Citrus Sinensis ID: 030034

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
Protein Sequence
MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
maarnhisrhpdsargfrdgprpvltrglapmhfhpmtlEEEIEIQRREMHRIISenrhaiddnTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Flexible Loop (DISEMBL)
maarnhisrhpdsargfrdgprPVLTRglapmhfhpmTLEEEIEIQRREMHRIISEnrhaiddntHLQRELTASKDEIHRLGQIipklradkeaHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVqklnssrqelttqikgltkdvnRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Low Complexity Region (SEG)
MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Disordered region (IsUnstruct)
*********************************F*******************************************IHRLGQIIPKLR*******RELFDRGLKLEVEL*********VV**************************V*RLEAENKQLIAMRADIDGIRSELVEARFEIRYFL*
Disordered Region (DISOPRED)
**************************************************************************************************************************************************************************ELVEARFEIRYFLG
Disordered Region (DISEMBL)
***************GFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Disordered Region (DISPRO)
******************DGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFLG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRADIDGIRSELVEARFEIRYFLG
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
225423975	265	PREDICTED: uncharacterized protein LOC10	0.983	0.683	0.662	7e-65
449446201	261	PREDICTED: uncharacterized protein LOC10	0.983	0.693	0.624	2e-54
307136246	175	hypothetical protein [Cucumis melo subsp	0.951	1.0	0.634	6e-53
358344687	283	hypothetical protein MTR_040s0047 [Medic	0.967	0.628	0.470	2e-38
357454679	271	hypothetical protein MTR_2g100240 [Medic	0.902	0.612	0.485	3e-37
388505844	212	unknown [Medicago truncatula]	0.967	0.839	0.460	7e-37
363806838	285	uncharacterized protein LOC100787621 [Gl	0.782	0.505	0.513	5e-35
356556722	286	PREDICTED: uncharacterized protein LOC10	0.782	0.503	0.513	6e-35
359482838	282	PREDICTED: uncharacterized protein LOC10	0.978	0.638	0.448	2e-33
147810266	279	hypothetical protein VITISV_027853 [Viti	0.978	0.645	0.448	2e-33

>gi|225423975|ref|XP_002282562.1| PREDICTED: uncharacterized protein LOC100242187 isoform 1 [Vitis vinifera] gi|147801663|emb|CAN76874.1| hypothetical protein VITISV_007099 [Vitis vinifera] gi|297737820|emb|CBI27021.3| unnamed protein product [Vitis vinifera]

 Score =  251 bits (642), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 120/181 (66%), Positives = 146/181 (80%)

Query: 1   MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHA 60
           MA RN + R+P+  RGFRDGP PVL RG  P+  HP+ +EEE+E+Q RE+ RI++ENRH 
Sbjct: 1   MAGRNRMPRNPNGFRGFRDGPPPVLNRGPGPLPLHPVAMEEELELQHRELQRIVAENRHV 60

Query: 61  IDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEV 120
           IDDNT LQ EL A+KD+IHRLGQIIPKLRAD+E   REL DRGLKLE +LRA EP+R EV
Sbjct: 61  IDDNTMLQSELAAAKDDIHRLGQIIPKLRADREVQARELIDRGLKLEADLRAVEPLRTEV 120

Query: 121 VQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR 180
           +QLRAE QKLN+SRQ+L+ Q++GLT+DV RL+AEN+QLIAMRADID +R EL EAR    
Sbjct: 121 IQLRAEAQKLNASRQDLSAQVQGLTQDVARLQAENQQLIAMRADIDRMRKELAEARRAFE 180

Query: 181 Y 181
           Y
Sbjct: 181 Y 181

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446201|ref|XP_004140860.1| PREDICTED: uncharacterized protein LOC101218774 [Cucumis sativus] gi|449512724|ref|XP_004164125.1| PREDICTED: uncharacterized protein LOC101226085 [Cucumis sativus]

 Score =  217 bits (552), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 113/181 (62%), Positives = 144/181 (79%)

Query: 1   MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHA 60
           MA RN  SRH D  R  RD PR  + R  AP+  HP  LEEE+E+QRREM RIIS+NR  
Sbjct: 1   MAGRNRSSRHIDGYRVSRDVPRSYIERVPAPLPIHPAALEEELELQRREMQRIISDNRMV 60

Query: 61  IDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEV 120
           IDDNT LQREL+A+K+EIHRL Q+IPK+ ++KE+ +REL +RGLKLE ELRASEP+++EV
Sbjct: 61  IDDNTVLQRELSAAKEEIHRLNQVIPKIVSEKESQSRELLERGLKLEAELRASEPLKSEV 120

Query: 121 VQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR 180
           +QLRAE+QKLN+ RQ+L+ Q++ LTKDVNRL+AEN+QL +MRAD+DG+  EL+EAR    
Sbjct: 121 LQLRAEIQKLNTLRQDLSAQVQSLTKDVNRLQAENQQLNSMRADMDGLHKELIEARRAYE 180

Query: 181 Y 181
           Y
Sbjct: 181 Y 181

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136246|gb|ADN34079.1| hypothetical protein [Cucumis melo subsp. melo]

 Score =  212 bits (539), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 111/175 (63%), Positives = 141/175 (80%)

Query: 1   MAARNHISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHA 60
           MA RN  SRH D  R  RD PR  + R  AP+  HP  LEEE+E+QRREM RIIS+NR  
Sbjct: 1   MAGRNRSSRHIDGYRVSRDVPRSYIERVPAPLPIHPAALEEELELQRREMQRIISDNRMV 60

Query: 61  IDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEV 120
           IDDNT LQREL+A+K+EIHRL Q+IPK+ ++KE+ +REL +RGLKLE ELRASEP+++EV
Sbjct: 61  IDDNTVLQRELSAAKEEIHRLNQVIPKIVSEKESQSRELLERGLKLEAELRASEPLKSEV 120

Query: 121 VQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEA 175
           +QLRAE+QKLN+ RQ+L+ Q++ LTKDV RL+AEN+QL +MRADIDG+  EL+EA
Sbjct: 121 LQLRAEIQKLNTLRQDLSAQVQSLTKDVTRLQAENQQLNSMRADIDGLHKELIEA 175

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344687|ref|XP_003636419.1| hypothetical protein MTR_040s0047 [Medicago truncatula] gi|355502354|gb|AES83557.1| hypothetical protein MTR_040s0047 [Medicago truncatula]

 Score =  164 bits (414), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 89/189 (47%), Positives = 133/189 (70%), Gaps = 11/189 (5%)

Query: 1   MAARNHISRHP--DSARGF-RDGPRPVLTRGLAPM---HF--HPMTLEEEIEIQRREMHR 52
           M +R+ + R P   S RG+  +GP     RG  PM   H   HP  LEEE+E+Q  EM R
Sbjct: 1   MGSRHRVHREPPMSSRRGYPSEGP---YARGPPPMPRQHIPPHPALLEEELEVQHAEMRR 57

Query: 53  IISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRA 112
           ++++NR  IDD   LQR+L A+K+E+HR+   I  +RA+ E H+REL D+ +KLE +LR+
Sbjct: 58  LVADNRRLIDDRMTLQRDLAAAKEELHRMNLAIGDIRAEHEMHSRELVDKNMKLESDLRS 117

Query: 113 SEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSEL 172
           +EP++ EV+QLRAEVQKL+S +QEL+ +++ LTKDV RL+++N+Q+ +MR++IDG+  EL
Sbjct: 118 TEPLKNEVIQLRAEVQKLSSIKQELSGKVQTLTKDVARLQSDNQQIPSMRSEIDGLHQEL 177

Query: 173 VEARFEIRY 181
           + AR  + Y
Sbjct: 178 MRARTMVDY 186

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454679|ref|XP_003597620.1| hypothetical protein MTR_2g100240 [Medicago truncatula] gi|124360403|gb|ABN08416.1| Protein kinase PKN/PRK1, effector [Medicago truncatula] gi|355486668|gb|AES67871.1| hypothetical protein MTR_2g100240 [Medicago truncatula]

 Score =  160 bits (404), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 85/175 (48%), Positives = 126/175 (72%), Gaps = 9/175 (5%)

Query: 13  SARGF-RDGPRPVLTRGLAPM---HF--HPMTLEEEIEIQRREMHRIISENRHAIDDNTH 66
           S RG+  +GP     RG  PM   H   HP  LEEE+E+Q  EM R++++NR  IDD   
Sbjct: 3   SRRGYPSEGP---YARGPPPMPRQHIPPHPALLEEELEVQHAEMRRLVADNRRLIDDRMT 59

Query: 67  LQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAE 126
           LQR+L A+K+E+HR+   I  +RA+ E H+REL D+ +KLE +LR++EP++ EV+QLRAE
Sbjct: 60  LQRDLAAAKEELHRMNLAIGDIRAEHEMHSRELVDKNMKLESDLRSTEPLKNEVIQLRAE 119

Query: 127 VQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY 181
           VQKL+S +QEL+ +++ LTKDV RL+++N+Q+ +MR++IDG+  EL+ AR  + Y
Sbjct: 120 VQKLSSIKQELSGKVQTLTKDVARLQSDNQQIPSMRSEIDGLHQELMRARTMVDY 174

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388505844|gb|AFK40988.1| unknown [Medicago truncatula]

 Score =  159 bits (401), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 87/189 (46%), Positives = 132/189 (69%), Gaps = 11/189 (5%)

Query: 1   MAARNHISRHP--DSARGF-RDGPRPVLTRGLAPM---HF--HPMTLEEEIEIQRREMHR 52
           M +R+ +   P   S RG+  +GP     RG  PM   H   HP  LEEE+E+Q  EM R
Sbjct: 1   MGSRHRVHGEPPMSSRRGYPSEGP---YARGPPPMPRQHIPPHPALLEEELEVQHAEMRR 57

Query: 53  IISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRA 112
           ++++NR  IDD   LQR+L A+K+E+HR+   I  +RA+ E H+REL D+ +KLE +LR+
Sbjct: 58  LVADNRRLIDDRMTLQRDLAAAKEELHRMNLAIGDIRAEHEMHSRELVDKNMKLESDLRS 117

Query: 113 SEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSEL 172
           +EP++ EV+QLRAEVQKL+S +QEL+ +++ LTKDV RL+++++Q+ +MR++IDG+  EL
Sbjct: 118 TEPLKNEVIQLRAEVQKLSSIKQELSGKVQTLTKDVARLQSDDQQIPSMRSEIDGLHQEL 177

Query: 173 VEARFEIRY 181
           + AR  + Y
Sbjct: 178 MRARTMVDY 186

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363806838|ref|NP_001242546.1| uncharacterized protein LOC100787621 [Glycine max] gi|255645257|gb|ACU23126.1| unknown [Glycine max]

 Score =  152 bits (384), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 74/144 (51%), Positives = 112/144 (77%)

Query: 38  TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTR 97
            LEEE+E Q  EM R++++NR  IDD   LQR+L A+K+E+HR+   I  +RA+ EAH+R
Sbjct: 43  VLEEELEFQHAEMRRLVADNRRLIDDRMALQRDLGAAKEELHRMNLAIGDIRAEHEAHSR 102

Query: 98  ELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ 157
           EL ++G+K+E +LRA+EP++ EV+QLR+EV+KLN+ +QELT +++ LT+DV RL+A+N+Q
Sbjct: 103 ELVEKGMKMEADLRANEPLKNEVMQLRSEVKKLNNLKQELTGKVQTLTQDVARLQADNQQ 162

Query: 158 LIAMRADIDGIRSELVEARFEIRY 181
           +  MRA+IDG+  EL+ AR  + Y
Sbjct: 163 IPMMRAEIDGLHQELMRARTMVDY 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556722|ref|XP_003546672.1| PREDICTED: uncharacterized protein LOC100809038 [Glycine max]

 Score =  152 bits (384), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 74/144 (51%), Positives = 111/144 (77%)

Query: 38  TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTR 97
            LEEE+E Q  EM R++++NR  IDD   LQR+L A+K+E+HR+   I  +RA+ EAH+R
Sbjct: 43  VLEEELEFQHAEMRRLVADNRRLIDDRMALQRDLGAAKEELHRMNLAIGDIRAEHEAHSR 102

Query: 98  ELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ 157
           EL ++G+K+E +LRA+EP++ EV+QLR+EV+KLN+ +QELT +++ LT+DV RL+A+N+Q
Sbjct: 103 ELVEKGMKMEADLRANEPLKNEVMQLRSEVKKLNNLKQELTGKVQTLTQDVARLQADNQQ 162

Query: 158 LIAMRADIDGIRSELVEARFEIRY 181
           +  MRA IDG+  EL+ AR  + Y
Sbjct: 163 IPMMRAKIDGLHQELMHARTMVDY 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482838|ref|XP_002278937.2| PREDICTED: uncharacterized protein LOC100253153 [Vitis vinifera] gi|297743072|emb|CBI35939.3| unnamed protein product [Vitis vinifera]

 Score =  147 bits (371), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 82/183 (44%), Positives = 120/183 (65%), Gaps = 3/183 (1%)

Query: 1   MAARNHISRHP-DSARGFR-DGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENR 58
           MA RN   R   D  RGF  +GP               M LEEE E+Q  EM R+  ENR
Sbjct: 1   MAGRNRFPRDAFDGRRGFPPEGPFLRGPPLPRLPPHPAM-LEEEFEMQHAEMRRLFGENR 59

Query: 59  HAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRA 118
             ++D   LQ+EL  +K+E+HR+   I  +RA++E H+REL ++GLKLE +LRA+EP++ 
Sbjct: 60  RLVEDRMALQQELGVAKEELHRMNLAIGDIRAEQELHSRELIEKGLKLEADLRATEPLKN 119

Query: 119 EVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFE 178
           E VQLR+E+QKLN+ RQ+L  Q++ L+++V RL+A+NKQ+  +RA+I+G+  EL+ AR  
Sbjct: 120 EAVQLRSEIQKLNNIRQDLAGQVQNLSQEVARLQADNKQIPLLRAEIEGLHQELMRARTA 179

Query: 179 IRY 181
           + Y
Sbjct: 180 VDY 182

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147810266|emb|CAN71449.1| hypothetical protein VITISV_027853 [Vitis vinifera]

 Score =  147 bits (371), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 82/183 (44%), Positives = 120/183 (65%), Gaps = 3/183 (1%)

Query: 1   MAARNHISRHP-DSARGFR-DGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENR 58
           MA RN   R   D  RGF  +GP               M LEEE E+Q  EM R+  ENR
Sbjct: 1   MAGRNRFPRDAFDGRRGFPPEGPFLRGPPLPRLPPHPAM-LEEEFEMQHAEMRRLFGENR 59

Query: 59  HAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRA 118
             ++D   LQ+EL  +K+E+HR+   I  +RA++E H+REL ++GLKLE +LRA+EP++ 
Sbjct: 60  RLVEDRMALQQELGVAKEELHRMNLAIGDIRAEQELHSRELIEKGLKLEADLRATEPLKN 119

Query: 119 EVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFE 178
           E VQLR+E+QKLN+ RQ+L  Q++ L+++V RL+A+NKQ+  +RA+I+G+  EL+ AR  
Sbjct: 120 EAVQLRSEIQKLNNIRQDLAGQVQNLSQEVARLQADNKQIPLLRAEIEGLHQELMRARTA 179

Query: 179 IRY 181
           + Y
Sbjct: 180 VDY 182

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
TAIR|locus:2035751	283	AT1G55170 "AT1G55170" [Arabido	0.978	0.636	0.397	2.2e-27
TAIR|locus:2089616	331	AT3G14750 "AT3G14750" [Arabido	0.918	0.510	0.319	3.4e-22
TAIR|locus:2060848	288	AT2G30120 [Arabidopsis thalian	0.75	0.479	0.304	1.8e-16
TAIR|locus:2033681	359	AT1G67170 "AT1G67170" [Arabido	0.929	0.476	0.274	7.6e-15
TAIR|locus:2156146	238	AT5G61920 "AT5G61920" [Arabido	0.902	0.697	0.263	7.4e-11
MGI|MGI:2388267	507	Ccdc64b "coiled-coil domain co	0.831	0.301	0.279	8.6e-07
RGD|1306729	507	Ccdc64b "coiled-coil domain co	0.826	0.299	0.283	2.8e-06
UNIPROTKB|Q3A9A0	155	CHY_2490 "Conserved domain pro	0.353	0.419	0.323	8.3e-06
TIGR_CMR|CHY_2490	155	CHY_2490 "conserved domain pro	0.353	0.419	0.323	8.3e-06
RGD|1560960	709	Hook3 "hook homolog 3 (Drosoph	0.934	0.242	0.265	1.9e-05

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

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 76/191 (39%), Positives = 117/191 (61%)

Query:     1 MAARNHISRH-PDSARGFRDGP--RPVLTRGLAPMHFHPMTLEEEIEIQ----RR---EM 50
             M+ RN I R   DS    RD P  RP L RG   +   P +L E+++IQ    RR   E+
Sbjct:     1 MSGRNRIHRDIRDSYHDHRDLPPERPFL-RGPPLLQPPPPSLLEDLQIQEGEIRRQDAEI 59

Query:    51 HRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVEL 110
              R++S+N    DD   L+REL A+K+E+HR+  +I  LRA+++   RE  ++  KLE ++
Sbjct:    60 RRLLSDNHGLADDRMVLERELVAAKEELHRMNLMISDLRAEQDLQLREFSEKRHKLEGDV 119

Query:   111 RASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRS 170
             RA E  + E  QLR EVQKL+  ++EL+  ++ L KD+ +L+++NKQ+  MRA++  ++ 
Sbjct:   120 RAMESYKKEASQLRGEVQKLDEIKRELSGNVQLLRKDLAKLQSDNKQIPGMRAEVKDLQK 179

Query:   171 ELVEARFEIRY 181
             EL+ AR  I Y
Sbjct:   180 ELMHARDAIEY 190

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 55/172 (31%), Positives = 102/172 (59%)

Query:    10 HPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQR 69
             HP      R+    V  RGL P       LE+ +  Q +++  ++++N+     +  L++
Sbjct:    44 HPSMIDDSREPQFRVDARGLPPQF---SILEDRLAAQNQDVQGLLADNQRLAATHVALKQ 100

Query:    70 ELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQK 129
             EL  ++ E+ R+   I  LRA++E   RE++D+ ++ E+ELR  + +RAE+ ++RA++++
Sbjct:   101 ELEVAQHELQRIMHYIDSLRAEEEIMMREMYDKSMRSEMELREVDAMRAEIQKIRADIKE 160

Query:   130 LNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY 181
               S RQELT+Q+  +T+D+ RL A+ +Q+  + A+I+  + EL  AR  I Y
Sbjct:   161 FTSGRQELTSQVHLMTQDLARLTADLQQIPTLTAEIENTKQELQRARAAIDY 212

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048573 "photoperiodism, flowering" evidence=RCA

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

 Score = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 42/138 (30%), Positives = 84/138 (60%)

Query:    39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
             LE+ I IQ RE+  ++++N+     +  L+ +L  +K E+ RL +   K++A+ EA  RE
Sbjct:    39 LEDRIAIQHREIQSLLNDNQRLAVAHIGLKDQLNVAKRELERLLETAVKVKAEGEAKVRE 98

Query:    99 LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
             ++   L++E E R  + + AE+ Q+R++VQ+L S RQEL T++     ++ + +  + + 
Sbjct:    99 VYQNALRMEAEARVIDGLGAELGQVRSDVQRLGSDRQELATELAMFDDEMAKAKPNSDRA 158

Query:   159 IAMRADIDGIRSELVEAR 176
             I ++ +I+ +R E+ + R
Sbjct:   159 IEVKLEIEILRGEIRKGR 176

GO:0009507 "chloroplast" evidence=ISM

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

 Score = 193 (73.0 bits), Expect = 7.6e-15, P = 7.6e-15
 Identities = 48/175 (27%), Positives = 95/175 (54%)

Query:    10 HPDSARGFRDGPRPVLTRGLAP---MHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTH 66
             HP++  G      P   +G+ P   M   P  +E++   Q  E+ R+  EN+     +  
Sbjct:    27 HPETF-GNHGAIPPSAAQGVYPSFNMLPPPEVMEQKFVAQHGELQRLAIENQRLGGTHGS 85

Query:    67 LQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAE 126
             L++EL A++ EI  L   I  +++++E     L ++  K+E EL+ SE V+ E+ Q RAE
Sbjct:    86 LRQELAAAQHEIQMLHAQIGSMKSEREQRMMGLAEKVAKMETELQKSEAVKLEMQQARAE 145

Query:   127 VQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY 181
              + L  +R+EL +++  LT+++ +  ++ +Q+ A+ ++++ +R E  + R    Y
Sbjct:   146 ARSLVVAREELMSKVHQLTQELQKSRSDVQQIPALMSELENLRQEYQQCRATYDY 200

