2  Score=27.73  Aligned_cols=74  Identities=22%  Similarity=0.315  Sum_probs=48.5

Q ss_pred             hHHhHhHHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHhhhhhh
Q 032236           23 SKIAELNESRAELLNRIQGLKQDLQNWRSKLDTQVKIYRDELTDMKKTLSVEVEQLRSEFQELRSTLQQQQDDVTASLRN  102 (144)
Q Consensus        23 ~ki~ELneSr~ELL~Rvq~LK~DLq~WRskLDtQVKtYr~EL~dLK~~LnsEVeqLRsEfqeLRttLqqQ~e~~ta~L~n  102 (144)
                      ..|-+|.+.+.+|...++.|+.+    |..+-.+|.....+   =+..|-.++..|++++++|...++.-.+.+..-+-.
T Consensus        28 d~i~~ld~~rr~l~~~~e~l~~~----rN~~sk~i~k~~~~---~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~ll~  100 (110)
T d1seta1          28 EALLALDREVQELKKRLQEVQTE----RNQVAKRVPKAPPE---EKEALIARGKALGEEAKRLEEALREKEARLEALLLQ  100 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHGGGCCHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhcc---chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            67889999999999988887766    44555555433221   133455677777777777777766655555554443


Q ss_pred             c
Q 032236          103 L  103 (144)
Q Consensus       103 L  103 (144)
                      +
T Consensus       101 i  101 (110)
T d1seta1         101 V  101 (110)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1ivsa1 a.2.7.3 (A:797-862) Valyl-tRNA synthetase (ValRS) C-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Valyl-tRNA synthetase (ValRS) C-terminal domain
domain: Valyl-tRNA synthetase (ValRS) C-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.17  E-value=0.72  Score=28.20  Aligned_cols=60  Identities=13%  Similarity=0.276  Sum_probs=43.2

Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHhhHH--H----HHHHHHHHHHHHHHHHhHHHHhhhhhhcc
Q 032236           45 DLQNWRSKLDTQVKIYRDELTDMKKTLSVE--V----EQLRSEFQELRSTLQQQQDDVTASLRNLG  104 (144)
Q Consensus        45 DLq~WRskLDtQVKtYr~EL~dLK~~LnsE--V----eqLRsEfqeLRttLqqQ~e~~ta~L~nL~  104 (144)
                      |+..|+.+|.-....+..++..+.+.|+.+  |    +.+..+-.+-...++.+.+.+...|..||
T Consensus         1 D~~~E~~RL~K~l~kl~~~i~~~~~kL~N~~F~~kAP~~Vv~~~k~kl~~~~~~~~~l~~~l~~Lg   66 (66)
T d1ivsa1           1 DVEEWRRRQEKRLKELLALAERSQRKLASPGFREKAPKEVVEAEEARLKENLEQAERIREALSQIG   66 (66)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTHHHHSCTTHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHCChHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            577899999999999999999999999854  1    11223334444555666677777777776

>d1vcsa1 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protein Vti1-like 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Vesicle transport v-SNARE protein Vti1-like 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.03  E-value=2.1  Score=28.03  Aligned_cols=50  Identities=10%  Similarity=0.306  Sum_probs=34.7

Q ss_pred             hhHHhHhHHhHHHHHHHHHHHHHHHHH----HHhhhHHHHHHHHHHHHHHHHHh
Q 032236           22 GSKIAELNESRAELLNRIQGLKQDLQN----WRSKLDTQVKIYRDELTDMKKTL   71 (144)
Q Consensus        22 ~~ki~ELneSr~ELL~Rvq~LK~DLq~----WRskLDtQVKtYr~EL~dLK~~L   71 (144)
                      .+.|.+....-.|.-.=|+.|-.++++    -|+.+.+.++.|+.+|..||+-|
T Consensus        30 k~~l~~ie~~leEA~ell~qMelEvr~~p~s~R~~~~~klr~Yk~dl~~lk~el   83 (89)
T d1vcsa1          30 KQMVANVEKQLEEARELLEQMDLEVREIPPQSRGMYSNRMRSYKQEMGKLETDF   83 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTTHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555556666666654    68999999999998888877654