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 45/171 (26%), Positives = 79/171 (46%)

Query:     8 SRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHL 67
             SRH D+     D PR +    ++        LE +I +Q  E+ R+ ++NR        L
Sbjct:    27 SRHHDTISSTSD-PRHLRDHQISLSDI----LENKIAVQAAEIDRLSNDNRKLASSYVAL 81

Query:    68 QRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEV 127
             + +LT +  E+  L   I K   D E   R   ++  K+E  ++  E +R EV     E 
Sbjct:    82 KEDLTVADREVQGLRAHIRKTETDHEIQIRSTLEKIAKMEGMVKNRENIRREVQSAHIEA 141

Query:   128 QKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFE 178
              +L   R+EL +++K   KD+ ++  E + L A   +++ ++ E    R E
Sbjct:   142 HRLAREREELASKVKLGMKDLKKVCLEAESLEASSQELERLKEEHQRLRKE 192

GO:0008150 "biological_process" evidence=ND

MGI|MGI:2388267 Ccdc64b "coiled-coil domain containing 64B" [Mus musculus (taxid:10090)]

 Score = 130 (50.8 bits), Expect = 8.6e-07, P = 8.6e-07
 Identities = 45/161 (27%), Positives = 76/161 (47%)

Query:    22 RPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRL 81
             R +  RG A      + LE ++E  R ++    SE +   D      R L    ++  RL
Sbjct:   105 RGLAARG-AEWEARAVELEGDVEALRAQLGEQRSERQ---DSGRERARALGELSEQNLRL 160

Query:    82 GQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQI 141
              Q + +    ++   REL     + + +  A   + A +  L+AE Q L   RQ+L  QI
Sbjct:   161 SQQLAQASRTEQELQRELDTLRERCQTQALAGAELGARLESLQAENQMLQDRRQDLEAQI 220

Query:   142 KGLTKDV----NRLEAENKQLIAMRADIDGIRSELVEARFE 178
             +GL ++V    NRL+  +++L+ +R +    + EL  ARFE
Sbjct:   221 RGLREEVDKGQNRLQTTHEELLLLRRERKEHKLELERARFE 261

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0017137 "Rab GTPase binding" evidence=IDA

RGD|1306729 Ccdc64b "coiled-coil domain containing 64B" [Rattus norvegicus (taxid:10116)]

 Score = 127 (49.8 bits), Expect = 2.8e-06, P = 2.8e-06
 Identities = 46/162 (28%), Positives = 78/162 (48%)

Query:    22 RPVLTRGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRL 81
             R +  RG A      + LE ++E  R ++    SE +   D      R L    ++  RL
Sbjct:   105 RGLAARG-AEWEARAVELEGDVEALRAQLGEQRSEQQ---DSGRERARALGELSEQNLRL 160

Query:    82 GQIIPKLRADKEAHTRELFD-RGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQ 140
              Q + +    ++   REL   RG + + +  A   +R  +  L+AE Q L   RQ+L  Q
Sbjct:   161 SQQLAQASRTEQELQRELDTLRG-QCQTQALAGAELRTRLESLQAENQMLQDRRQDLEAQ 219

Query:   141 IKGLTKDVN----RLEAENKQLIAMRADIDGIRSELVEARFE 178
             I+GL ++V+    RL+  +++L+ +R +    + EL  ARFE
Sbjct:   220 IRGLREEVDKGQGRLQTTHEELLLLRRERKEHKLELERARFE 261

GO:0017137 "Rab GTPase binding" evidence=IEA;ISO

UNIPROTKB|Q3A9A0 CHY_2490 "Conserved domain protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 110 (43.8 bits), Expect = 8.3e-06, P = 8.3e-06
 Identities = 22/68 (32%), Positives = 43/68 (63%)

Query:   112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSE 171
             A E +R+++ ++R E+ +L +   EL  ++ GL  + N L AE  +L   +A+++G+R+E
Sbjct:    33 AVEELRSDINEMRKEINELRAEVNELRAEVNGLKAETNELRAEMSEL---KAEVNGLRTE 89

Query:   172 LVEARFEI 179
             + E R E+
Sbjct:    90 MNELRTEM 97

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CHY_2490 CHY_2490 "conserved domain protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 110 (43.8 bits), Expect = 8.3e-06, P = 8.3e-06
 Identities = 22/68 (32%), Positives = 43/68 (63%)

Query:   112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSE 171
             A E +R+++ ++R E+ +L +   EL  ++ GL  + N L AE  +L   +A+++G+R+E
Sbjct:    33 AVEELRSDINEMRKEINELRAEVNELRAEVNGLKAETNELRAEMSEL---KAEVNGLRTE 89

Query:   172 LVEARFEI 179
             + E R E+
Sbjct:    90 MNELRTEM 97

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

RGD|1560960 Hook3 "hook homolog 3 (Drosophila)" [Rattus norvegicus (taxid:10116)]

 Score = 123 (48.4 bits), Expect = 1.9e-05, P = 1.9e-05
 Identities = 51/192 (26%), Positives = 87/192 (45%)

Query:     3 ARNHISRHPDSARGFRDGPRPVLTRGLAPM-HFHPM--TLEEEIEIQRREMHRIISENRH 59
             A  H+  H  +      G   VL     PM ++ P     +++  I+  E+ + ISE R 
Sbjct:    77 AHTHMHSHTHTLTYMHTGKDSVL----GPMGNYRPRLEAAKDDYRIRCEELEKEISELRQ 132

Query:    60 AIDDNTHLQRELTASKDEIHRL---GQIIPKLRADKEAHTRELFDRG-LKLEVELRASEP 115
               D+ T L  E  + KDEI  L      + KL    E++ ++L D G L+ +V+L   + 
Sbjct:   133 QNDELTTLADEAQSLKDEIDVLRHSSDKVSKLEGQVESYKKKLEDLGDLRRQVKLLEEKN 192

Query:   116 VR--AEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENK-------QLIAMRADID 166
                    V L  E++K N++R +L T  + + +  NRL  E+K       +   ++  +D
Sbjct:   193 TMYMQNTVSLEEELRKANAARGQLETYKRQVVELQNRLSDESKKADKLDFEYKRLKEKVD 252

Query:   167 GIRSELVEARFE 178
             G++ E    R E
Sbjct:   253 GLQKEKDRLRTE 264

GO:0000242 "pericentriolar material" evidence=IEA;ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=ISO

GO:0005794 "Golgi apparatus" evidence=IEA;ISO

GO:0005801 "cis-Golgi network" evidence=IEA;ISO

GO:0005813 "centrosome" evidence=ISO

GO:0007032 "endosome organization" evidence=IEA;ISO

GO:0007040 "lysosome organization" evidence=IEA;ISO

GO:0008017 "microtubule binding" evidence=IEA;ISO

GO:0008333 "endosome to lysosome transport" evidence=IEA;ISO

GO:0022027 "interkinetic nuclear migration" evidence=IEA;ISO

GO:0030897 "HOPS complex" evidence=IEA;ISO

GO:0031122 "cytoplasmic microtubule organization" evidence=IEA;ISO

GO:0034451 "centriolar satellite" evidence=IEA;ISO

GO:0034454 "microtubule anchoring at centrosome" evidence=IEA;ISO

GO:0042802 "identical protein binding" evidence=IEA;ISO

GO:0045022 "early endosome to late endosome transport" evidence=IEA;ISO

GO:0050768 "negative regulation of neurogenesis" evidence=IEA;ISO

GO:0051645 "Golgi localization" evidence=IEA;ISO

GO:0070695 "FHF complex" evidence=IEA;ISO

GO:0071539 "protein localization to centrosome" evidence=IEA;ISO

GO:0097150 "neuronal stem cell maintenance" evidence=IEA;ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00030337001 SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (227 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	184
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	1e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.003
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.004

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

 Score = 44.7 bits (106), Expect = 1e-05
 Identities = 34/145 (23%), Positives = 64/145 (44%), Gaps = 4/145 (2%)

Query: 39  LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
           LEEE+E    E+  +        ++   L+  L   K+EI  L +    L+ + E    E
Sbjct: 742 LEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEE 801

Query: 99  LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAE---- 154
           L +   +L+   R  E +     +L  E+++L    +EL  ++  L +++  LE E    
Sbjct: 802 LEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEEL 861

Query: 155 NKQLIAMRADIDGIRSELVEARFEI 179
            ++L  + A+ + +  EL E   E 
Sbjct: 862 KEELEELEAEKEELEDELKELEEEK 886

Length = 1163

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

 Score = 40.4 bits (95), Expect = 1e-04
 Identities = 30/107 (28%), Positives = 54/107 (50%), Gaps = 4/107 (3%)

Query: 52  RIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELR 111
           R +S+   A +    LQ+EL   ++E+  L + + +L+ +     +EL      LE EL 
Sbjct: 56  RYLSDTPSARERLPELQQELAELQEELAELQEQLAELQQEN----QELKQELSTLEAELE 111

Query: 112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
             +   A + QL A   +L+   +EL  ++  L ++   LEAEN++L
Sbjct: 112 RLQKELARIKQLSANAIELDEENRELREELAELKQENEALEAENERL 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 30/146 (20%), Positives = 64/146 (43%), Gaps = 4/146 (2%)

Query: 38  TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTR 97
            LEEE+E     + ++  E     +    LQ EL   ++E+    + +  L  + E+  +
Sbjct: 762 ELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQ 821

Query: 98  ELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAE--- 154
                  ++E      E +  ++ +L  E+++L    +EL  +++ L  +   LE E   
Sbjct: 822 RRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKE 881

Query: 155 -NKQLIAMRADIDGIRSELVEARFEI 179
             ++   +  ++  + SEL E + EI
Sbjct: 882 LEEEKEELEEELRELESELAELKEEI 907

Length = 1163

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

 Score = 39.7 bits (93), Expect = 4e-04
 Identities = 30/146 (20%), Positives = 61/146 (41%), Gaps = 4/146 (2%)

Query: 39  LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
           LE EI + R  +  + +E     +    L+ ++ A K+E+     ++ +L          
Sbjct: 300 LEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEA 359

Query: 99  LFDRGLKLEVELRASEP----VRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAE 154
             +   KL   L   E     +R E+ +L AE+ ++ +  +EL  +I+ L + + RL   
Sbjct: 360 KEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSER 419

Query: 155 NKQLIAMRADIDGIRSELVEARFEIR 180
            + L     +++    EL     E+ 
Sbjct: 420 LEDLKEELKELEAELEELQTELEELN 445

Length = 1163

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

 Score = 39.3 bits (92), Expect = 6e-04
 Identities = 33/138 (23%), Positives = 68/138 (49%)

Query: 39  LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
           LEE  E  R E+  + +E     ++   L+RE+ + ++ + RL + +  L+ + +    E
Sbjct: 374 LEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAE 433

Query: 99  LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
           L +   +LE      E +  ++ +LR  +++L     EL  +++ L K+++ LEA   +L
Sbjct: 434 LEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRL 493

Query: 159 IAMRADIDGIRSELVEAR 176
            A +    G+R+ L    
Sbjct: 494 EAEQRASQGVRAVLEALE 511

Length = 1163

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

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 27/145 (18%), Positives = 59/145 (40%)

Query: 39  LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
           L  +I   R+++ R+ +E     +    L +ELT  + EI  L + + +   +      E
Sbjct: 724 LSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAE 783

Query: 99  LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
           + +   ++E      + +R  + +LRAE+  LN     L  +++ L + +   E   + L
Sbjct: 784 IEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDL 843

Query: 159 IAMRADIDGIRSELVEARFEIRYFL 183
                ++      L     E+   +
Sbjct: 844 EEQIEELSEDIESLAAEIEELEELI 868

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

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

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 29/145 (20%), Positives = 62/145 (42%), Gaps = 11/145 (7%)

Query: 38  TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTR 97
            LE++ +I R  +  +  +          L+ +L    +E+  L + + +L+ + E+   
Sbjct: 299 RLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELES-LE 357

Query: 98  ELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ 157
              +       EL +       + +L  +++ L S   +L  QI  L  ++ RLEA  ++
Sbjct: 358 AELEELEAELEELESR------LEELEEQLETLRSKVAQLELQIASLNNEIERLEARLER 411

Query: 158 LIAMR----ADIDGIRSELVEARFE 178
           L   R     +I+ +  +L EA  +
Sbjct: 412 LEDRRERLQQEIEELLKKLEEAELK 436

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

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

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 24/111 (21%), Positives = 45/111 (40%), Gaps = 3/111 (2%)

Query: 41  EEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELF 100
              E +  ++   I E    I+       EL    +E+    + +   RA  E     L 
Sbjct: 834 AATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLR 893

Query: 101 DRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRL 151
               +L  ELR  E   ++  +LR E+++L     +L  +++GL   ++ L
Sbjct: 894 SELEELSEELRELE---SKRSELRRELEELREKLAQLELRLEGLEVRIDNL 941

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.34
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.88
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	96.5
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	96.41
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	96.3
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	96.28
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	96.24
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.06
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	96.05
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	96.01
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	95.77
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.73
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	95.25
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	95.19
COG4372	499	Uncharacterized protein conserved in bacteria with	95.19
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	95.0
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.0
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	94.91
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.81
PRK02224	880	chromosome segregation protein; Provisional	94.73
PRK02224	880	chromosome segregation protein; Provisional	94.7
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	94.68
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	94.65
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	94.56
PRK03918	880	chromosome segregation protein; Provisional	94.48
PRK09039	343	hypothetical protein; Validated	94.32
PHA02562	562	46 endonuclease subunit; Provisional	94.27
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	93.99
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	93.96
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	93.66
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	93.52
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	93.42
PRK11637	428	AmiB activator; Provisional	93.4
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.55
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	92.38
PRK11637	428	AmiB activator; Provisional	92.37
PF13514	1111	AAA_27: AAA domain	92.24
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	92.13
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	92.11
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	92.03
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	91.98
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	91.84
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	91.83
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	91.75
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	91.44
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	91.28
KOG4673	961	consensus Transcription factor TMF, TATA element m	91.27
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	91.17
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	91.13
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	91.01
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	90.96
PRK10884	206	SH3 domain-containing protein; Provisional	90.91
PRK11546	143	zraP zinc resistance protein; Provisional	90.74
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	90.64
PRK11519	719	tyrosine kinase; Provisional	90.52
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	90.31
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	90.13
PRK09039	343	hypothetical protein; Validated	89.65
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	89.12
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.96
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	88.9
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	88.85
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	88.71
PF08912	69	Rho_Binding: Rho Binding; InterPro: IPR015008 Rho	88.58
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	88.38
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	88.09
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	87.28
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	87.13
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	87.1
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	87.06
KOG0933	1174	consensus Structural maintenance of chromosome pro	86.99
PHA02562	562	46 endonuclease subunit; Provisional	85.79
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	85.78
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	85.51
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	85.4
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	85.33
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	85.19
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	85.08
PF04880	166	NUDE_C: NUDE protein, C-terminal conserved region;	85.06
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	83.79
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	83.4
TIGR03794	421	NHPM_micro_HlyD NHPM bacteriocin system secretion	83.11
PRK10884	206	SH3 domain-containing protein; Provisional	82.78
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	82.62
TIGR02231	525	conserved hypothetical protein. This family consis	82.62
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	82.56
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	82.55
COG3206	458	GumC Uncharacterized protein involved in exopolysa	82.44
PF05837	106	CENP-H: Centromere protein H (CENP-H); InterPro: I	82.39
PF02050	123	FliJ: Flagellar FliJ protein; InterPro: IPR012823	82.35
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	82.12
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	81.71
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	81.48
PF10186	302	Atg14: UV radiation resistance protein and autopha	81.46
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	81.46
PF13514	1111	AAA_27: AAA domain	81.42
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	81.05
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	81.03
KOG1962	216	consensus B-cell receptor-associated protein and r	80.62
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	80.58
TIGR02971	327	heterocyst_DevB ABC exporter membrane fusion prote	80.51

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

Probab=97.34  E-value=0.021  Score=50.87  Aligned_cols=133  Identities=15%  Similarity=0.263  Sum_probs=80.0

Q ss_pred             hhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhh----cc
Q 030034           38 TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELR----AS  113 (184)
Q Consensus        38 ~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelR----a~  113 (184)
                      .|++.+..-..+-..|...-..+-.-...|+...++.+.|+..+......+....=.++..+-.....+.+++.    ..
T Consensus       153 ~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l  232 (325)
T PF08317_consen  153 GLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKEL  232 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555556666666666666666666666666777777777666665555555566666666666666665    55


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHH
Q 030034          114 EPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEA-ENKQLIAMRADIDGIRS  170 (184)
Q Consensus       114 e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~-d~qqip~l~aEid~lrq  170 (184)
                      +.++.++..+..++.++.+.++++.++++.+.+.+...++ ...-|..|+++++.|..
T Consensus       233 ~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~Le~  290 (325)
T PF08317_consen  233 AELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDALEK  290 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555443332 44556666666666654

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

Probab=96.88  E-value=0.096  Score=45.27  Aligned_cols=118  Identities=20%  Similarity=0.304  Sum_probs=93.0

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHh---------------hHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhh
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDD---------------NTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRG  103 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAat---------------hvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~  103 (184)
                      |=+||+.--.=++.|=.+|..|-..               ...+..+|..++..|..++.-.+.+..+.+.--.++-+=-
T Consensus         9 LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r   88 (312)
T PF00038_consen    9 LNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLR   88 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHH
Confidence            4456666666666666666666543               3446667777777777777777777778887778888888


Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENK  156 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~q  156 (184)
                      .|+|.+......+..|+..++.++......|-+|-+++++|..||.-....-.
T Consensus        89 ~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~~he  141 (312)
T PF00038_consen   89 RKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLKQNHE  141 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHhhhh
Confidence            99999999999999999999999999999999999999999999988765443

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 ....

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

Probab=96.50  E-value=0.34  Score=39.70  Aligned_cols=122  Identities=17%  Similarity=0.337  Sum_probs=73.7

Q ss_pred             HHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhh----HHhHHHHHHhhhhhhhhhhcchh-HHHHHHHHH
Q 030034           50 MHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADK----EAHTRELFDRGLKLEVELRASEP-VRAEVVQLR  124 (184)
Q Consensus        50 iqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~----e~q~Rel~ek~~KmEaelRa~e~-~k~El~Q~r  124 (184)
                      +..++.+|-..+.+.++-|.++....   ..+...+..+++|-    +.++-.+-....+|..|+-.... ++.|+.+++
T Consensus        28 l~~~l~~~~~~~~~~~vtk~d~e~~~---~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~L~~ei~~l~  104 (177)
T PF07798_consen   28 LREVLNDSLEKVAQDLVTKSDLENQE---YLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQELREEINKLR  104 (177)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45678888777777788787776543   34445566666654    34444455555666666666554 777788888


Q ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHHHHHH
Q 030034          125 AEVQK-LNSSRQELTTQIKGLTKDVNRLEAE-NKQLIAMRADIDGIRSELVE  174 (184)
Q Consensus       125 ~e~q~-L~~~RQELt~qvq~ltqeL~r~~~d-~qqip~l~aEid~lrqElqr  174 (184)
                      +|++- ++-.|.+.......+...++-.... ...|..|+++|++++-++.+
T Consensus       105 a~~klD~n~eK~~~r~e~~~~~~ki~e~~~ki~~ei~~lr~~iE~~K~~~lr  156 (177)
T PF07798_consen  105 AEVKLDLNLEKGRIREEQAKQELKIQELNNKIDTEIANLRTEIESLKWDTLR  156 (177)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            87763 3333334444444444444333221 23366788899988888765

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=96.41  E-value=0.42  Score=47.31  Aligned_cols=48  Identities=17%  Similarity=0.144  Sum_probs=20.4

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhh
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIP   86 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~   86 (184)
                      ++.++.....++..+-.....+-.....|.+++...+.++..+..-+.
T Consensus       292 l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~l~~~~~  339 (1164)
T TIGR02169       292 VKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIE  339 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444443333

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

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=96.30  E-value=0.67  Score=45.58  Aligned_cols=6  Identities=50%  Similarity=0.866  Sum_probs=2.3

Q ss_pred             hHHHHH
Q 030034           39 LEEEIE   44 (184)
Q Consensus        39 LEe~La   44 (184)
                      ++..+.
T Consensus       703 ~~~~l~  708 (1179)
T TIGR02168       703 LRKELE  708 (1179)
T ss_pred             HHHHHH
Confidence            334433

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

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

Probab=96.28  E-value=0.071  Score=42.21  Aligned_cols=72  Identities=22%  Similarity=0.355  Sum_probs=63.1

Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhh
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFE  178 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa  178 (184)
                      -+|-+.||..|   .|+..++.++..|.+.|..|+.++=.++.+....++..++++.|+.+++.|.+.++-+--.
T Consensus        19 e~L~s~lr~~E---~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~Lel   90 (120)
T PF12325_consen   19 ERLQSQLRRLE---GELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLEL   90 (120)
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666544   6999999999999999999999999999999999999999999999999999988765443

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 [].

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=96.24  E-value=0.6  Score=46.26  Aligned_cols=23  Identities=4%  Similarity=0.140  Sum_probs=8.2

Q ss_pred             HHHHHHhhhhhHHhhHHHHHHHH
Q 030034           50 MHRIISENRHAIDDNTHLQRELT   72 (184)
Q Consensus        50 iqrLl~dNqRLAathvaLrqeL~   72 (184)
                      +..+-.+...+......+..++.
T Consensus       331 ~~~l~~~~~~l~~~~~~~~~~~~  353 (1164)
T TIGR02169       331 IDKLLAEIEELEREIEEERKRRD  353 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

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

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

Probab=96.06  E-value=0.77  Score=42.29  Aligned_cols=59  Identities=15%  Similarity=0.268  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          123 LRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       123 ~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      +......+.+....|..++..+.++++..+.+.+++|....++..|..|+.-++..|+.
T Consensus       315 l~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~el~~L~Re~~~~~~~Y~~  373 (498)
T TIGR03007       315 LQIELAEAEAEIASLEARVAELTARIERLESLLRTIPEVEAELTQLNRDYEVNKSNYEQ  373 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555556666778888889999999999999999999999999999999888763

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

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

Probab=96.05  E-value=0.96  Score=44.09  Aligned_cols=49  Identities=16%  Similarity=0.312  Sum_probs=34.3

Q ss_pred             hhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhh
Q 030034           38 TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIP   86 (184)
Q Consensus        38 ~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~   86 (184)
                      +|+.+|..-..|-..|+..|..|-..-..|+.++...+.+|.....-..
T Consensus       140 ~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e  188 (546)
T PF07888_consen  140 LLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEME  188 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677777767788888888888887777777766666666655444333

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=96.01  E-value=1.1  Score=44.07  Aligned_cols=7  Identities=43%  Similarity=0.340  Sum_probs=2.7

Q ss_pred             hHHHHHH
Q 030034           39 LEEEIEI   45 (184)
Q Consensus        39 LEe~La~   45 (184)
                      ++.++..
T Consensus       675 l~~e~~~  681 (1179)
T TIGR02168       675 RRREIEE  681 (1179)
T ss_pred             HHHHHHH
Confidence            3344433

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

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

Probab=95.77  E-value=0.71  Score=37.38  Aligned_cols=114  Identities=17%  Similarity=0.269  Sum_probs=63.9

Q ss_pred             hhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHH
Q 030034           58 RHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQEL  137 (184)
Q Consensus        58 qRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQEL  137 (184)
                      .++-.+-..+++-+...++|+..+...+.+...+-+..-...+.-.-.++.---..+.++.+......++..|....+++
T Consensus        77 ~~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~  156 (191)
T PF04156_consen   77 PRLQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDS  156 (191)
T ss_pred             hhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444455555555555555555555444444433333333222222222223344555555555555555666677


Q ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Q 030034          138 TTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSE  171 (184)
Q Consensus       138 t~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqE  171 (184)
                      -..++.+..++.+.+.+.+++-...++..++.+.
T Consensus       157 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~  190 (191)
T PF04156_consen  157 REEVQELRSQLERLQENLQQLEEKIQELQELLEQ  190 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            7778888888888888888887777777777653

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 [].

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

Probab=95.73  E-value=1.2  Score=38.52  Aligned_cols=121  Identities=20%  Similarity=0.300  Sum_probs=65.4

Q ss_pred             HHHhhhhhHHhhHH---HHHHHHhhHHHHHHHhhh----hhhhhhhhHHh---HHHHHHh----hhhhhhhhhcchhHHH
Q 030034           53 IISENRHAIDDNTH---LQRELTASKDEIHRLGQI----IPKLRADKEAH---TRELFDR----GLKLEVELRASEPVRA  118 (184)
Q Consensus        53 Ll~dNqRLAathva---LrqeL~aaq~El~~l~~~----i~~i~ae~e~q---~Rel~ek----~~KmEaelRa~e~~k~  118 (184)
                      |-.=|-|||.-...   |-++=.....+|..+...    .+.+..--+.+   +|..++.    ..+|+.+   .+.++.
T Consensus         6 L~~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~~~~~~~~~~~~ye~el~~lr~~id~~~~eka~l~~e---~~~l~~   82 (312)
T PF00038_consen    6 LQSLNDRLASYIEKVRFLEQENKRLESEIEELREKKGEEVSRIKEMYEEELRELRRQIDDLSKEKARLELE---IDNLKE   82 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHH---HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccccCcccccchhhHHHHhHHhhhhHHHHhhHHhhh---hhhHHH
Confidence            33448888864433   333444444444444433    11222222222   3333333    2334443   457788


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          119 EVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       119 El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      |+..++....+..+.|+.|-.++..+.++|.....-   .-.|..+|.+|+.||...+..+
T Consensus        83 e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~---r~~le~~i~~L~eEl~fl~~~h  140 (312)
T PF00038_consen   83 ELEDLRRKYEEELAERKDLEEELESLRKDLDEETLA---RVDLENQIQSLKEELEFLKQNH  140 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhh---HhHHHHHHHHHHHHHHHHHhhh
Confidence            888888888888888888888888888887754432   2334445555555555544443

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 ....

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

Probab=95.25  E-value=1.9  Score=41.07  Aligned_cols=66  Identities=20%  Similarity=0.364  Sum_probs=47.3

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----------HHHHHHHHHHHHHHHHHhhhh
Q 030034          113 SEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ-----------LIAMRADIDGIRSELVEARFE  178 (184)
Q Consensus       113 ~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qq-----------ip~l~aEid~lrqElqr~Raa  178 (184)
                      +..++.||.++..++++....--.|...|.+|..||.+.+.+...           |..|.+|+..++.||.-+++.
T Consensus       283 l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~  359 (522)
T PF05701_consen  283 LASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAE  359 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhh
Confidence            667788888888888877777777777777777777777766543           566666777777766555443

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

>TIGR00606 rad50 rad50

Probab=95.19  E-value=2  Score=45.01  Aligned_cols=136  Identities=12%  Similarity=0.165  Sum_probs=108.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcc--h
Q 030034           37 MTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRAS--E  114 (184)
Q Consensus        37 ~~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~--e  114 (184)
                      .-++.+|..-...|..|-.+=..+....-.|++++...+.+-+.+...+..++  ...+++++-..+..|+.++...  .
T Consensus       973 ~~~e~el~~~~~~ie~le~e~~~l~~~i~~l~kel~~~~~~kr~l~dnL~~~~--~~~~l~el~~eI~~l~~~~~~~~~~ 1050 (1311)
T TIGR00606       973 KQKETELNTVNAQLEECEKHQEKINEDMRLMRQDIDTQKIQERWLQDNLTLRK--RENELKEVEEELKQHLKEMGQMQVL 1050 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhhccHH
Confidence            45667777777788888888888889999999999999999999999888887  4555678888888888887766  7


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHh
Q 030034          115 PVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEA  175 (184)
Q Consensus       115 ~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~  175 (184)
                      .+..|...+..++..|.+.+..+.+++..+..++..++.+... |..+.=-+..+..+..+
T Consensus      1051 ~~~~e~~~l~~~~~~l~~~~a~l~g~~k~le~qi~~l~~eL~e-~~yk~a~~ryrka~i~~ 1110 (1311)
T TIGR00606      1051 QMKQEHQKLEENIDLIKRNHVLALGRQKGYEKEIKHFKKELRE-PQFRDAEEKYREMMIVM 1110 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-hHHHHHHHHHHHHHHHH
Confidence            8889999999999999999999999999999888888888855 55554444444444443

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

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

Probab=95.19  E-value=3.1  Score=39.78  Aligned_cols=109  Identities=18%  Similarity=0.288  Sum_probs=78.7

Q ss_pred             HHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHH----HH
Q 030034           48 REMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVV----QL  123 (184)
Q Consensus        48 ~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~----Q~  123 (184)
                      .|.+.--.|-+-.-...-++++++..|++|+.++.....+++++    +--|.+...++|+++.|+-+=.++|+    |+
T Consensus       109 ~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtr----l~~l~~qr~ql~aq~qsl~a~~k~LQ~s~~Ql  184 (499)
T COG4372         109 SELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTR----LKTLAEQRRQLEAQAQSLQASQKQLQASATQL  184 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666666666666677789999999999999999999888765    56799999999999999777777766    55


Q ss_pred             HHHHHHHHHH-------HHHHH---HHHHHHHHHHHHHHHhhhhHHH
Q 030034          124 RAEVQKLNSS-------RQELT---TQIKGLTKDVNRLEAENKQLIA  160 (184)
Q Consensus       124 r~e~q~L~~~-------RQELt---~qvq~ltqeL~r~~~d~qqip~  160 (184)
                      .+++..|...       =++|.   ..+|..++||++..+-.||...
T Consensus       185 k~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq~~q  231 (499)
T COG4372         185 KSQVLDLKLRSAQIEQEAQNLATRANAAQARTEELARRAAAAQQTAQ  231 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555544321       12222   3467788888887776666543

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=95.00  E-value=0.59  Score=45.86  Aligned_cols=118  Identities=14%  Similarity=0.218  Sum_probs=80.5

Q ss_pred             hhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhh-----HHhHHHHHHhhhhhhhhhhcchhHHHHHHHH----HHHH
Q 030034           57 NRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADK-----EAHTRELFDRGLKLEVELRASEPVRAEVVQL----RAEV  127 (184)
Q Consensus        57 NqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~-----e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~----r~e~  127 (184)
                      |.....+-.=|.++|...+++|...-..+.+.+.++     +.+...+++++..+++++-......+++.+.    |-.+
T Consensus       262 ~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~~~~d~~~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~~~~~hP~v  341 (726)
T PRK09841        262 AAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQRDSVDLNLEAKAVLEQIVNVDNQLNELTFREAEISQLYKKDHPTY  341 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCchH
Confidence            444445566677777777777777766677766655     3445566777766666655544444443321    1122


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          128 QKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       128 q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                             +.|..+++.+.++++.+++..+++|....++..|..+..-.|..|++
T Consensus       342 -------~~l~~~~~~L~~~~~~l~~~~~~~p~~e~~~~~L~R~~~~~~~lY~~  388 (726)
T PRK09841        342 -------RALLEKRQTLEQERKRLNKRVSAMPSTQQEVLRLSRDVEAGRAVYLQ  388 (726)
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence                   34445667788889999999999999999999999999999988865

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

Probab=95.00  E-value=1.5  Score=40.13  Aligned_cols=106  Identities=18%  Similarity=0.261  Sum_probs=69.9

Q ss_pred             HHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHH-hHH----HHHHhhhhhhhhhhcchhHHHHHHHHHHH
Q 030034           52 RIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEA-HTR----ELFDRGLKLEVELRASEPVRAEVVQLRAE  126 (184)
Q Consensus        52 rLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~-q~R----el~ek~~KmEaelRa~e~~k~El~Q~r~e  126 (184)
                      ..-..|..|..+-..|+|.|..+|-|+.-|...+++.+...+- ..+    +=-+-+..||.==.-.+.+--|++.+--|
T Consensus        76 ~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lDE  155 (319)
T PF09789_consen   76 ESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLDE  155 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445799999999999999999999999999998887764321 111    11111222232222233455555666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-Hhhhh
Q 030034          127 VQKLNSSRQELTTQIKGLTKDVNRLE-AENKQ  157 (184)
Q Consensus       127 ~q~L~~~RQELt~qvq~ltqeL~r~~-~d~qq  157 (184)
                      .+.|...|...-.+++.|++||.-+- +|...
T Consensus       156 keEl~~ERD~yk~K~~RLN~ELn~~L~g~~~r  187 (319)
T PF09789_consen  156 KEELVTERDAYKCKAHRLNHELNYILNGDENR  187 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence            66777777777788999999998765 33333

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

Probab=94.91  E-value=0.71  Score=39.81  Aligned_cols=111  Identities=23%  Similarity=0.340  Sum_probs=61.2

Q ss_pred             hHHHHHHHHhhHHHHHHHhhhhhhhhh----------hhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHH
Q 030034           64 NTHLQRELTASKDEIHRLGQIIPKLRA----------DKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSS  133 (184)
Q Consensus        64 hvaLrqeL~aaq~El~~l~~~i~~i~a----------e~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~  133 (184)
                      +--|||.|-.+|-|+-.=-+-|-++++          .+|.++.++-+....-..+   .+.-..||++...|+.-|...
T Consensus        12 IsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~E---LE~ce~ELqr~~~Ea~lLrek   88 (202)
T PF06818_consen   12 ISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLE---LEVCENELQRKKNEAELLREK   88 (202)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHh---HHHhHHHHHHHhCHHHHhhhh
Confidence            344666666666555443333333333          2344444444332222222   224556777777776655555


Q ss_pred             HHHHHHHHHHHHHHHHHH------------------HH--hhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          134 RQELTTQIKGLTKDVNRL------------------EA--ENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       134 RQELt~qvq~ltqeL~r~------------------~~--d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      =..|..++..|..++...                  +.  ...-++.|+.++|.|+.||...|-
T Consensus        89 l~~le~El~~Lr~~l~~~~~~~~~~~~l~~~deak~~~~~~~~~~~~l~~e~erL~aeL~~er~  152 (202)
T PF06818_consen   89 LGQLEAELAELREELACAGRLKRQCQLLSESDEAKAQRQAGEDELGSLRREVERLRAELQRERQ  152 (202)
T ss_pred             hhhhHHHHHHHHHHHHhhccchhhhccccccchhHHhhccccccchhHHHHHHHHHHHHHHHHH
Confidence            555555666666666554                  11  123477789999999999987665

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.81  E-value=3  Score=37.71  Aligned_cols=132  Identities=18%  Similarity=0.264  Sum_probs=66.2

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhh----hcch
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVEL----RASE  114 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEael----Ra~e  114 (184)
                      |++.+..-..|-..|..+.+.+-.-.-.|+.-.+..+.|+..+......+..=.--+...+-++..+...++    ...+
T Consensus       149 L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~  228 (312)
T smart00787      149 LDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLE  228 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444455555555555555556666666666666666655555443322223344444433333322    2334


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhHHHHHHHHHHHHH
Q 030034          115 PVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLE-AENKQLIAMRADIDGIRS  170 (184)
Q Consensus       115 ~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~-~d~qqip~l~aEid~lrq  170 (184)
                      .++.++..+.+.|.......+++.++++.+.+.+...+ -+..-|..|++.++.|.+
T Consensus       229 e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~Le~  285 (312)
T smart00787      229 ELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLLQS  285 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            44444455555555555555555555555554443333 244555666666665554

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

>PRK02224 chromosome segregation protein; Provisional

Probab=94.73  E-value=3.7  Score=40.51  Aligned_cols=80  Identities=18%  Similarity=0.258  Sum_probs=43.5

Q ss_pred             HHHHHHhhhhhhhhhh--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Q 030034           96 TRELFDRGLKLEVELR--ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELV  173 (184)
Q Consensus        96 ~Rel~ek~~KmEaelR--a~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElq  173 (184)
                      +.++=.++..+|+.+.  ..+.+..++.++...+.++.....++.+++..+..++..+.....++-.+..+++.+...+.
T Consensus       629 l~~~r~~i~~l~~~~~~~~~e~l~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~i~~~~~~~e~~~~~~~~~~~~~~~~~  708 (880)
T PRK02224        629 LAEKRERKRELEAEFDEARIEEAREDKERAEEYLEQVEEKLDELREERDDLQAEIGAVENELEELEELRERREALENRVE  708 (880)
T ss_pred             HHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444443322  23466666677777777776666666666666666666555555555555555544444433


Q ss_pred             Hh
Q 030034          174 EA  175 (184)
Q Consensus       174 r~  175 (184)
                      .+
T Consensus       709 ~l  710 (880)
T PRK02224        709 AL  710 (880)
T ss_pred             HH
Confidence            33

>PRK02224 chromosome segregation protein; Provisional

Probab=94.70  E-value=4.6  Score=39.87  Aligned_cols=84  Identities=24%  Similarity=0.317  Sum_probs=38.4

Q ss_pred             HHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           65 THLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGL  144 (184)
Q Consensus        65 vaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~l  144 (184)
                      -.++.++...+.++..+...+..++.    ++..+-++...++......+.+..++..+...++++.....++..++..+
T Consensus       209 ~~~~~~l~el~~~i~~~~~~~~~l~~----~l~~l~~~~~el~~~~~~l~~l~~~~~~l~~~i~~~e~~~~~l~~~i~~~  284 (880)
T PRK02224        209 NGLESELAELDEEIERYEEQREQARE----TRDEADEVLEEHEERREELETLEAEIEDLRETIAETEREREELAEEVRDL  284 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444443322    22233344444554455555555555555555555544444444444444


Q ss_pred             HHHHHHHH
Q 030034          145 TKDVNRLE  152 (184)
Q Consensus       145 tqeL~r~~  152 (184)
                      ...+..+.
T Consensus       285 ~~~~~~le  292 (880)
T PRK02224        285 RERLEELE  292 (880)
T ss_pred             HHHHHHHH
Confidence            44444333

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=94.68  E-value=2.7  Score=46.43  Aligned_cols=144  Identities=19%  Similarity=0.219  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHH
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAE  119 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~E  119 (184)
                      .+++..-...+...-.-|-.|=-+...|+||+..+.-|+++.+.++..+....-.----|.+.-.++|.=.--.+....|
T Consensus      1385 ~~~lq~~qe~~e~~~~~~~~Lek~k~~l~~el~d~~~d~~~~~~~~~~le~k~k~f~k~l~e~k~~~e~l~~Eld~aq~e 1464 (1930)
T KOG0161|consen 1385 QQRLQELEEQIEAANAKNASLEKAKNRLQQELEDLQLDLERSRAAVAALEKKQKRFEKLLAEWKKKLEKLQAELDAAQRE 1464 (1930)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555666667777888899999999999988876666554332222222233333333333334456666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcccc
Q 030034          120 VVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYFL  183 (184)
Q Consensus       120 l~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~EyEk  183 (184)
                      +.+...++++|...=-++..++.++..+-..++++...+-.-..|...-.+|++..+..+|.+|
T Consensus      1465 ~r~~~tel~kl~~~lee~~e~~e~l~renk~l~~ei~dl~~~~~e~~k~v~elek~~r~le~e~ 1528 (1930)
T KOG0161|consen 1465 LRQLSTELQKLKNALEELLEQLEELRRENKNLSQEIEDLEEQKDEGGKRVHELEKEKRRLEQEK 1528 (1930)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666776666666666666667666666666666666666666666666666666666554

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

Probab=94.65  E-value=1.5  Score=39.14  Aligned_cols=87  Identities=22%  Similarity=0.371  Sum_probs=41.7

Q ss_pred             HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhh-----cchhHHHHHHHHHHHHHHHHHHHHH
Q 030034           62 DDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELR-----ASEPVRAEVVQLRAEVQKLNSSRQE  136 (184)
Q Consensus        62 athvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelR-----a~e~~k~El~Q~r~e~q~L~~~RQE  136 (184)
                      ..+-.|++|.......+..++...+++...++.=..++. ....+..++-     -.+.+|++|..+..++..+...=.+
T Consensus       156 ~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~-~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~e  234 (325)
T PF08317_consen  156 ENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELE-NLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAE  234 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444566667777777777777777766665553222211 1122222222     2334555555555555533333333


Q ss_pred             HHHHHHHHHHHHH
Q 030034          137 LTTQIKGLTKDVN  149 (184)
Q Consensus       137 Lt~qvq~ltqeL~  149 (184)
                      |..+++.++.++.
T Consensus       235 l~~el~~l~~~i~  247 (325)
T PF08317_consen  235 LQEELEELEEKIE  247 (325)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444333

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

Probab=94.56  E-value=3.3  Score=40.48  Aligned_cols=75  Identities=21%  Similarity=0.248  Sum_probs=38.8

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhH----------HhHHHHHHhhhhhhh
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKE----------AHTRELFDRGLKLEV  108 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e----------~q~Rel~ek~~KmEa  108 (184)
                      .+.+...-..+...|=.++.-|-..--.|+.+|...+.++..|.....++....+          .+.-+...++.++|.
T Consensus       148 ~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~LEe  227 (546)
T PF07888_consen  148 CQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIRELEE  227 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444445555555666556666666666666666666555544443333222          122334555566666


Q ss_pred             hhhcc
Q 030034          109 ELRAS  113 (184)
Q Consensus       109 elRa~  113 (184)
                      ++..+
T Consensus       228 di~~l  232 (546)
T PF07888_consen  228 DIKTL  232 (546)
T ss_pred             HHHHH
Confidence            65544

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>PRK03918 chromosome segregation protein; Provisional

Probab=94.48  E-value=3.7  Score=40.29  Aligned_cols=60  Identities=27%  Similarity=0.428  Sum_probs=26.6

Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRA  163 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~a  163 (184)
                      .+++.++...+..+.++..+..+.+.|...-+.+...+..+.+++..+.....++..+..
T Consensus       224 ~~~~~~l~~l~~~~~~~~~l~~~~~~l~~~~~~l~~~i~~l~~el~~l~~~l~~l~~~~~  283 (880)
T PRK03918        224 EKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVK  283 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444544444444444444444444444444444444444443333333

>PRK09039 hypothetical protein; Validated

Probab=94.32  E-value=1.4  Score=40.02  Aligned_cols=56  Identities=18%  Similarity=0.217  Sum_probs=28.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhhhHHhhHHH-HHHHHhhHHHHHHHhhhhhhhhhhhH
Q 030034           37 MTLEEEIEIQRREMHRIISENRHAIDDNTHL-QRELTASKDEIHRLGQIIPKLRADKE   93 (184)
Q Consensus        37 ~~LEe~La~Q~~EiqrLl~dNqRLAathvaL-rqeL~aaq~El~~l~~~i~~i~ae~e   93 (184)
                      -.|.+.|.-+..|+.+|=..=-.|+. .++| ++.....+.+|..++..+..++++++
T Consensus        42 ~fLs~~i~~~~~eL~~L~~qIa~L~e-~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~   98 (343)
T PRK09039         42 FFLSREISGKDSALDRLNSQIAELAD-LLSLERQGNQDLQDSVANLRASLSAAEAERS   98 (343)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            35778888888887777222111221 2222 23334445555555555555554443

>PHA02562 46 endonuclease subunit; Provisional

Probab=94.27  E-value=1.8  Score=40.15  Aligned_cols=108  Identities=12%  Similarity=0.215  Sum_probs=74.7

Q ss_pred             HHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhc----chhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           65 THLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRA----SEPVRAEVVQLRAEVQKLNSSRQELTTQ  140 (184)
Q Consensus        65 vaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa----~e~~k~El~Q~r~e~q~L~~~RQELt~q  140 (184)
                      ..|...+...+.++..+...+..+....+ ++.++..++..++..+..    .+.+..+...+.+++.+|...-.++..+
T Consensus       302 ~~l~d~i~~l~~~l~~l~~~i~~~~~~~~-~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~  380 (562)
T PHA02562        302 TKIKDKLKELQHSLEKLDTAIDELEEIMD-EFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEE  380 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHH
Confidence            34555666666666666666665554444 355555555555555444    4557777888888888888888888888


Q ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Q 030034          141 IKGLTKDVNRLEAENKQLIAMRADIDGIRSELV  173 (184)
Q Consensus       141 vq~ltqeL~r~~~d~qqip~l~aEid~lrqElq  173 (184)
                      +..+..+|..+..+...+|.-+...+.++..+.
T Consensus       381 l~~l~~~l~~~~~~~~~~~ke~~~~~~i~~~~~  413 (562)
T PHA02562        381 LAKLQDELDKIVKTKSELVKEKYHRGIVTDLLK  413 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888877766666555543

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

Probab=93.99  E-value=1.8  Score=43.76  Aligned_cols=107  Identities=23%  Similarity=0.360  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHH
Q 030034           42 EIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVV  121 (184)
Q Consensus        42 ~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~  121 (184)
                      ++..-..+.+.+-.+|+++-.+--+|+-+| -++.|+.+|..-......+-+.---  +|++-      ...+-+.+|..
T Consensus        54 ~l~~~k~qlr~~q~e~q~~~~ei~~LqeEL-r~q~e~~rL~~~~e~~~~e~e~l~~--ld~~~------~q~~rl~~E~e  124 (775)
T PF10174_consen   54 ELSRLKEQLRVTQEENQKAQEEIQALQEEL-RAQRELNRLQQELEKAQYEFESLQE--LDKAQ------EQFERLQAERE  124 (775)
T ss_pred             HHHhHHHHHHHHHhhHHHHHHHHHHHHHHH-HHhhHHHHHHHHhhhcccccchhhh--hhhHH------HHHHHHHHHHH
Confidence            456667889999999999999999999999 9999999999887777666653111  33221      12223333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030034          122 QLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ  157 (184)
Q Consensus       122 Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qq  157 (184)
                      -+..|+..|...=.++-.++..+.++|.....+..+
T Consensus       125 r~~~El~~lr~~lE~~q~~~e~~q~~l~~~~eei~k  160 (775)
T PF10174_consen  125 RLQRELERLRKTLEELQLRIETQQQTLDKADEEIEK  160 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444333

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

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

Probab=93.96  E-value=2  Score=41.01  Aligned_cols=63  Identities=16%  Similarity=0.333  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          114 EPVRAEVVQLRAEVQKLNSSRQ-------ELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       114 e~~k~El~Q~r~e~q~L~~~RQ-------ELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      ..+..||..++.++..+...-.       +|+..++.++.|...++.+   .-.++.|+..++.|+..+++++
T Consensus       340 ~~L~~eL~~~r~eLea~~~~e~~~k~~~~~l~~~Lqql~~Eae~Ak~e---a~~~~~E~~~~k~E~e~~ka~i  409 (522)
T PF05701_consen  340 SSLEAELNKTRSELEAAKAEEEKAKEAMSELPKALQQLSSEAEEAKKE---AEEAKEEVEKAKEEAEQTKAAI  409 (522)
T ss_pred             hhHHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555544433332       3444444444444443322   2345556666666666666554

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

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

Probab=93.66  E-value=2.1  Score=43.31  Aligned_cols=116  Identities=20%  Similarity=0.265  Sum_probs=77.8

Q ss_pred             HhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhh---hhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHH
Q 030034           55 SENRHAIDDNTHLQRELTASKDEIHRLGQIIPK---LRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLN  131 (184)
Q Consensus        55 ~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~---i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~  131 (184)
                      +.+.++......|++||..++.++.....-|..   -..++|..+|+--  +.++       ..+++++.+...|.+++.
T Consensus         3 ~ql~~~q~E~e~L~~ele~~~~~l~~~~~~i~~fwspElkrer~~rkee--~a~l-------~~~k~qlr~~q~e~q~~~   73 (775)
T PF10174_consen    3 AQLERLQRENERLRRELERKQSKLGSSMNSIKTFWSPELKRERALRKEE--AAEL-------SRLKEQLRVTQEENQKAQ   73 (775)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHhHHHHHHHhHhcccchhhHHHHHHHHHH--HHHH-------HhHHHHHHHHHhhHHHHH
Confidence            456677777788899999998888877666543   3345555444421  1122       256777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-------h----------hhHHHHHHHHHHHHHHHHHhhhhhc
Q 030034          132 SSRQELTTQIKGLTKDVNRLEAE-------N----------KQLIAMRADIDGIRSELVEARFEIR  180 (184)
Q Consensus       132 ~~RQELt~qvq~ltqeL~r~~~d-------~----------qqip~l~aEid~lrqElqr~Raa~E  180 (184)
                      ..-+.|-.++ ....|+.+++..       .          .++--|.+|.|.+..|+-.+|.++|
T Consensus        74 ~ei~~LqeEL-r~q~e~~rL~~~~e~~~~e~e~l~~ld~~~~q~~rl~~E~er~~~El~~lr~~lE  138 (775)
T PF10174_consen   74 EEIQALQEEL-RAQRELNRLQQELEKAQYEFESLQELDKAQEQFERLQAERERLQRELERLRKTLE  138 (775)
T ss_pred             HHHHHHHHHH-HHhhHHHHHHHHhhhcccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777776 666666555554       3          3566677899999999999988765

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

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=93.52  E-value=2.2  Score=42.88  Aligned_cols=135  Identities=24%  Similarity=0.317  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhh-hhhcchhHHHHHH
Q 030034           43 IEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEV-ELRASEPVRAEVV  121 (184)
Q Consensus        43 La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEa-elRa~e~~k~El~  121 (184)
                      |+-|-.||+||=.+=+-|-.+-.-=+=-|.+--.||.++..+-..-++|.| ..|.-+   ++-|. -.+.-|..+.||.
T Consensus        68 is~qlqE~rrle~e~~~lre~sl~qkmrLe~qa~Ele~l~~ae~agraEae-~Lraal---a~ae~~R~~lEE~~q~ELe  143 (739)
T PF07111_consen   68 ISRQLQELRRLEEEVRALRETSLQQKMRLEAQAEELEALARAEKAGRAEAE-ELRAAL---AGAEVVRKNLEEGSQRELE  143 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhhHH-HHHHHH---hhHHHHHHhhHHHHHHHHH
Confidence            555668898888877666555322122233444477777666555555543 122111   11111 1111244455554


Q ss_pred             HHHH----HHHHHHHHHH----HHHHHHHHHHHHHHHHH----HhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          122 QLRA----EVQKLNSSRQ----ELTTQIKGLTKDVNRLE----AENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       122 Q~r~----e~q~L~~~RQ----ELt~qvq~ltqeL~r~~----~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      .++.    ++..|+.+=|    .|+.+++.|.+.|.-..    .+.+.+.+...|.|.|+++|-.....||-
T Consensus       144 e~q~~Hqeql~~Lt~aHq~~l~sL~~k~~~Le~~L~~le~~r~~e~~~La~~q~e~d~L~~qLsk~~~~le~  215 (739)
T PF07111_consen  144 EAQRLHQEQLSSLTQAHQEALASLTSKAEELEKSLESLETRRAGEAKELAEAQREADLLREQLSKTQEELEA  215 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            4432    3444444444    47888888888776544    57788999999999999999888777763

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

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

Probab=93.42  E-value=5.2  Score=35.28  Aligned_cols=17  Identities=24%  Similarity=0.292  Sum_probs=8.7

Q ss_pred             HhHHHHHHhhhhhhhhh
Q 030034           94 AHTRELFDRGLKLEVEL  110 (184)
Q Consensus        94 ~q~Rel~ek~~KmEael  110 (184)
                      ..++++=+|..+.|-.+
T Consensus        66 ~ei~~~r~r~~~~e~kl   82 (239)
T COG1579          66 SEIQEIRERIKRAEEKL   82 (239)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34455555555555554

>PRK11637 AmiB activator; Provisional

Probab=93.40  E-value=6.3  Score=36.19  Aligned_cols=22  Identities=5%  Similarity=0.105  Sum_probs=11.9

Q ss_pred             CChhhhHHHHHHHHHHHHHHHH
Q 030034           34 FHPMTLEEEIEIQRREMHRIIS   55 (184)
Q Consensus        34 p~p~~LEe~La~Q~~EiqrLl~   55 (184)
                      +.++-++++|.....+|..+-.
T Consensus        40 ~~~~~~~~~l~~l~~qi~~~~~   61 (428)
T PRK11637         40 AHASDNRDQLKSIQQDIAAKEK   61 (428)
T ss_pred             ccchhhHHHHHHHHHHHHHHHH
Confidence            3345566666665555554443

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=92.55  E-value=11  Score=36.82  Aligned_cols=45  Identities=22%  Similarity=0.265  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          137 LTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       137 Lt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      +..+...+...++..++...++|....|+..|..|..-.|..|+.
T Consensus       350 a~~~~~~L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~Y~~  394 (754)
T TIGR01005       350 AQARESQLVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQLYES  394 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHHHHH
Confidence            334455777888889999999999999999999999999988764

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

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

Probab=92.38  E-value=7.8  Score=40.30  Aligned_cols=135  Identities=16%  Similarity=0.273  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHH--------------HHHHhhhhhhhhhhhHHhHHHHHHhhhhhh
Q 030034           42 EIEIQRREMHRIISENRHAIDDNTHLQRELTASKDE--------------IHRLGQIIPKLRADKEAHTRELFDRGLKLE  107 (184)
Q Consensus        42 ~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~E--------------l~~l~~~i~~i~ae~e~q~Rel~ek~~KmE  107 (184)
                      ++..|.++|+--|-+-+|=|..---+++||.--.++              +..+.+-+-.+++|.+.||-++--++..+|
T Consensus       327 kltrqkadirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~e  406 (1265)
T KOG0976|consen  327 KLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRLE  406 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            567788888887888777777666666666532221              122233446788999999999999999999


Q ss_pred             hhhhcchhHHHHHHHHHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHHHHHHhhhhHH
Q 030034          108 VELRASEPVRAEVVQLRAEVQKLNSS----------------------------RQELTTQIKGLTKDVNRLEAENKQLI  159 (184)
Q Consensus       108 aelRa~e~~k~El~Q~r~e~q~L~~~----------------------------RQELt~qvq~ltqeL~r~~~d~qqip  159 (184)
                      .=-+.-|++|+||+.+---+..+.+.                            +.+|...++.++.-|++.+---|++-
T Consensus       407 ~~~~dhe~~kneL~~a~ekld~mgthl~mad~Q~s~fk~Lke~aegsrrraIeQcnemv~rir~l~~sle~qrKVeqe~e  486 (1265)
T KOG0976|consen  407 QGKKDHEAAKNELQEALEKLDLMGTHLSMADYQLSNFKVLKEHAEGSRRRAIEQCNEMVDRIRALMDSLEKQRKVEQEYE  486 (1265)
T ss_pred             hccchhHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhHHHHHHhhhhhHhhHHHHHHHHHHHHHHHhhChhhhcchHHHHH
Confidence            98899999999998776555544433                            45777888888888888888888888


Q ss_pred             HHHHHH-------HHHHHHHHHhh
Q 030034          160 AMRADI-------DGIRSELVEAR  176 (184)
Q Consensus       160 ~l~aEi-------d~lrqElqr~R  176 (184)
                      .|++|.       +-|..|||..|
T Consensus       487 mlKaen~rqakkiefmkEeiQeth  510 (1265)
T KOG0976|consen  487 MLKAENERQAKKIEFMKEEIQETH  510 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888874       45777777654

>PRK11637 AmiB activator; Provisional

Probab=92.37  E-value=8.8  Score=35.23  Aligned_cols=28  Identities=25%  Similarity=0.285  Sum_probs=12.8

Q ss_pred             hHHHHHHHHhhHHHHHHHhhhhhhhhhh
Q 030034           64 NTHLQRELTASKDEIHRLGQIIPKLRAD   91 (184)
Q Consensus        64 hvaLrqeL~aaq~El~~l~~~i~~i~ae   91 (184)
                      .-.+.++|...+.+|..+...|..++.+
T Consensus        91 i~~~~~~i~~~~~ei~~l~~eI~~~q~~  118 (428)
T PRK11637         91 LRETQNTLNQLNKQIDELNASIAKLEQQ  118 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444443

>PF13514 AAA_27: AAA domain

Probab=92.24  E-value=11  Score=38.78  Aligned_cols=136  Identities=19%  Similarity=0.272  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHH-----hHHHHHHhhhhhhhhhhcch----
Q 030034           44 EIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEA-----HTRELFDRGLKLEVELRASE----  114 (184)
Q Consensus        44 a~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~-----q~Rel~ek~~KmEaelRa~e----  114 (184)
                      -.+..|+++=+.+..--..+...|++++..++.++..+...+..++++...     .+..++.....++++|-+..    
T Consensus       156 l~~l~e~~~~l~~~~~~~~~y~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ler~~~~~p~~~~~~~l~~~l~~l~~~~~  235 (1111)
T PF13514_consen  156 LKELKELERELREAEVRAAEYQELQQALEEAEEELEELRAELKELRAELRRLERLRRAWPLLAELQQLEAELAELGEVPD  235 (1111)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcCCcCC
Confidence            345566666666666677788888899999999998888888888776553     44456777777777776432    


Q ss_pred             ---hHHHHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 030034          115 ---PVRAEVVQLRAEVQKLNSSRQELTTQ-----------------------IKGLTKDVNRLEAENKQLIAMRADIDGI  168 (184)
Q Consensus       115 ---~~k~El~Q~r~e~q~L~~~RQELt~q-----------------------vq~ltqeL~r~~~d~qqip~l~aEid~l  168 (184)
                         .-...+.++..++..+......+..+                       |..|...+.........+|.+..++..+
T Consensus       236 ~p~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~ll~~~~~I~~L~~~~~~~~~~~~dl~~~~~e~~~~  315 (1111)
T PF13514_consen  236 FPEDGAERLEQLEEELAEAQAQLERLQEELAQLEEELDALPVDEELLAHAAEIEALEEQRGEYRKARQDLPRLEAELAEL  315 (1111)
T ss_pred             CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               22334444444444444333333333                       3444445555555666677777777777


Q ss_pred             HHHHHHhhhhh
Q 030034          169 RSELVEARFEI  179 (184)
Q Consensus       169 rqElqr~Raa~  179 (184)
                      +.++..+-..+
T Consensus       316 ~~~~~~~~~~l  326 (1111)
T PF13514_consen  316 EAELRALLAQL  326 (1111)
T ss_pred             HHHHHHHHHhc
Confidence            77666655443

>TIGR00606 rad50 rad50

Probab=92.13  E-value=12  Score=39.47  Aligned_cols=22  Identities=9%  Similarity=0.066  Sum_probs=10.3

Q ss_pred             hHHHHHHHHHHHHHHHHHhhhh
Q 030034          157 QLIAMRADIDGIRSELVEARFE  178 (184)
Q Consensus       157 qip~l~aEid~lrqElqr~Raa  178 (184)
                      +.+.+..+|+.+..++..+++.
T Consensus       882 ~r~~le~~L~el~~el~~l~~~  903 (1311)
T TIGR00606       882 RRQQFEEQLVELSTEVQSLIRE  903 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444443

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

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

Probab=92.11  E-value=17  Score=37.88  Aligned_cols=90  Identities=26%  Similarity=0.427  Sum_probs=45.8

Q ss_pred             HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHH---hHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           62 DDNTHLQRELTASKDEIHRLGQIIPKLRADKEA---HTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELT  138 (184)
Q Consensus        62 athvaLrqeL~aaq~El~~l~~~i~~i~ae~e~---q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt  138 (184)
                      +.-..+..+++..+.++..++..+.++..+.+.   ++.++..+...+++++-.   ++.++..+..++..|....+++.
T Consensus       383 ~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~  459 (1163)
T COG1196         383 EELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEE---LQTELEELNEELEELEEQLEELR  459 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhhhHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444555555555554443332   333334444444444433   55566666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHh
Q 030034          139 TQIKGLTKDVNRLEAE  154 (184)
Q Consensus       139 ~qvq~ltqeL~r~~~d  154 (184)
                      .++..+.+++..++..
T Consensus       460 ~~~~~~~~~~~~~~~~  475 (1163)
T COG1196         460 DRLKELERELAELQEE  475 (1163)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666555555554443

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

Probab=92.03  E-value=5  Score=39.68  Aligned_cols=120  Identities=17%  Similarity=0.297  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhh-----hhhhHHhHHHHH-----Hhhhhhhhhhhcchh
Q 030034           46 QRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKL-----RADKEAHTRELF-----DRGLKLEVELRASEP  115 (184)
Q Consensus        46 Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i-----~ae~e~q~Rel~-----ek~~KmEaelRa~e~  115 (184)
                      ...||...-.||++|+.-.-+|+.+|..+..-+--+..+..++     +-+++.-.+++.     +++.|||++|.-...
T Consensus       329 ~~EeIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqkkEec~kme~qLkkAh~  408 (654)
T KOG4809|consen  329 RLEEIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQKKEECSKMEAQLKKAHN  408 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3568999999999999999999999887665554444444433     445666666654     789999998864433


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 030034          116 VRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIR  169 (184)
Q Consensus       116 ~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lr  169 (184)
                      .-.   -++++ ......++.|-...--..+++.++++++..+=.+-+|.++++
T Consensus       409 ~~d---dar~~-pe~~d~i~~le~e~~~y~de~~kaqaevdrlLeilkeveneK  458 (654)
T KOG4809|consen  409 IED---DARMN-PEFADQIKQLEKEASYYRDECGKAQAEVDRLLEILKEVENEK  458 (654)
T ss_pred             hhH---hhhcC-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            222   22222 234455666666666667777777777777777777666554

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=91.98  E-value=6.9  Score=33.13  Aligned_cols=138  Identities=19%  Similarity=0.295  Sum_probs=74.9

Q ss_pred             hhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhH-
Q 030034           38 TLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPV-  116 (184)
Q Consensus        38 ~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~-  116 (184)
                      -|.+.|+.-+.+++.|..||+-|=.-.  .||+-+-.+-  ..-..-+|.+-.=..-+||.|=++..+.....++.+.- 
T Consensus        16 ~L~n~l~elq~~l~~l~~ENk~Lk~lq--~Rq~kAL~k~--e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~kl   91 (194)
T PF15619_consen   16 ELQNELAELQRKLQELRKENKTLKQLQ--KRQEKALQKY--EDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKL   91 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH--HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            478889999999999999998775432  2333211111  01111222222222233333333333333333222211 


Q ss_pred             ---HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHH----------------------HHHhhhhHHHHHH
Q 030034          117 ---RAEVVQLRAEVQKLNS--------SRQELTTQIKGLTKDVNR----------------------LEAENKQLIAMRA  163 (184)
Q Consensus       117 ---k~El~Q~r~e~q~L~~--------~RQELt~qvq~ltqeL~r----------------------~~~d~qqip~l~a  163 (184)
                         -.|+.....+++.|..        .|.+|+.++..++..+..                      +.++..++-.+..
T Consensus        92 k~~~~el~k~~~~l~~L~~L~~dknL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rql~~e~kK~~~~~~  171 (194)
T PF15619_consen   92 KDKDEELLKTKDELKHLKKLSEDKNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQLASEKKKHKEAQE  171 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence               1233344444433322        367777776666655543                      3467778888999


Q ss_pred             HHHHHHHHHHHhhhhh
Q 030034          164 DIDGIRSELVEARFEI  179 (184)
Q Consensus       164 Eid~lrqElqr~Raa~  179 (184)
                      ++..+..|+.++..-+
T Consensus       172 ~~~~l~~ei~~L~~kl  187 (194)
T PF15619_consen  172 EVKSLQEEIQRLNQKL  187 (194)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999887755

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

Probab=91.84  E-value=8.5  Score=33.87  Aligned_cols=116  Identities=22%  Similarity=0.283  Sum_probs=56.4

Q ss_pred             hhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHH------hHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHH
Q 030034           59 HAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEA------HTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNS  132 (184)
Q Consensus        59 RLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~------q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~  132 (184)
                      .+.+....|..++...+.++..+...+..++++...      ....|+++..-...++   +..+.++.++..++..+.+
T Consensus       141 ~~~~~~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~~~L~~~g~is~~~~---~~~~~~~~~~~~~l~~~~~  217 (423)
T TIGR01843       141 TLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEELEARRKLKEKGLVSRLEL---LELERERAEAQGELGRLEA  217 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH---HHHHHHHHHHHhHHHHHHH
Confidence            344445555555555555555555555544443322      2233445433333332   2455566666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh-----hhhHHHHHHHHHHHHHHHHHhhh
Q 030034          133 SRQELTTQIKGLTKDVNRLEAE-----NKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       133 ~RQELt~qvq~ltqeL~r~~~d-----~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      .-..+..++..+..++.....+     ...+-.+.+++..++.++..++.
T Consensus       218 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~  267 (423)
T TIGR01843       218 ELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLNKARD  267 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555554443322     12233444444444444444443

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

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

Probab=91.83  E-value=1.3  Score=36.69  Aligned_cols=104  Identities=16%  Similarity=0.235  Sum_probs=28.9

Q ss_pred             ChhhhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcch
Q 030034           35 HPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASE  114 (184)
Q Consensus        35 ~p~~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e  114 (184)
                      ....++.++.....|+..+.-.|-.++..-+.+-.+|...+.++......|..++++...--..+-+.-..|+.-=++++
T Consensus        68 ~~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e  147 (194)
T PF08614_consen   68 QISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANE  147 (194)
T ss_dssp             ----------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33568999999999999999999999988888888888888888888777777766655433333333333333334455


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          115 PVRAEVVQLRAEVQKLNSSRQELT  138 (184)
Q Consensus       115 ~~k~El~Q~r~e~q~L~~~RQELt  138 (184)
                      -+++|+.-+..+.-.+..-...|.
T Consensus       148 ~l~DE~~~L~l~~~~~e~k~~~l~  171 (194)
T PF08614_consen  148 ILQDELQALQLQLNMLEEKLRKLE  171 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666555555444444333333

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

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

Probab=91.75  E-value=14  Score=39.01  Aligned_cols=56  Identities=20%  Similarity=0.468  Sum_probs=31.1

Q ss_pred             hhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 030034          114 EPVRAEVVQLRAEV-QKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSEL  172 (184)
Q Consensus       114 e~~k~El~Q~r~e~-q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqEl  172 (184)
                      +.++..+..++.+. +.+.+.+-+...++..|.+++.++..   ++-.|+.|++.++.++
T Consensus       375 d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~---~~~~L~~e~~~~~~~~  431 (1074)
T KOG0250|consen  375 DRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEE---QINSLREELNEVKEKA  431 (1074)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence            34444445555554 55666666666666666666666555   5555555555554443

>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=91.44  E-value=2.7  Score=33.33  Aligned_cols=66  Identities=21%  Similarity=0.383  Sum_probs=46.2

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       112 a~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      -++.|.+.|.+.-+|+..|...-.-|+.+=..++.||.++..++-.+-+...+++.|+.++..+..
T Consensus        17 ~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~   82 (120)
T PF12325_consen   17 LVERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQ   82 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666777777777777777777777777777777777777777777777777777777766554

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 [].

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

Probab=91.28  E-value=21  Score=37.45  Aligned_cols=74  Identities=24%  Similarity=0.322  Sum_probs=42.7

Q ss_pred             hhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhc
Q 030034          105 KLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR  180 (184)
Q Consensus       105 KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~E  180 (184)
                      .+.+++-....++.++..+.....-|.+.=+++..+-..+.+.|....  +.++..+.++++.++.++...+..++
T Consensus       346 ~~~~~~~~l~~~~~~~~~l~~~~~~Lt~~~~di~~ky~~~~~~l~~~~--~~~~~~~~~~~~~~~e~~~~~~~~~~  419 (1201)
T PF12128_consen  346 QLIARVDQLPEWRNELENLQEQLDLLTSKHQDIESKYNKLKQKLEEAF--NRQQERLQAQQDEIREEKAERREQIE  419 (1201)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444455555555555555555555555555555545444444  34777788888888888877766554

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

Probab=91.27  E-value=0.86  Score=46.07  Aligned_cols=57  Identities=21%  Similarity=0.461  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Q 030034          118 AEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVE  174 (184)
Q Consensus       118 ~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr  174 (184)
                      -||-++..|+-+|.+.|--|...+-.||-++.++....+-+|.|++++++|+|=|--
T Consensus       866 GElthlq~e~~~le~~Rs~laeElvklT~e~e~l~ek~~~~p~~~~~ledL~qRy~a  922 (961)
T KOG4673|consen  866 GELTHLQTELASLESIRSSLAEELVKLTAECEKLREKADRVPGIKAELEDLRQRYAA  922 (961)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            489999999999999999999999999999999999999999999999999986643

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=91.17  E-value=7.2  Score=31.77  Aligned_cols=43  Identities=23%  Similarity=0.197  Sum_probs=23.0

Q ss_pred             HHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhh
Q 030034           49 EMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRAD   91 (184)
Q Consensus        49 EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae   91 (184)
                      +..+.=.++--|-....+|..||...+.+...+-......+++
T Consensus        11 kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~e   53 (140)
T PF10473_consen   11 KLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAE   53 (140)
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3444444555555555566666666666666554444444433

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

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

Probab=91.13  E-value=3.9  Score=36.41  Aligned_cols=129  Identities=17%  Similarity=0.185  Sum_probs=71.6

Q ss_pred             HHHHHHh-hhhhH-HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhh-----HHhHHHHHHhhhhhhhhhhcchhHHHHHHH
Q 030034           50 MHRIISE-NRHAI-DDNTHLQRELTASKDEIHRLGQIIPKLRADK-----EAHTRELFDRGLKLEVELRASEPVRAEVVQ  122 (184)
Q Consensus        50 iqrLl~d-NqRLA-athvaLrqeL~aaq~El~~l~~~i~~i~ae~-----e~q~Rel~ek~~KmEaelRa~e~~k~El~Q  122 (184)
                      ++..+.. |.+.+ .+-.-|.+++..++++|......+.+.+.++     +.+.....+-+..|++++-..+.=-+++..
T Consensus       156 ~~~~i~~~~~~~~~~a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~  235 (362)
T TIGR01010       156 GERLINRLNERARKDTIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRS  235 (362)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4444444 33222 3445677777777777777776676666654     334445555555555554433322222221


Q ss_pred             H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhc
Q 030034          123 L----RAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR  180 (184)
Q Consensus       123 ~----r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~E  180 (184)
                      .    |-+++.|.+....|..+++...+.+..  +..+.+|...++.+.|..|..-++..|+
T Consensus       236 ~~~~~~P~v~~l~~~i~~l~~~i~~e~~~i~~--~~~~~l~~~~~~~~~L~re~~~a~~~y~  295 (362)
T TIGR01010       236 ITPEQNPQVPSLQARIKSLRKQIDEQRNQLSG--GLGDSLNEQTADYQRLVLQNELAQQQLK  295 (362)
T ss_pred             hCCCCCCchHHHHHHHHHHHHHHHHHHHHhhc--CCCccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1    223444444444444444443333321  1234688889999999999999888876

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

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=91.01  E-value=24  Score=37.59  Aligned_cols=22  Identities=18%  Similarity=0.276  Sum_probs=9.7

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhh
Q 030034           39 LEEEIEIQRREMHRIISENRHA   60 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRL   60 (184)
                      |+++|+.-..+|..+-..-..|
T Consensus       747 l~~~IaeL~~~i~~l~~~l~~l  768 (1353)
T TIGR02680       747 LDARLAAVDDELAELARELRAL  768 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444544444444443333333

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

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

Probab=90.96  E-value=1.7  Score=30.86  Aligned_cols=40  Identities=25%  Similarity=0.405  Sum_probs=28.5

Q ss_pred             hhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          105 KLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGL  144 (184)
Q Consensus       105 KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~l  144 (184)
                      -|++|+||-..+..||..+++....+..-=||--.+-+.|
T Consensus         5 aL~~EirakQ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL   44 (61)
T PF08826_consen    5 ALEAEIRAKQAIQEELTKVKSANLAFESKLQEAEKRNREL   44 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4899999999999999999988776655444433333333

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=90.91  E-value=4  Score=34.91  Aligned_cols=8  Identities=13%  Similarity=0.302  Sum_probs=3.0

Q ss_pred             HHHHhhHH
Q 030034           69 RELTASKD   76 (184)
Q Consensus        69 qeL~aaq~   76 (184)
                      +||+.++.
T Consensus       100 ~el~~l~~  107 (206)
T PRK10884        100 NQVKTLTD  107 (206)
T ss_pred             HHHHHHHH
Confidence            33333333

>PRK11546 zraP zinc resistance protein; Provisional

Probab=90.74  E-value=0.65  Score=38.04  Aligned_cols=52  Identities=15%  Similarity=0.237  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhc
Q 030034          129 KLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR  180 (184)
Q Consensus       129 ~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~E  180 (184)
                      +-...|++|.++=..|...++....|-+.|-+|..||..|++.|.-.|..|+
T Consensus        62 ~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~~  113 (143)
T PRK11546         62 QTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKRD  113 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455677788888888888888999999999999999999999998888665

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

Probab=90.64  E-value=4  Score=37.08  Aligned_cols=84  Identities=24%  Similarity=0.388  Sum_probs=60.9

Q ss_pred             HHHHHhhhhhhhhhhcchh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhHHHHHHHHHHHH
Q 030034           97 RELFDRGLKLEVELRASEP---VRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAE----NKQLIAMRADIDGIR  169 (184)
Q Consensus        97 Rel~ek~~KmEaelRa~e~---~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d----~qqip~l~aEid~lr  169 (184)
                      +.|++++..|+-+|...+.   ...++.-+.++|..|...+.++..+|+.+.++.+..+-+    .+.+..++.+.|.|+
T Consensus       134 ~~lvq~I~~L~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~h  213 (294)
T COG1340         134 RELVQKIKELRKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELH  213 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678888888877776653   445566666777777777777777777777777666544    355678889999999


Q ss_pred             HHHHHhhhhhc
Q 030034          170 SELVEARFEIR  180 (184)
Q Consensus       170 qElqr~Raa~E  180 (184)
                      .++...+..++
T Consensus       214 e~~ve~~~~~~  224 (294)
T COG1340         214 EEFVELSKKID  224 (294)
T ss_pred             HHHHHHHHHhH
Confidence            98888777664

>PRK11519 tyrosine kinase; Provisional

Probab=90.52  E-value=8.3  Score=37.97  Aligned_cols=113  Identities=13%  Similarity=0.217  Sum_probs=72.5

Q ss_pred             HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhh-----HHhHHHHHHhhhhhhhhhhcchhHHHHHHHH----HHHHHHHHH
Q 030034           62 DDNTHLQRELTASKDEIHRLGQIIPKLRADK-----EAHTRELFDRGLKLEVELRASEPVRAEVVQL----RAEVQKLNS  132 (184)
Q Consensus        62 athvaLrqeL~aaq~El~~l~~~i~~i~ae~-----e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~----r~e~q~L~~  132 (184)
                      .+-.=|.++|...+.+|...-..+.+.+.++     +.+.+.+++....+++++...+...+++.+.    |-.+     
T Consensus       267 ~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~vd~~~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~y~~~hP~v-----  341 (719)
T PRK11519        267 KSLAFLAQQLPEVRSRLDVAENKLNAFRQDKDSVDLPLEAKAVLDSMVNIDAQLNELTFKEAEISKLYTKEHPAY-----  341 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcHH-----
Confidence            4445566666666666666655555555543     3445556666666655554433333333221    1112     


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          133 SRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       133 ~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                        +.|..+.+.|.++++.+++....+|....++..|..+..-.+..|++
T Consensus       342 --~~l~~~~~~L~~~~~~l~~~~~~lp~~e~~~~~L~Re~~~~~~lY~~  388 (719)
T PRK11519        342 --RTLLEKRKALEDEKAKLNGRVTAMPKTQQEIVRLTRDVESGQQVYMQ  388 (719)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence              33455667788888888999999999999999999999988888764

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

Probab=90.31  E-value=12  Score=36.70  Aligned_cols=84  Identities=21%  Similarity=0.305  Sum_probs=48.6

Q ss_pred             HHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhh----cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           70 ELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELR----ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLT  145 (184)
Q Consensus        70 eL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelR----a~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~lt  145 (184)
                      ++..++.++...-..+..+.+|-..    +--++.+||.|+.    .+.-++.+|.-+|+....=+..|.++..++|.|.
T Consensus       135 ~~~~~re~~~~~~~~l~~leAe~~~----~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Ll  210 (546)
T KOG0977|consen  135 ERRGAREKLDDYLSRLSELEAEINT----LKRRIKALEDELKRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTLL  210 (546)
T ss_pred             HHhhhHHHHHHHhhhhhhhhhHHHH----HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            3334444444444445544444433    4455666766654    2334455555555555555678888888888888


Q ss_pred             HHHHHHHHhhhh
Q 030034          146 KDVNRLEAENKQ  157 (184)
Q Consensus       146 qeL~r~~~d~qq  157 (184)
                      +||+=......+
T Consensus       211 eel~f~~~~h~~  222 (546)
T KOG0977|consen  211 EELAFLKRIHKQ  222 (546)
T ss_pred             HHHHHHHhccHH
Confidence            888776654443

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=90.13  E-value=4.3  Score=29.21  Aligned_cols=60  Identities=17%  Similarity=0.230  Sum_probs=36.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          115 PVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       115 ~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      .++..+.++...+.+....-..|+..=.+...-|..+..++   -.|++|++.|++|+.+.|+
T Consensus         9 ~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~---~~Lk~E~e~L~~el~~~r~   68 (69)
T PF14197_consen    9 TLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEEN---NKLKEENEALRKELEELRA   68 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhhc
Confidence            34555555555555555555555444444444444444443   3578899999999988774

>PRK09039 hypothetical protein; Validated

Probab=89.65  E-value=16  Score=33.25  Aligned_cols=50  Identities=16%  Similarity=0.281  Sum_probs=35.2

Q ss_pred             hhhHHHHHHHHHHHHHHH-------HhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhh
Q 030034           37 MTLEEEIEIQRREMHRII-------SENRHAIDDNTHLQRELTASKDEIHRLGQIIP   86 (184)
Q Consensus        37 ~~LEe~La~Q~~EiqrLl-------~dNqRLAathvaLrqeL~aaq~El~~l~~~i~   86 (184)
                      .-++++|..-..+|-.|-       .-|..|-..-..|+.++.+++.+-.++.....
T Consensus        49 ~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~  105 (343)
T PRK09039         49 SGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALLA  105 (343)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            457888888888887765       34556666777778888877777776665544

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

Probab=89.12  E-value=3.1  Score=37.20  Aligned_cols=64  Identities=19%  Similarity=0.302  Sum_probs=58.0

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH----HHHHHHHHHHHHHHHHh
Q 030034          112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL----IAMRADIDGIRSELVEA  175 (184)
Q Consensus       112 a~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqi----p~l~aEid~lrqElqr~  175 (184)
                      ++..+..++.+.+..+.+|.+.-..|.+|++.-+.||.|.+.-++.+    |+-..|-|.|..||+..
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~l  237 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKL  237 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHH
Confidence            45678899999999999999999999999999999999999777776    88899999999999875

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

>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=88.96  E-value=11  Score=32.18  Aligned_cols=37  Identities=16%  Similarity=0.435  Sum_probs=24.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          114 EPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNR  150 (184)
Q Consensus       114 e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r  150 (184)
                      +..+.++..+...+..+...+++|..-+..+-..|..
T Consensus        80 ~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~  116 (251)
T PF11932_consen   80 ASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQ  116 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555666666666777777777777777666666665

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.

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

Probab=88.90  E-value=33  Score=35.99  Aligned_cols=31  Identities=23%  Similarity=0.313  Sum_probs=20.3

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          147 DVNRLEAENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       147 eL~r~~~d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      ++..+..++.++|.++.+++.++.++.-+=+
T Consensus       343 ~i~~~~~~~~~l~~~~~~~~~l~~~~~~Lt~  373 (1201)
T PF12128_consen  343 DIEQLIARVDQLPEWRNELENLQEQLDLLTS  373 (1201)
T ss_pred             CHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            4555566677777777777777776655433

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

Probab=88.85  E-value=26  Score=37.07  Aligned_cols=61  Identities=20%  Similarity=0.279  Sum_probs=37.6

Q ss_pred             HHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030034           96 TRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENK  156 (184)
Q Consensus        96 ~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~q  156 (184)
                      .+++.++...+|..--..+-++.|+.++..+++++...--..+..+++..+.|..+..++.
T Consensus       740 ~~ei~~~~~eIe~~~~~~e~l~~e~e~~~~e~~e~~~~~~~~~~~l~~e~~~l~~l~~el~  800 (1074)
T KOG0250|consen  740 AREIKKKEKEIEEKEAPLEKLKEELEHIELEAQELEEYYAAGREKLQGEISKLDALKEELK  800 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            4445555555555555567777888888888877776666666666655555555544433

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=88.71  E-value=18  Score=32.71  Aligned_cols=104  Identities=13%  Similarity=0.209  Sum_probs=63.6

Q ss_pred             HHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           65 THLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGL  144 (184)
Q Consensus        65 vaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~l  144 (184)
                      ..|+++|...+.++..+....+    ++--.|..+-.++..++..|      +.|+..+...+   ...-..+..++..+
T Consensus       257 ~~l~~~l~~le~~l~~l~~~y~----~~hP~v~~l~~~i~~l~~~l------~~e~~~~~~~~---~~~~~~~~~~~~~l  323 (444)
T TIGR03017       257 QNLKTDIARAESKLAELSQRLG----PNHPQYKRAQAEINSLKSQL------NAEIKKVTSSV---GTNSRILKQREAEL  323 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhC----CCCcHHHHHHHHHHHHHHHH------HHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            3566666666666665544332    34444444444444444433      22333332222   22223455667778


Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          145 TKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       145 tqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      ...++..+.+...+|....++..|..|+.-++..|++
T Consensus       324 ~~~l~~~~~~~~~l~~~~~~~~~L~r~~~~~~~~y~~  360 (444)
T TIGR03017       324 REALENQKAKVLELNRQRDEMSVLQRDVENAQRAYDA  360 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888889999999999999999998887764

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.

>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins

Probab=88.58  E-value=2.3  Score=31.10  Aligned_cols=49  Identities=20%  Similarity=0.488  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH-HHHH
Q 030034          123 LRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDG-IRSE  171 (184)
Q Consensus       123 ~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~-lrqE  171 (184)
                      +..++..|.....||+.++.....++.+.+.+.++|-.+++..+- |..|
T Consensus         1 L~kdv~~l~~EkeeL~~klk~~qeel~~~k~~~~~~~~ik~~~eK~L~~E   50 (69)
T PF08912_consen    1 LTKDVANLAKEKEELNNKLKKQQEELQKLKEEEQEIEEIKAQYEKQLNTE   50 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHCHHHH
T ss_pred             CchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467899999999999999999999999999999999999988775 3554

This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=88.38  E-value=21  Score=33.03  Aligned_cols=21  Identities=14%  Similarity=0.341  Sum_probs=10.2

Q ss_pred             hHHHHHHHHHHHHHHHHHhhh
Q 030034          157 QLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       157 qip~l~aEid~lrqElqr~Ra  177 (184)
                      .+..+..+++.++.++..+++
T Consensus       237 ~~~~~~~~i~~l~~~i~~~~~  257 (457)
T TIGR01000       237 ILATIQQQIDQLQKSIASYQV  257 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555544444

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

>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=88.09  E-value=11  Score=29.48  Aligned_cols=90  Identities=20%  Similarity=0.314  Sum_probs=49.2

Q ss_pred             HHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHH
Q 030034           49 EMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQ  128 (184)
Q Consensus        49 EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q  128 (184)
                      |+..|-.+.+++-..-......+..++.||.........++.   .+-|+|+--+           ..-.+|..++.+..
T Consensus         4 e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~---~YE~El~~Ha-----------~~~~~L~~lr~e~~   69 (132)
T PF07926_consen    4 ELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQ---KYERELVKHA-----------EDIKELQQLREELQ   69 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhH-----------HHHHHHHHHHHHHH
Confidence            444555555555555566666777777777766655554443   2444444333           22344555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          129 KLNSSRQELTTQIKGLTKDVNRLE  152 (184)
Q Consensus       129 ~L~~~RQELt~qvq~ltqeL~r~~  152 (184)
                      .+.....+|...+......|....
T Consensus        70 ~~~~~~~~l~~~~~~a~~~l~~~e   93 (132)
T PF07926_consen   70 ELQQEINELKAEAESAKAELEESE   93 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555443

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

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

Probab=87.28  E-value=14  Score=36.48  Aligned_cols=86  Identities=19%  Similarity=0.244  Sum_probs=70.8

Q ss_pred             hHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Q 030034           92 KEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSE  171 (184)
Q Consensus        92 ~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqE  171 (184)
                      .+..-|+|++++.-.|++=...+.+|..-.-++.|+.|+.+.=..+.++-|.+.+.|.+.+++.   -..-.|++.|+++
T Consensus       240 l~~~n~~l~e~i~e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Ei---e~kEeE~e~lq~~  316 (581)
T KOG0995|consen  240 LKKTNRELEEMINEREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEI---EEKEEEIEKLQKE  316 (581)
T ss_pred             HHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Confidence            3445678999999888888888999999999999999999999999999999999999998874   3455677777777


Q ss_pred             HHHhhhhhc
Q 030034          172 LVEARFEIR  180 (184)
Q Consensus       172 lqr~Raa~E  180 (184)
                      .-.++.-||
T Consensus       317 ~d~Lk~~Ie  325 (581)
T KOG0995|consen  317 NDELKKQIE  325 (581)
T ss_pred             HHHHHHHHH
Confidence            777766665

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

Probab=87.13  E-value=32  Score=33.83  Aligned_cols=124  Identities=19%  Similarity=0.285  Sum_probs=76.2

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHH----------------------HHHHhhHHHHHHHhhhhhhhhhhhHHhH
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQ----------------------RELTASKDEIHRLGQIIPKLRADKEAHT   96 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLr----------------------qeL~aaq~El~~l~~~i~~i~ae~e~q~   96 (184)
                      |=+|||.=..=++-|=++|.+|-.+.--||                      ..|..+..+...+..-|..++.|-+. .
T Consensus        47 LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl~~e~~e-l  125 (546)
T KOG0977|consen   47 LNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIEITKLREELKE-L  125 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH-H
Confidence            445666666667777777777765544333                      33444444444444555555555443 2


Q ss_pred             HHHHHhhh--------hhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 030034           97 RELFDRGL--------KLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRA  163 (184)
Q Consensus        97 Rel~ek~~--------KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~a  163 (184)
                      +..+++..        ++--.+-....+.+|+..+...+..|...-..|..+.-.|..+|++++....+=-.++-
T Consensus       126 r~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~  200 (546)
T KOG0977|consen  126 RKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLDDETLLRV  200 (546)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence            33333331        12222445567778888888888888888888888888888888888876665444433

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

Probab=87.10  E-value=13  Score=29.27  Aligned_cols=89  Identities=15%  Similarity=0.315  Sum_probs=45.1

Q ss_pred             HHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHH
Q 030034           50 MHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQK  129 (184)
Q Consensus        50 iqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~  129 (184)
                      |-.|+..-++-...+-.|-..+.....|+.++...+..++..-+                     ....|+..+..+...
T Consensus        40 i~~Ll~~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~---------------------~~ere~~~~~~~~~~   98 (151)
T PF11559_consen   40 IYDLLQQRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLE---------------------ELERELASAEEKERQ   98 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHH
Confidence            44444444454555555555555555555555444444433322                     233444444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 030034          130 LNSSRQELTTQIKGLTKDVNRLEAENKQLI  159 (184)
Q Consensus       130 L~~~RQELt~qvq~ltqeL~r~~~d~qqip  159 (184)
                      |...-..+...+.....|++|.+...+++-
T Consensus        99 l~~~~~~~~~~~k~~kee~~klk~~~~~~~  128 (151)
T PF11559_consen   99 LQKQLKSLEAKLKQEKEELQKLKNQLQQRK  128 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555566666666666665555543

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

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

Probab=87.06  E-value=20  Score=31.47  Aligned_cols=40  Identities=20%  Similarity=0.371  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030034          118 AEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ  157 (184)
Q Consensus       118 ~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qq  157 (184)
                      .++...+.++..+......+.+++..+..++..++.+..+
T Consensus       196 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~  235 (423)
T TIGR01843       196 LELLELERERAEAQGELGRLEAELEVLKRQIDELQLERQQ  235 (423)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444433

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

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

Probab=86.99  E-value=28  Score=36.85  Aligned_cols=132  Identities=17%  Similarity=0.256  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHh---HHHHHHhhhhhhhhhhcchhH
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAH---TRELFDRGLKLEVELRASEPV  116 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q---~Rel~ek~~KmEaelRa~e~~  116 (184)
                      ..+++....+..+=-.+=++|-.+|-.|.+++...+..+.-+...|.++.+|-+..   +.....-.-+..++|.-....
T Consensus       800 k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k  879 (1174)
T KOG0933|consen  800 KQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAK  879 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHH
Confidence            34455555555555666678889999999999999999998888888777765532   122222222222222211111


Q ss_pred             H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Q 030034          117 R----AEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVE  174 (184)
Q Consensus       117 k----~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr  174 (184)
                      -    .|+.-.-.+.++.....++...+++.+..|+.+..++..   ..+.+++.|.+++-.
T Consensus       880 ~~~~dt~i~~~~~~~e~~~~e~~~~~l~~kkle~e~~~~~~e~~---~~~k~v~~l~~k~~w  938 (1174)
T KOG0933|consen  880 QRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVTKLESEKA---NARKEVEKLLKKHEW  938 (1174)
T ss_pred             HHhhhHHHhhhhhHHHHHHHHhhcccchHHHHHhHHHHhhhhHH---HHHHHHHHHHHhccc
Confidence            1    111122233344445555555666667777777666653   456667777666543

>PHA02562 46 endonuclease subunit; Provisional

Probab=85.79  E-value=30  Score=32.13  Aligned_cols=45  Identities=11%  Similarity=0.251  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Q 030034          130 LNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVE  174 (184)
Q Consensus       130 L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr  174 (184)
                      |...+.+|..++..+...+..+.....++-.+...+..++.++..
T Consensus       304 l~d~i~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~  348 (562)
T PHA02562        304 IKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKIST  348 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444433333333333333333333333333333

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

Probab=85.78  E-value=17  Score=29.24  Aligned_cols=117  Identities=20%  Similarity=0.187  Sum_probs=81.3

Q ss_pred             HHHHHHHhhHHHHHHHhhhhhhh---hhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           66 HLQRELTASKDEIHRLGQIIPKL---RADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIK  142 (184)
Q Consensus        66 aLrqeL~aaq~El~~l~~~i~~i---~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq  142 (184)
                      +||-|...|..=...+..-+..+   ....|.+|.+|-.|+..+|.+|-.++.==.++...-.+..+..+.=.-|+.+|+
T Consensus         4 ~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq   83 (143)
T PF12718_consen    4 ALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQ   83 (143)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHH
Confidence            34444444444333333333222   346788899999999999999877666555555555555555554457999999


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhccc
Q 030034          143 GLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRYF  182 (184)
Q Consensus       143 ~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~EyE  182 (184)
                      .|-.+|..+...+...-.-..+++.-=.++-|-..++|.+
T Consensus        84 ~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~  123 (143)
T PF12718_consen   84 LLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQE  123 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhh
Confidence            9999999999998888887777777777777777776654

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

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

Probab=85.51  E-value=42  Score=33.76  Aligned_cols=109  Identities=23%  Similarity=0.417  Sum_probs=61.7

Q ss_pred             HHHhhHHHHHHHhhhhhhhhhhh------------------HHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHH
Q 030034           70 ELTASKDEIHRLGQIIPKLRADK------------------EAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLN  131 (184)
Q Consensus        70 eL~aaq~El~~l~~~i~~i~ae~------------------e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~  131 (184)
                      ++..+++||..++.+++..++-.                  -..=-..+.|+.+||+||+-   ++.||--++.|-..|.
T Consensus        58 eyd~~R~Eldqtkeal~q~~s~hkk~~~~g~e~EesLLqESaakE~~yl~kI~eleneLKq---~r~el~~~q~E~erl~  134 (772)
T KOG0999|consen   58 EYDLARTELDQTKEALGQYRSQHKKVARDGEEREESLLQESAAKEEYYLQKILELENELKQ---LRQELTNVQEENERLE  134 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHhHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence            44566677777776666554321                  11122467889999999874   4555655555555555


Q ss_pred             HHHHHHH-------HHHHHHHHHHH--------------HHHHh----hhhHHHHH---HHHHHHHHHHHHhhhhhcc
Q 030034          132 SSRQELT-------TQIKGLTKDVN--------------RLEAE----NKQLIAMR---ADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       132 ~~RQELt-------~qvq~ltqeL~--------------r~~~d----~qqip~l~---aEid~lrqElqr~Raa~Ey  181 (184)
                      ..-+++-       .+--.|..||.              -+..+    -+||..|+   -|.+|+++|+.|+--.+||
T Consensus       135 ~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~LR~sQVEyEglkheikRleEe~el  212 (772)
T KOG0999|consen  135 KVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSNLRQSQVEYEGLKHEIKRLEEETEL  212 (772)
T ss_pred             HHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHH
Confidence            5444432       22222222222              11111    24555555   4889999999888766665

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

Probab=85.40  E-value=35  Score=32.51  Aligned_cols=97  Identities=18%  Similarity=0.242  Sum_probs=63.1

Q ss_pred             HHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhc------chhHHHHHHHHHH
Q 030034           52 RIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRA------SEPVRAEVVQLRA  125 (184)
Q Consensus        52 rLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa------~e~~k~El~Q~r~  125 (184)
                      ..+....-+..-.--++.++...+.|+.--+.-+..+-..+|.-|-.|=.++..  ..+-.      .+.++.|..+++.
T Consensus       211 ~~l~~~~e~~~~l~l~~~~~~~~~~el~~Yk~kA~~iLq~kEklI~~LK~~~~~--~~~~~~~~~~el~~l~~E~~~~~e  288 (511)
T PF09787_consen  211 EYLRESGELQEQLELLKAEGESEEAELQQYKQKAQRILQSKEKLIESLKEGCLE--EGFDSSTNSIELEELKQERDHLQE  288 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccc--cccccccchhcchhhHHHHHHHHH
Confidence            333444444445555666666777777777666666777788777777664444  12222      5678889998888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          126 EVQKLNSSRQELTTQIKGLTKDVNR  150 (184)
Q Consensus       126 e~q~L~~~RQELt~qvq~ltqeL~r  150 (184)
                      +++.|...=+.|..+++.+..++..
T Consensus       289 e~~~l~~Qi~~l~~e~~d~e~~~~~  313 (511)
T PF09787_consen  289 EIQLLERQIEQLRAELQDLEAQLEG  313 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888887776667776666655544

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

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

Probab=85.33  E-value=7.3  Score=35.03  Aligned_cols=25  Identities=20%  Similarity=0.400  Sum_probs=0.0

Q ss_pred             HHHHHHHhhHHHHHHHhhhhhhhhh
Q 030034           66 HLQRELTASKDEIHRLGQIIPKLRA   90 (184)
Q Consensus        66 aLrqeL~aaq~El~~l~~~i~~i~a   90 (184)
                      .|..++..++.|.......+..++.
T Consensus        13 ~l~~~~~~~~~E~~~Y~~fL~~l~~   37 (314)
T PF04111_consen   13 QLDKQLEQAEKERDTYQEFLKKLEE   37 (314)
T ss_dssp             -------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4667777777787777777777763

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

>smart00787 Spc7 Spc7 kinetochore protein

Probab=85.19  E-value=29  Score=31.43  Aligned_cols=89  Identities=24%  Similarity=0.327  Sum_probs=36.9

Q ss_pred             HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           62 DDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQI  141 (184)
Q Consensus        62 athvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qv  141 (184)
                      ..+..|+.|....-..+..++...+.++.-.+. +..=+....+.-.++...+  -.|+.+++.++.++...=.....++
T Consensus       151 ~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~-L~~e~~~L~~~~~e~~~~d--~~eL~~lk~~l~~~~~ei~~~~~~l  227 (312)
T smart00787      151 ENLEGLKEDYKLLMKELELLNSIKPKLRDRKDA-LEEELRQLKQLEDELEDCD--PTELDRAKEKLKKLLQEIMIKVKKL  227 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhHHHHHhCC--HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555555555443332 1111222233333333322  1234445544444433333333344


Q ss_pred             HHHHHHHHHHHH
Q 030034          142 KGLTKDVNRLEA  153 (184)
Q Consensus       142 q~ltqeL~r~~~  153 (184)
                      ..+.++|+...+
T Consensus       228 ~e~~~~l~~l~~  239 (312)
T smart00787      228 EELEEELQELES  239 (312)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

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

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

Probab=85.08  E-value=36  Score=32.41  Aligned_cols=22  Identities=18%  Similarity=0.282  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhh
Q 030034          158 LIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       158 ip~l~aEid~lrqElqr~Raa~  179 (184)
                      +|.|+.|.+.++.|++.++.-|
T Consensus       276 l~~l~~E~~~~~ee~~~l~~Qi  297 (511)
T PF09787_consen  276 LEELKQERDHLQEEIQLLERQI  297 (511)
T ss_pred             chhhHHHHHHHHHHHHHHHHHH
Confidence            7888888888888888887766

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

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

Probab=85.06  E-value=0.65  Score=38.85  Aligned_cols=35  Identities=26%  Similarity=0.356  Sum_probs=14.8

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHH
Q 030034           37 MTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKD   76 (184)
Q Consensus        37 ~~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~   76 (184)
                      ++||.+|    .|-..|...+|||-++---||||| ..++
T Consensus        17 alLE~EL----dEKE~L~~~~QRLkDE~RDLKqEl-~V~e   51 (166)
T PF04880_consen   17 ALLESEL----DEKENLREEVQRLKDELRDLKQEL-IVQE   51 (166)
T ss_dssp             HHHHHHH----HHHHHHHHCH-------------------
T ss_pred             HHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Confidence            5788888    788899999999999999999999 4443

Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.

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

Probab=83.79  E-value=30  Score=31.69  Aligned_cols=74  Identities=24%  Similarity=0.331  Sum_probs=43.2

Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhc
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIR  180 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~E  180 (184)
                      .|.|.+--.+-+|+.|.+-+.-.+..|...||-|+-.+|.-+.-+.=+   -.|+-.-+..|+.|-+|+.++++-+|
T Consensus        53 qK~e~ek~e~s~LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~l---EgQl~s~Kkqie~Leqelkr~KsELE  126 (307)
T PF10481_consen   53 QKVEEEKNEYSALKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFL---EGQLNSCKKQIEKLEQELKRCKSELE  126 (307)
T ss_pred             HHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555566666666666666666666666665555444433322   23555566666666666666666554

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

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=83.40  E-value=14  Score=26.52  Aligned_cols=48  Identities=15%  Similarity=0.109  Sum_probs=37.8

Q ss_pred             hhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhh
Q 030034           58 RHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLK  105 (184)
Q Consensus        58 qRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~K  105 (184)
                      ++|-+++.+|+-.|..+-..+...-.....+..|+|.-++.|-+....
T Consensus         1 ~~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e   48 (69)
T PF14197_consen    1 QKLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEE   48 (69)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467788888888888888888888888888888998877776655443

>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein

Probab=83.11  E-value=36  Score=30.94  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=18.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          156 KQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       156 qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      ..+-.+.+++...+.++..++..++|
T Consensus       227 ~~~~~~~~~l~~~~~~l~~~~~~l~~  252 (421)
T TIGR03794       227 KELETVEARIKEARYEIEELENKLNL  252 (421)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35666777888888888887777764

Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=82.78  E-value=15  Score=31.44  Aligned_cols=23  Identities=13%  Similarity=0.237  Sum_probs=10.8

Q ss_pred             HhhhhhhhhhhcchhHHHHHHHHHHH
Q 030034          101 DRGLKLEVELRASEPVRAEVVQLRAE  126 (184)
Q Consensus       101 ek~~KmEaelRa~e~~k~El~Q~r~e  126 (184)
                      ++.-++|.++-   .+++++..++.+
T Consensus        93 ~rlp~le~el~---~l~~~l~~~~~~  115 (206)
T PRK10884         93 TRVPDLENQVK---TLTDKLNNIDNT  115 (206)
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHhH
Confidence            44455555543   333444444444

>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=82.62  E-value=8.4  Score=31.43  Aligned_cols=63  Identities=22%  Similarity=0.346  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          117 RAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       117 k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      ..++....+.+.++...+..|.+|+....+.|..++..+.-+..|+++|+.|+.++..+-..+
T Consensus        12 gk~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~   74 (155)
T PF06810_consen   12 GKDIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEY   74 (155)
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556778888889999999999999999999999999999999999999998887544433

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

>TIGR02231 conserved hypothetical protein

Probab=82.62  E-value=19  Score=33.97  Aligned_cols=39  Identities=18%  Similarity=0.226  Sum_probs=17.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          115 PVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEA  153 (184)
Q Consensus       115 ~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~  153 (184)
                      .+++=+.-+..+..+|.....+|..++..+.++|++++.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  166 (525)
T TIGR02231       128 EWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSELQN  166 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444433

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

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

Probab=82.56  E-value=0.4  Score=46.94  Aligned_cols=114  Identities=18%  Similarity=0.325  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHhhhhh---HHhhHHHHHHHHhhHHHHHHHhhh---hhhhh----------h---hhHHhHHHHHHhhhh
Q 030034           45 IQRREMHRIISENRHA---IDDNTHLQRELTASKDEIHRLGQI---IPKLR----------A---DKEAHTRELFDRGLK  105 (184)
Q Consensus        45 ~Q~~EiqrLl~dNqRL---AathvaLrqeL~aaq~El~~l~~~---i~~i~----------a---e~e~q~Rel~ek~~K  105 (184)
                      ....||..|-..|+-|   |..-.+||.||-..++.-.++...   +.+.+          .   +=+-+...++++...
T Consensus       271 ~le~ei~~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~r~~klE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~  350 (713)
T PF05622_consen  271 ELEKEIDELRQENEELQAEAREARALRDELDELREKADRADKLENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAM  350 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445565666666544   456667777777666654443322   22111          0   112244667888899


Q ss_pred             hhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 030034          106 LEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL  158 (184)
Q Consensus       106 mEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqi  158 (184)
                      ||.+++...+++..+...+..|..|...+.+.+.++..+..|+.++...+..+
T Consensus       351 LEeel~~~~~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~L~ek~~~l  403 (713)
T PF05622_consen  351 LEEELKKARALKSQLEEYKKQIQELEQKLSEESRRADKLEFENKQLEEKLEAL  403 (713)
T ss_dssp             -----------------------------------------------------
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999988888888888888777666543

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=82.55  E-value=25  Score=28.66  Aligned_cols=45  Identities=24%  Similarity=0.409  Sum_probs=24.5

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030034          113 SEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ  157 (184)
Q Consensus       113 ~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qq  157 (184)
                      .|.-|+|+.-+..++..+++.++.|.+.+..++.|-.-+....|+
T Consensus        47 aEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~   91 (140)
T PF10473_consen   47 AENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQK   91 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666666666666655555444333333333

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=82.44  E-value=27  Score=32.26  Aligned_cols=45  Identities=20%  Similarity=0.241  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          137 LTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       137 Lt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      +-.+.+.|.++++.+++.+..+|....++..|..|++-.|+.|+-
T Consensus       347 l~~~~~~L~~~~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~  391 (458)
T COG3206         347 LEQQEAALEKELAQLKGRLSKLPKLQVQLRELEREAEAARSLYET  391 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHH
Confidence            788889999999999999999999999999999999999998873

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

Probab=82.39  E-value=10  Score=28.92  Aligned_cols=63  Identities=14%  Similarity=0.244  Sum_probs=48.5

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          113 SEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       113 ~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      .-.+..+|..++.+.-.+...-++|+.+++.++++...-..    -|.+..+|+.++.+++..|.-.
T Consensus        12 ~~~l~~~L~~v~~~~l~l~~~n~el~~el~~l~~~~~~~~~----~~~~~~~l~~~~~~lk~~r~~~   74 (106)
T PF05837_consen   12 SRSLQEKLSDVEKKRLRLKRRNQELAQELLELAEKQKSQRE----DEELSEKLEKLEKELKKSRQRW   74 (106)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc----chHHHHHHHHHHHHHHHHHHHH
Confidence            34566777777788888888888888888888877554444    6788999999999998887644

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

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

Probab=82.35  E-value=15  Score=26.07  Aligned_cols=95  Identities=13%  Similarity=0.278  Sum_probs=59.5

Q ss_pred             HHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           67 LQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTK  146 (184)
Q Consensus        67 LrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltq  146 (184)
                      .+++|+.+..++......+..+....+.....+.... . -..+-..-....-+..+...|..+...-..+..++....+
T Consensus         3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~-~-~~s~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~r~   80 (123)
T PF02050_consen    3 AEQELAEAQQELQEAEEQLEQLQQERQEYQEQLSESQ-Q-GVSVAQLRNYQRYISALEQAIQQQQQELERLEQEVEQARE   80 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT------S-GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-C-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666777777777767766666665533333333 2 3334444456666677777777777777777777777777


Q ss_pred             HHHHHHHhhhhHHHHHH
Q 030034          147 DVNRLEAENKQLIAMRA  163 (184)
Q Consensus       147 eL~r~~~d~qqip~l~a  163 (184)
                      .|..+..+.+.+--|+.
T Consensus        81 ~l~~a~~~~k~~e~L~e   97 (123)
T PF02050_consen   81 ELQEARRERKKLEKLKE   97 (123)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777777777664

Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.

>TIGR00634 recN DNA repair protein RecN

Probab=82.12  E-value=48  Score=31.68  Aligned_cols=87  Identities=21%  Similarity=0.319  Sum_probs=59.9

Q ss_pred             hhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 030034           89 RADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGI  168 (184)
Q Consensus        89 ~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~l  168 (184)
                      ..+=+-=.++|-...-.++.|=-..+.+...+..++.-..|......++....+.+.++|..+......+..+..+++.+
T Consensus       279 ~~~l~d~~~~l~~~~~~l~~dp~~L~ele~RL~~l~~LkrKyg~s~e~l~~~~~~l~~eL~~l~~~~~~le~L~~el~~l  358 (563)
T TIGR00634       279 LTEVEEATRELQNYLDELEFDPERLNEIEERLAQIKRLKRKYGASVEEVLEYAEKIKEELDQLDDSDESLEALEEEVDKL  358 (563)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            33333333444444445555555566677777777777777777788888888888888888887777888888888887


Q ss_pred             HHHHHHh
Q 030034          169 RSELVEA  175 (184)
Q Consensus       169 rqElqr~  175 (184)
                      ++++..+
T Consensus       359 ~~~l~~~  365 (563)
T TIGR00634       359 EEELDKA  365 (563)
T ss_pred             HHHHHHH
Confidence            7777643

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

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=81.71  E-value=29  Score=28.77  Aligned_cols=119  Identities=13%  Similarity=0.175  Sum_probs=81.4

Q ss_pred             CCChhhhHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhh-hhhhhhhhHHhHHHHHHhhhhhhhhhh
Q 030034           33 HFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQI-IPKLRADKEAHTRELFDRGLKLEVELR  111 (184)
Q Consensus        33 ~p~p~~LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~-i~~i~ae~e~q~Rel~ek~~KmEaelR  111 (184)
                      ||--.+|++|=..-...+..--..+.-..+---...++|..|+.|.+.+..- ..++.+|-+       .+..++|++|+
T Consensus        33 ppI~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~~-------~~~~~~ea~L~  105 (155)
T PRK06569         33 PKAEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEFL-------IKKKNLEQDLK  105 (155)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            4555678877666666666655566666666667778888888887777644 566666555       45577888887


Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 030034          112 ASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIR  169 (184)
Q Consensus       112 a~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lr  169 (184)
                      .  .+..|+.-.-..+.   .-|-+.+.++-.|+.++.      .++...+|+++-|+
T Consensus       106 ~--~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~i~------~k~~~~~~~~~~~~  152 (155)
T PRK06569        106 N--SINQNIEDINLAAK---QFRTNKSEAIIKLAVNII------EKIAGTKADMNLLQ  152 (155)
T ss_pred             H--HHHHHHHHHHHHHH---HHHHhHHHHHHHHHHHHH------HHHhCccccHHHHh
Confidence            5  56677766666666   456667778888888877      56667777776654

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

Probab=81.48  E-value=65  Score=32.74  Aligned_cols=17  Identities=24%  Similarity=0.518  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHhhhhh
Q 030034          163 ADIDGIRSELVEARFEI  179 (184)
Q Consensus       163 aEid~lrqElqr~Raa~  179 (184)
                      .|.|+|++||.|+---+
T Consensus       121 vefE~~Khei~rl~Ee~  137 (717)
T PF09730_consen  121 VEFEGLKHEIKRLEEEI  137 (717)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            47777777776654433

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

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

Probab=81.46  E-value=31  Score=29.00  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHH
Q 030034           40 EEEIEIQRREMHRIISENRHAID   62 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAa   62 (184)
                      -++|..-..+|..+..+|..|..
T Consensus        19 ~~~L~~~~~~l~~~~~~~~~l~~   41 (302)
T PF10186_consen   19 NNRLLELRSELQQLKEENEELRR   41 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666665554

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

>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=81.46  E-value=12  Score=30.01  Aligned_cols=40  Identities=20%  Similarity=0.323  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          136 ELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       136 ELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      +|..++..+..-|..+++....++  ..|++.+..++...+.
T Consensus       120 ~l~~e~~~l~~kL~~l~~~~~~vs--~ee~~~~~~~~~~~~k  159 (169)
T PF07106_consen  120 ELEEEIEELEEKLEKLRSGSKPVS--PEEKEKLEKEYKKWRK  159 (169)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHHHH
Confidence            333333334444444444333322  3455555555555544

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 [].

>PF13514 AAA_27: AAA domain

Probab=81.42  E-value=71  Score=33.15  Aligned_cols=132  Identities=13%  Similarity=0.238  Sum_probs=67.7

Q ss_pred             HHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhh--------------HHhHHHHHHhhhhhhhhhhcc
Q 030034           48 REMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADK--------------EAHTRELFDRGLKLEVELRAS  113 (184)
Q Consensus        48 ~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~--------------e~q~Rel~ek~~KmEaelRa~  113 (184)
                      .+.+.....-..|......+.+++...+.++..+...+...+.+-              ...+.+.++....+-..++..
T Consensus       666 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~l~~~gL~~~~~~~~~~~~l~~l~~l~~~~~~~  745 (1111)
T PF13514_consen  666 EEWEQAAARREQLEEELQQLEQELEEAEAELQEAQEALEEWQEEWQEALAELGLPADASPEEALEALELLEELREALAEI  745 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444433333333221              123333444444444444444


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          114 EPVRAEVVQLRAEVQKLNSSRQELT-------------TQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       114 e~~k~El~Q~r~e~q~L~~~RQELt-------------~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      ..++..+.+...++..+...-..|.             .-+..|...|..++...+++-.+..+++.+++++..+...+
T Consensus       746 ~~~~~ri~~~~~~~~~f~~~~~~L~~~l~~~~~~~~~~~~~~~L~~~l~~a~~~~~~~~~l~~~~~~~~~~~~~~~~~l  824 (1111)
T PF13514_consen  746 RELRRRIEQMEADLAAFEEQVAALAERLGPDLPEDPAEEALEALRARLEEAREAQEERERLQEQLEELEEELEQAEEEL  824 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444443333332             45667777788888777777778888888777777766554

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

Probab=81.05  E-value=1e+02  Score=34.67  Aligned_cols=71  Identities=18%  Similarity=0.221  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhh
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVEL  110 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEael  110 (184)
                      ..+++.-..|+..|=.+|.-|-.|-.-|.+|+...-.|.+.++.....+++=....-+.......++|..+
T Consensus       737 ~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~~~l~~e~~~L~~~l~~lQt~~~~~e~s~~~~k~~~e~~i  807 (1822)
T KOG4674|consen  737 NEKLEKLEAELSNLKQEKLLLKETEERLSQELEKLSAEQESLQLLLDNLQTQKNELEESEMATKDKCESRI  807 (1822)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46778888999999999999999999999999999999999999999998888887788777777777544

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

Probab=81.03  E-value=63  Score=32.84  Aligned_cols=32  Identities=13%  Similarity=0.036  Sum_probs=22.6

Q ss_pred             CChhhhHHHHHHHHHHHHHHHHhhhhhHHhhH
Q 030034           34 FHPMTLEEEIEIQRREMHRIISENRHAIDDNT   65 (184)
Q Consensus        34 p~p~~LEe~La~Q~~EiqrLl~dNqRLAathv   65 (184)
                      +.|.+||.|+.+=..|+..|-.+=..|=+.+.
T Consensus       352 ~~~eiLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~  383 (717)
T PF09730_consen  352 NGLEILECKYKVAVSEVIQLKAELKALKSKYN  383 (717)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45789999999998888887555444443333

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

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

Probab=80.62  E-value=18  Score=31.65  Aligned_cols=45  Identities=16%  Similarity=0.205  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHh----hhhHHHHHHHHHHHHHHHHHhhhhhccc
Q 030034          138 TTQIKGLTKDVNRLEAE----NKQLIAMRADIDGIRSELVEARFEIRYF  182 (184)
Q Consensus       138 t~qvq~ltqeL~r~~~d----~qqip~l~aEid~lrqElqr~Raa~EyE  182 (184)
                      -.+++...++|.+++.+    .+|.-.+.-|.|.|-.|++++|..++-.
T Consensus       164 ~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~~  212 (216)
T KOG1962|consen  164 ETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIESG  212 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhcc
Confidence            34444555555555544    3567777788888888888888887643

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

Probab=80.58  E-value=46  Score=30.41  Aligned_cols=94  Identities=21%  Similarity=0.348  Sum_probs=52.3

Q ss_pred             HHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030034           76 DEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAEN  155 (184)
Q Consensus        76 ~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~  155 (184)
                      +|+.--....+.-+-+.=.++|++.+++.          .++.+-...-.+|+.|-.-|.++-++++.+.++........
T Consensus        30 ~El~~~~~~~~ekRdeln~kvrE~~e~~~----------elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~   99 (294)
T COG1340          30 DELRKEASELAEKRDELNAKVRELREKAQ----------ELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKR   99 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33333333334444444456666666553          45666666667777777777777777777777776666544


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhh
Q 030034          156 KQLIAMRADIDGIRSELVEARFEI  179 (184)
Q Consensus       156 qqip~l~aEid~lrqElqr~Raa~  179 (184)
                      .-.-...-.++.+..+|+++...|
T Consensus       100 ~~~~~~~~~~~~ler~i~~Le~~~  123 (294)
T COG1340         100 NEFNLGGRSIKSLEREIERLEKKQ  123 (294)
T ss_pred             hhhhccCCCHHHHHHHHHHHHHHH
Confidence            422122233444455555444433

>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family

Probab=80.51  E-value=37  Score=29.36  Aligned_cols=114  Identities=14%  Similarity=0.229  Sum_probs=59.0

Q ss_pred             HHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           61 IDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQ  140 (184)
Q Consensus        61 AathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~q  140 (184)
                      ......+.+++..++..+......+...+.+-+ ....|+++..-=..++   +..+.++.++++++..+.   .++..+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~-R~~~L~~~g~iS~~~~---d~~~~~~~~a~~~l~~~~---~~~~~~  161 (327)
T TIGR02971        89 ARAAAKLFKDVAAQQATLNRLEAELETAQREVD-RYRSLFRDGAVSASDL---DSKALKLRTAEEELEEAL---ASRSEQ  161 (327)
T ss_pred             HHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCccHHHH---HHHHHHHHHHHHHHHHHH---HHHHHH
Confidence            334445666666666666666665555554443 3556666665544444   344445555555444443   223233


Q ss_pred             HHHHHHHHHHHHH--hhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          141 IKGLTKDVNRLEA--ENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       141 vq~ltqeL~r~~~--d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      +.....++.....  ...++-...+++..++..+..+...++|
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~l~~  204 (327)
T TIGR02971       162 IDGARAALASLAEEVRETDVDLAQAEVKSALEAVQQAEALLEL  204 (327)
T ss_pred             HHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3344444433322  2234455566777777777666655543

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. strain PCC 7120 is partially characterized as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter, required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. PCC 7120 has seven members.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 41.7 bits (98), Expect = 6e-05
 Identities = 25/140 (17%), Positives = 55/140 (39%)

Query: 39   LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
            L+E+++ +                    L+  L   +  I    +   +L+A+K+   ++
Sbjct: 897  LQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQ 956

Query: 99   LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
            + D   +LE E  A + ++ E V    +++K+      +  Q   LTK+   LE     L
Sbjct: 957  MLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDL 1016

Query: 159  IAMRADIDGIRSELVEARFE 178
                A+ +     L + + +
Sbjct: 1017 TTNLAEEEEKAKNLTKLKNK 1036

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 41.7 bits (98), Expect = 7e-05
 Identities = 17/136 (12%), Positives = 51/136 (37%)

Query: 39   LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
            +++++     ++    +  +    +      ++   +D+I  +     KL  +++     
Sbjct: 953  MQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEER 1012

Query: 99   LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
            + D    L  E   ++ +     +  + + +L    ++     + L K   +LE E+  L
Sbjct: 1013 VSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDL 1072

Query: 159  IAMRADIDGIRSELVE 174
                A++    +EL  
Sbjct: 1073 HEQIAELQAQIAELKA 1088

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 40.6 bits (95), Expect = 1e-04
 Identities = 21/138 (15%), Positives = 58/138 (42%)

Query: 39   LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
             +E  +    E+  +  ++    ++   LQ +L A  +      ++  +L A K+     
Sbjct: 869  TKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEI 928

Query: 99   LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
            L +   ++E E   S+ ++AE  +++ ++  L    +E     + L  +    + + K++
Sbjct: 929  LHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKM 988

Query: 159  IAMRADIDGIRSELVEAR 176
                  ++   ++L + R
Sbjct: 989  EDDILIMEDQNNKLTKER 1006

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 39.4 bits (92), Expect = 4e-04
 Identities = 22/136 (16%), Positives = 52/136 (38%), Gaps = 3/136 (2%)

Query: 41   EEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELF 100
             E+E +  E       ++    +   +Q+++   ++++        KL+ +K     ++ 
Sbjct: 930  HEMEARIEEEEE---RSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIK 986

Query: 101  DRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIA 160
                 + +    +  +  E   L   V  L ++  E   + K LTK  N+ E+   +L  
Sbjct: 987  KMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEV 1046

Query: 161  MRADIDGIRSELVEAR 176
                 +  R EL + +
Sbjct: 1047 RLKKEEKSRQELEKIK 1062

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 9e-05
 Identities = 31/193 (16%), Positives = 64/193 (33%), Gaps = 53/193 (27%)

Query: 33  HFHPMTLE-EEIEIQRREMHRIISENRHAI--D-DNTHLQ------------RELTASKD 76
           H H M  E  E + Q ++   I+S    A   + D   +Q              +  SKD
Sbjct: 3   HHHHMDFETGEHQYQYKD---ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59

Query: 77  EIHRLGQIIPKLRADKEAHTRELFDRGL---------KLEVELRASEPVRAEVVQLRAEV 127
            +    ++   L + +E   ++  +  L          ++ E R    +    ++ R  +
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 128 Q-------KLNSSRQELTTQIKGLTKDVNRLEAEN-----------KQLIAMRADIDGIR 169
                   K N SR +   +++   + +  L               K  +A    +D   
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLR---QALLELRPAKNVLIDGVLGSGKTWVA----LDVCL 172

Query: 170 SELVEARFEIRYF 182
           S  V+ + + + F
Sbjct: 173 SYKVQCKMDFKIF 185

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 24/134 (17%), Positives = 55/134 (41%), Gaps = 8/134 (5%)

Query: 39   LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRE 98
            LE     +  ++   +   R + ++  +    + + ++EI +L + + + + +K+     
Sbjct: 954  LEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEW 1013

Query: 99   LFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQL 158
                  K E E   SE ++ +   L+ E ++LN    +   +I    +   +L  E KQL
Sbjct: 1014 A--DKYKHETEQLVSE-LKEQNTLLKTEKEELNRRIHDQAKEITETME--KKLVEETKQL 1068

Query: 159  IAMRADIDGIRSEL 172
                 D++  R   
Sbjct: 1069 ---ELDLNDERLRY 1079

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	96.58
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	95.61
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.17
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	95.09
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	95.01
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	93.84
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	93.7
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	92.82
3m91_A	51	Proteasome-associated ATPase; coil COIL alpha heli	92.57
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	91.83
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	91.69
1wt6_A	81	Myotonin-protein kinase; coiled-coil, kinase activ	89.7
1jcd_A	52	Major outer membrane lipoprotein; protein folding,	88.66
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	87.97
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	87.28
4dzn_A	33	Coiled-coil peptide CC-PIL; de novo protein; HET:	86.38
3bas_A	89	Myosin heavy chain, striated muscle/general contro	86.11
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	86.06
4e61_A	106	Protein BIM1; EB1-like motif, coiled-coil, spindle	86.04
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	85.81
2w83_C	77	C-JUN-amino-terminal kinase-interacting protein 4;	84.6
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	84.27
1x79_B	112	RAB GTPase binding effector protein 1; rabaptin5,	84.25
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	83.45
3m9b_A	251	Proteasome-associated ATPase; coil COIL with 5 bet	83.35
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	82.95
3lay_A	175	Zinc resistance-associated protein; salmonella typ	82.85
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	82.33
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	81.41

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

Probab=95.61  E-value=0.1  Score=37.82  Aligned_cols=50  Identities=20%  Similarity=0.349  Sum_probs=44.4

Q ss_pred             hhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          103 GLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLE  152 (184)
Q Consensus       103 ~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~  152 (184)
                      -.|.|.|+.-...+-+|+.-++.++..+.-.|-+|-++|.+|+.||.=++
T Consensus        34 k~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~fLk   83 (86)
T 3swk_A           34 REKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEIAFLK   83 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            36778888888889999999999999999999999999999999987543

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

Probab=95.17  E-value=0.2  Score=44.88  Aligned_cols=91  Identities=18%  Similarity=0.169  Sum_probs=45.9

Q ss_pred             hhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhh-hcchhHHHHHHHHHHHHHHHHHHH
Q 030034           56 ENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVEL-RASEPVRAEVVQLRAEVQKLNSSR  134 (184)
Q Consensus        56 dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEael-Ra~e~~k~El~Q~r~e~q~L~~~R  134 (184)
                      .|..+-++...++.++...+.++.+....+...+.+-+...-    .......++ +..+-+++++.++..+.+++...-
T Consensus       450 ~~e~l~~e~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  525 (597)
T 3oja_B          450 GNEQLEAEVNELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLR----RYRLPKDGLARSSDNLNKVFTHLKERQAFKLRET  525 (597)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HTTCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh----hcCccccccCCHHHHHHHHHHHHHhhhhhhHHHH
Confidence            555566666666666776776666666666655555332221    111111111 112456666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHH
Q 030034          135 QELTTQIKGLTKDVNR  150 (184)
Q Consensus       135 QELt~qvq~ltqeL~r  150 (184)
                      |.+..+++...+++..
T Consensus       526 ~~~~~~~~~~~~~~~~  541 (597)
T 3oja_B          526 QARRTEADAKQKETED  541 (597)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhhcchhh
Confidence            6666666555555543

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

Probab=95.09  E-value=1.2  Score=36.94  Aligned_cols=61  Identities=11%  Similarity=0.148  Sum_probs=33.2

Q ss_pred             hHHhHHHHHHhhhhhhhhhhcc------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           92 KEAHTRELFDRGLKLEVELRAS------EPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLE  152 (184)
Q Consensus        92 ~e~q~Rel~ek~~KmEaelRa~------e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~  152 (184)
                      .+..+..+-.++.+.+..+-++      +++..|+..+..++..|...=.++..++..+..++..+.
T Consensus        65 ~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~  131 (256)
T 3na7_A           65 NEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLK  131 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666666666655433      345556655555555555555555555555544444433

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

Probab=95.01  E-value=0.12  Score=51.65  Aligned_cols=19  Identities=21%  Similarity=0.260  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHh
Q 030034          136 ELTTQIKGLTKDVNRLEAE  154 (184)
Q Consensus       136 ELt~qvq~ltqeL~r~~~d  154 (184)
                      +|..+|..|++|.++++..
T Consensus      1020 ~L~~kv~~L~~e~~~L~qq 1038 (1080)
T 2dfs_A         1020 ETEQLVSELKEQNTLLKTE 1038 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555543

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

Probab=93.84  E-value=1  Score=40.34  Aligned_cols=17  Identities=18%  Similarity=0.352  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHhhhh
Q 030034           43 IEIQRREMHRIISENRH   59 (184)
Q Consensus        43 La~Q~~EiqrLl~dNqR   59 (184)
                      +.....+|+.|-.+...
T Consensus       458 ~~~~~~~i~~l~~~~~~  474 (597)
T 3oja_B          458 VNELRAEVQQLTNEQIQ  474 (597)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333444444444333

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

Probab=93.70  E-value=1  Score=45.12  Aligned_cols=48  Identities=19%  Similarity=0.181  Sum_probs=5.3

Q ss_pred             HHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHH
Q 030034           52 RIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTREL   99 (184)
Q Consensus        52 rLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel   99 (184)
                      .|...|..|-..-..|++.|.....+...|...+..+....+.++-+|
T Consensus       918 ~l~~~~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~~~~e~~~L  965 (1080)
T 2dfs_A          918 RYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL  965 (1080)
T ss_dssp             ---------------------------------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            334444444444444444444444444444433333333333333333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=92.82  E-value=0.43  Score=47.69  Aligned_cols=41  Identities=15%  Similarity=0.246  Sum_probs=17.1

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHH
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIH   79 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~   79 (184)
                      ++++|..-...+.++-..-..+-.....|++++..++.+++
T Consensus       862 L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~~~L~  902 (1184)
T 1i84_S          862 KDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQ  902 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444443333333334444444444444444443

>3m91_A Proteasome-associated ATPase; coil COIL alpha helix, ATP-binding, chaperone, nucleotide-BI proteasome, S-nitrosylation; 1.80A {Mycobacterium tuberculosis} PDB: 3m9h_A

Probab=92.57  E-value=0.37  Score=32.22  Aligned_cols=43  Identities=19%  Similarity=0.392  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHh
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLG   82 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~   82 (184)
                      |+++..-...+..|..-|.+|+++=-.-|++|...+.+|..|.
T Consensus         8 ~~r~~~l~~~l~~L~~rN~rL~~~L~~AR~el~~Lkeele~La   50 (51)
T 3m91_A            8 ARDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLG   50 (51)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999998888774

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=91.83  E-value=0.49  Score=47.27  Aligned_cols=42  Identities=24%  Similarity=0.315  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHH
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRL   81 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l   81 (184)
                      +.++.....++..+-..=.++-.....|..++...+.++..+
T Consensus       856 ~~El~~L~~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l  897 (1184)
T 1i84_S          856 EEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLL  897 (1184)
T ss_dssp             HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444443333333333333444444444443333

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

Probab=91.69  E-value=5  Score=33.20  Aligned_cols=114  Identities=15%  Similarity=0.186  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHH--HhhhhhhhhhhcchhHH
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELF--DRGLKLEVELRASEPVR  117 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~--ek~~KmEaelRa~e~~k  117 (184)
                      +.++..-..||..|-.+=..+.+..+.++.++...+.++..+...|..+++--+..--.+.  -...-+++=-+-++.++
T Consensus        24 ~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~  103 (256)
T 3na7_A           24 EPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAK  103 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHH
Confidence            3444444556666666666666666666666666666666666666555443222111111  11222333334444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          118 AEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEA  153 (184)
Q Consensus       118 ~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~  153 (184)
                      .++..+..++..+.....++...+..+...+.....
T Consensus       104 ~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~  139 (256)
T 3na7_A          104 ERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEK  139 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555444444444444443

>1wt6_A Myotonin-protein kinase; coiled-coil, kinase activation, DMPK, molecular replacement, transferase; 1.60A {Homo sapiens}

Probab=89.70  E-value=1.4  Score=32.15  Aligned_cols=44  Identities=20%  Similarity=0.275  Sum_probs=33.0

Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKD  147 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqe  147 (184)
                      --|++||+|-..+..||-+++++.+.+.+-=+|--.+-+.|..|
T Consensus        17 SALeaEIqAKQ~i~EELs~vr~~ni~~eskL~eae~rn~eL~~e   60 (81)
T 1wt6_A           17 EALEEEVLTRQSLSREMEAIRTDNQNFASQLREAEARNRDLEAH   60 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56899999999999999999999888876444444444444333

>1jcd_A Major outer membrane lipoprotein; protein folding, coiled coil, helix capping, alanine-zipper, membrane protein; 1.30A {Escherichia coli} SCOP: h.1.16.1 PDB: 1eq7_A 1t8z_A* 2guv_A 2gus_A 1jcc_A 1kfn_A 1kfm_A

Probab=88.66  E-value=1.4  Score=29.50  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHh
Q 030034          129 KLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEA  175 (184)
Q Consensus       129 ~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~  175 (184)
                      .|.+-=+.|+.||..|+.|+.-          ++.++...+.|-.|+
T Consensus         8 ~Lss~V~~L~~kVdqLssdV~a----------l~~~v~~ak~eA~RA   44 (52)
T 1jcd_A            8 QASSDAQTANAKADQASNDANA----------ARSDAQAAKDDAARA   44 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHH
Confidence            3333334444455555444443          444555555555554

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=87.97  E-value=26  Score=39.44  Aligned_cols=79  Identities=18%  Similarity=0.296  Sum_probs=42.6

Q ss_pred             HHHhhhhhhhhhhcc---hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh----HHHHHHHHHHHHHH
Q 030034           99 LFDRGLKLEVELRAS---EPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ----LIAMRADIDGIRSE  171 (184)
Q Consensus        99 l~ek~~KmEaelRa~---e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qq----ip~l~aEid~lrqE  171 (184)
                      +-.+-..-|+||-..   +|+|++|.++..+..+-.+.=++...+++.+...|+.++.+-..    .-.|+.|++....=
T Consensus      1992 i~~~k~~~e~dL~~A~Pa~Pkr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~k 2071 (3245)
T 3vkg_A         1992 IAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNK 2071 (3245)
T ss_dssp             HHHHHHHHHHCC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444456666655   47788888887776665555555555555555555555544322    23345555555555


Q ss_pred             HHHhhh
Q 030034          172 LVEARF  177 (184)
Q Consensus       172 lqr~Ra  177 (184)
                      +.+|-.
T Consensus      2072 l~rA~~ 2077 (3245)
T 3vkg_A         2072 VDRSIA 2077 (3245)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555543

>4dzn_A Coiled-coil peptide CC-PIL; de novo protein; HET: PHI; 1.59A {Synthetic} PDB: 4dzm_A* 4dzl_A* 4dzk_A 1u0i_A 1u0i_B

Probab=86.38  E-value=0.99  Score=27.46  Aligned_cols=27  Identities=33%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             hhHHHHHHHHhhHHHHHHHhhhhhhhh
Q 030034           63 DNTHLQRELTASKDEIHRLGQIIPKLR   89 (184)
Q Consensus        63 thvaLrqeL~aaq~El~~l~~~i~~i~   89 (184)
                      ...+|+||+++.+.|+-.|.--|+.++
T Consensus         3 eiaalkqeiaalkkeiaalkfeiaalk   29 (33)
T 4dzn_A            3 EIAALKQEIAALKKEIAALKFEIAALK   29 (33)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356788888888888888877766654

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=86.11  E-value=7.5  Score=27.80  Aligned_cols=54  Identities=17%  Similarity=0.215  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhh
Q 030034          116 VRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEAR  176 (184)
Q Consensus       116 ~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~R  176 (184)
                      +..|+.++.....+....|++|..+...+.++-+.+...       .+|.+..+..|...+
T Consensus        19 ~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~q-------l~eaEe~~~~L~~~K   72 (89)
T 3bas_A           19 QLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGS-------MKQLEDKVEELLSKN   72 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHHHHHH
Confidence            556777777777777777777777777777776655544       444444444444333

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

Probab=86.06  E-value=7.3  Score=27.90  Aligned_cols=68  Identities=16%  Similarity=0.356  Sum_probs=48.7

Q ss_pred             hhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 030034          104 LKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGIRSELVEARF  177 (184)
Q Consensus       104 ~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Ra  177 (184)
                      .+++.++.   .++..+...+.--..=.+.|+.+-+.+.+|.+++--+.-..   -.|.+.|++|..||.-+|.
T Consensus        17 ~~l~~e~d---n~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r---~dLE~kvesL~eEl~fLkk   84 (86)
T 3swk_A           17 ARVEVERD---NLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLAR---LDLERKVESLQEEIAFLKK   84 (86)
T ss_dssp             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHH---HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH---HHHHHHHHHHHHHHHHHhh
Confidence            45666543   47777777777777778889999999999988876554322   3466778888888876553

>4e61_A Protein BIM1; EB1-like motif, coiled-coil, spindle orientation, mitosis, K phosphorylation, mitotic spindle, microtubules, cell cycle; 2.45A {Saccharomyces cerevisiae}

Probab=86.04  E-value=4.6  Score=30.67  Aligned_cols=59  Identities=10%  Similarity=0.151  Sum_probs=48.6

Q ss_pred             hhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 030034          110 LRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDGI  168 (184)
Q Consensus       110 lRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~l  168 (184)
                      |-|+-++.+||.+.+.++..|...-++|...|..|.+|=.=.-+-+..|-.|-.+...+
T Consensus         3 ~~s~~al~~eL~~~~~ei~~L~~ei~eLk~~ve~lEkERDFYF~KLRdIEiLcQe~~~~   61 (106)
T 4e61_A            3 LGSLVAIQAELTKSQETIGSLNEEIEQYKGTVSTLEIEREFYFNKLRDIEILVHTTQDL   61 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45677899999999999999999999999999999998666667777766666555443

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

Probab=85.81  E-value=6.6  Score=30.03  Aligned_cols=73  Identities=22%  Similarity=0.349  Sum_probs=48.3

Q ss_pred             hhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Q 030034           88 LRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQLIAMRADIDG  167 (184)
Q Consensus        88 i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL~r~~~d~qqip~l~aEid~  167 (184)
                      ...++|..|..|+          +.++.+|.|+..+..|++..+.   .|.++|-.|..||.-.+...|+   ...|.+.
T Consensus         9 ~~d~rD~~Ie~Lk----------reie~lk~ele~l~~E~q~~v~---ql~~~i~~Le~eL~e~r~~~q~---a~~e~e~   72 (120)
T 3i00_A            9 NKDEKDHLIERLY----------REISGLKAQLENMKTESQRVVL---QLKGHVSELEADLAEQQHLRQQ---AADDCEF   72 (120)
T ss_dssp             -CCTHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH---HHHHHHH
T ss_pred             CCCcHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH---HHHHHHH
Confidence            5567776665544          2244677777777777776654   5888888899898887755444   4556667


Q ss_pred             HHHHHHHhh
Q 030034          168 IRSELVEAR  176 (184)
Q Consensus       168 lrqElqr~R  176 (184)
                      |+.|+..++
T Consensus        73 Lr~e~~~l~   81 (120)
T 3i00_A           73 LRAELDELR   81 (120)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776554

>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus, protein transport, ER-golgi transport, ARF, GTPase, effector, myristate; HET: GTP; 1.93A {Homo sapiens}

Probab=84.60  E-value=4.6  Score=29.16  Aligned_cols=69  Identities=19%  Similarity=0.380  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHH
Q 030034           47 RREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAE  126 (184)
Q Consensus        47 ~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e  126 (184)
                      -.|+..|+.+|..|-+|+-||-    .++.+|                        +.++       |.+-.|-..++.|
T Consensus         8 gkevEnLi~EN~eLl~TKNaLn----vvk~DL------------------------I~rv-------dELt~E~e~l~~E   52 (77)
T 2w83_C            8 GREVENLILENTQLLETKNALN----IVKNDL------------------------IAKV-------DELTCEKDVLQGE   52 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH----HHHHHH------------------------HHHH-------HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHH----HHHHHH------------------------HHHH-------HHHHhHHHHHHHH
Confidence            3678888888888888887762    233222                        1111       2344455556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 030034          127 VQKLNSSRQELTTQIKGLTKDVNR  150 (184)
Q Consensus       127 ~q~L~~~RQELt~qvq~ltqeL~r  150 (184)
                      +..+..+++-+..++..+.+||.|
T Consensus        53 l~s~~~~~~r~~~ri~elEeElkr   76 (77)
T 2w83_C           53 LEAVKQAKLKLEEKNRELEEELRK   76 (77)
T ss_dssp             HHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc
Confidence            677777777777777777777665

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=84.27  E-value=11  Score=28.32  Aligned_cols=52  Identities=19%  Similarity=0.257  Sum_probs=25.4

Q ss_pred             HHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           93 EAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKD  147 (184)
Q Consensus        93 e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqe  147 (184)
                      +.+|+.+-+.+.+|+..+...+..|.|+.   ....+|...+.+|..++++-+.-
T Consensus        12 e~E~~~~~eel~~lke~l~k~e~~r~ele---~~~~~l~~Ek~~L~~qL~~E~~~   63 (129)
T 2fxo_A           12 EKEMASMKEEFTRLKEALEKSEARRKELE---EKMVSLLQEKNDLQLQVQAEQDN   63 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555556555555555555542   22334444444444444444333

>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT domain, intracellular trafficking, protein transport; 2.41A {Homo sapiens} SCOP: h.1.27.2

Probab=84.25  E-value=12  Score=28.53  Aligned_cols=91  Identities=18%  Similarity=0.221  Sum_probs=55.4

Q ss_pred             HhhHHHHHHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           62 DDNTHLQRELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQI  141 (184)
Q Consensus        62 athvaLrqeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qv  141 (184)
                      .+=+-|+.+|.....+-..|-.....-+.|.-.+|-+|.+++..-|..|.   .|+.-..|+..+|+.=.   +.|+.--
T Consensus        13 ~~~~ql~~qL~k~~~~r~~Le~~w~~k~E~~k~qV~~L~~~~q~sE~~L~---~Lqq~fsq~q~~vq~qL---~~Lt~~R   86 (112)
T 1x79_B           13 LMLRQANDQLEKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEILLE---ELQQGLSQAKRDVQEQM---AVLMQSR   86 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH---HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH---HHHHHHH
Confidence            33467788888888888888888888899999999999999999997775   45555555555544311   2333333


Q ss_pred             HHHHHHHHHHHHhhhhH
Q 030034          142 KGLTKDVNRLEAENKQL  158 (184)
Q Consensus       142 q~ltqeL~r~~~d~qqi  158 (184)
                      ..+..+|.+++.||..+
T Consensus        87 e~V~~eL~rLQ~eNd~L  103 (112)
T 1x79_B           87 EQVSEELVRLQKDNDSL  103 (112)
T ss_dssp             HHHHTC-----------
T ss_pred             HHHHHHHHHHHhhccch
Confidence            34445555555555443

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

Probab=83.45  E-value=12  Score=28.13  Aligned_cols=88  Identities=15%  Similarity=0.252  Sum_probs=44.8

Q ss_pred             HHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           69 RELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDV  148 (184)
Q Consensus        69 qeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL  148 (184)
                      .+|..++.||..++..|.++++|-+.    +--....||+-|.-.+.-      -..+++.+...=.+|-++++.+..|+
T Consensus        31 ~~l~~~k~Ei~elrr~iq~L~~el~~----l~~~~~sLE~~l~e~e~~------~~~~l~~~q~~i~~lE~eL~~~r~em  100 (131)
T 3tnu_A           31 ELVQSGKSEISELRRTMQNLEIELQS----QLSMKASLENSLEETKGR------YCMQLAQIQEMIGSVEEQLAQLRCEM  100 (131)
T ss_dssp             ----------CHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHhhHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777777777666543    333345566555544431      12233333444445666777777777


Q ss_pred             HHHHHhhhhHHHHHHHHH
Q 030034          149 NRLEAENKQLIAMRADID  166 (184)
Q Consensus       149 ~r~~~d~qqip~l~aEid  166 (184)
                      ++..-|-|.+-.+|.=+|
T Consensus       101 ~~ql~EYq~Ll~vKl~Ld  118 (131)
T 3tnu_A          101 EQQNQEYKILLDVKTRLE  118 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777777777665433

>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel inter domain, chaperone; 3.94A {Mycobacterium tuberculosis} PDB: 3m9d_A

Probab=83.35  E-value=1.4  Score=37.93  Aligned_cols=44  Identities=20%  Similarity=0.403  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHHHHHHhh
Q 030034           40 EEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQ   83 (184)
Q Consensus        40 Ee~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~El~~l~~   83 (184)
                      |+++..-..++..|-..|.+|+++.-.+++||...+.||.+|..
T Consensus        53 ~~~l~eL~~ql~~L~arNe~L~~~Lk~ar~El~~LkeElerL~s   96 (251)
T 3m9b_A           53 ARDIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQ   96 (251)
T ss_dssp             CHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            88888889999999999999999999999999999999999864

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

Probab=82.95  E-value=13  Score=27.92  Aligned_cols=88  Identities=20%  Similarity=0.345  Sum_probs=48.9

Q ss_pred             HHHHhhHHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030034           69 RELTASKDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDV  148 (184)
Q Consensus        69 qeL~aaq~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~e~~k~El~Q~r~e~q~L~~~RQELt~qvq~ltqeL  148 (184)
                      .+|..++.||..++..|.++++|-+.    +--....||+-|.-.+.-      -..+++.+...=..|-++++.+..|+
T Consensus        29 ~~l~~~k~Ei~elrr~iq~L~~el~~----l~~~~~~LE~~l~e~e~~------~~~~l~~~q~~i~~lE~eL~~~r~e~   98 (129)
T 3tnu_B           29 DDLRNTKHEISEMNRMIQRLRAEIDN----VKKQCANLQNAIADAEQR------GELALKDARNKLAELEEALQKAKQDM   98 (129)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            45667788888888888777766543    333445566655544431      11223333333345666667777777


Q ss_pred             HHHHHhhhhHHHHHHHHH
Q 030034          149 NRLEAENKQLIAMRADID  166 (184)
Q Consensus       149 ~r~~~d~qqip~l~aEid  166 (184)
                      ++..-|-|.+-.+|-=+|
T Consensus        99 ~~ql~EYq~LlnvKl~Ld  116 (129)
T 3tnu_B           99 ARLLREYQELMNTKLALD  116 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777777776665443

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=82.85  E-value=6.2  Score=31.86  Aligned_cols=39  Identities=10%  Similarity=0.181  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhcc
Q 030034          143 GLTKDVNRLEAENKQLIAMRADIDGIRSELVEARFEIRY  181 (184)
Q Consensus       143 ~ltqeL~r~~~d~qqip~l~aEid~lrqElqr~Raa~Ey  181 (184)
                      .|...+..-+.|..+|-++..||..|++++...|..+..
T Consensus       100 EL~aL~~a~~~DeakI~aL~~Ei~~Lr~qL~~~R~k~~~  138 (175)
T 3lay_A          100 EYNALLTASSPDTAKINAVAKEMESLGQKLDEQRVKRDV  138 (175)
T ss_dssp             HHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344567778888888888888888887776643

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

Probab=82.33  E-value=3.7  Score=31.45  Aligned_cols=39  Identities=18%  Similarity=0.229  Sum_probs=28.2

Q ss_pred             HHHHHHHhhhhhhhhhhhHHhHHHHHHhhhhhhhhhhcc
Q 030034           75 KDEIHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRAS  113 (184)
Q Consensus        75 q~El~~l~~~i~~i~ae~e~q~Rel~ek~~KmEaelRa~  113 (184)
                      +.|+.+|...+..|+.|.-..|..|-.++..||+||--.
T Consensus        21 kreie~lk~ele~l~~E~q~~v~ql~~~i~~Le~eL~e~   59 (120)
T 3i00_A           21 YREISGLKAQLENMKTESQRVVLQLKGHVSELEADLAEQ   59 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555556667788888999999999999887544

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

Probab=81.41  E-value=21  Score=29.31  Aligned_cols=54  Identities=17%  Similarity=0.208  Sum_probs=31.6

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhHHhhHHHHHHHHhhHHH----HHHHhhhhhhhhhhh
Q 030034           39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDE----IHRLGQIIPKLRADK   92 (184)
Q Consensus        39 LEe~La~Q~~EiqrLl~dNqRLAathvaLrqeL~aaq~E----l~~l~~~i~~i~ae~   92 (184)
                      ||..|..-..=+..|-..|.+|......+|--+..++.|    +..|..-|..++..+
T Consensus        47 LE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~  104 (189)
T 2v71_A           47 LEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIK  104 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555566667777777777777766666666665    444444444444333

---

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

No hit with probability above 80.00