Citrus Sinensis ID: 011943

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470----
Protein Sequence
MEDEKKKKRNKKKKNNKQTKTTTDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNKNASN
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHccHHHcccccHHHHcccccccccccccHHHHHccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccHHHccccccccccccccccEccccHHcHcccEEEEccccHHcHHHHHccHHHccccHccccccccccccccHHHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
MEDEKKKKRnkkkknnkqtktttddvavgadpnhlingqkddvrsqasepadiqnvqvdadrhqsngaesaNLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSqlssdeskkhatSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSaigsdavtaltsdtepmsessdnMSSLNNRLETQGVvavkedrngingvhadppplvlssseaeysgeivqiplddkevqDLELQVVESYTDKvaavpltdapligapfRLVSFVAKYVSGadlvnknasn
Flexible Loop (DISEMBL)
medekkkkrnkkkknnkqtktttddvavgadpnHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEadkdswtqmesvsketiaglsvdiTQLRMQVVELEESRNNLLQENRQLKENVSSLrsqlssdeskkhatseqkdfstqIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAglssaigsdavTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSgadlvnknasn
Low Complexity Region (SEG)
MEDEkkkkrnkkkknnkqtktttDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVsslrsqlssdesKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNKNASN
Disordered region (IsUnstruct)
************************************************************************************************************************ECDLYK****************************************************I*******EFWL**************************************************TIAGLSVDITQLRMQVV**********************************************IEAAGALIDKLITENIELVEKVNDLSVKLDR***************************************************************************GEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADL*******
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************VPLTDAPLIGAPFRLVSFVAKYVSGAD*VN*****
Disordered Region (DISEMBL)
*********************TTDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLK**************************STQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTAL***************SLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNKNASN
Disordered Region (DISPRO)
ME**KKKKRNKKKKNNKQTKTTTDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVV*****************PL**SSSE*EYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSG**********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
xxxxxxxxxxxxxxxxxxxxxTTDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxEGGLEMNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxESVSKETIAGLSVDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNKNASN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	474
224087896	477	predicted protein [Populus trichocarpa]	0.900	0.895	0.498	1e-106
255575616	492	conserved hypothetical protein [Ricinus	0.898	0.865	0.492	1e-103
224139390	456	predicted protein [Populus trichocarpa]	0.795	0.826	0.498	2e-96
297741755	466	unnamed protein product [Vitis vinifera]	0.915	0.931	0.455	5e-85
356566804	651	PREDICTED: uncharacterized protein LOC10	0.841	0.612	0.443	1e-74
359481328	511	PREDICTED: uncharacterized protein LOC10	0.875	0.812	0.391	4e-61
79570413	482	ATP synthase D chain-related protein [Ar	0.776	0.763	0.380	6e-53
297823743	509	hypothetical protein ARALYDRAFT_345641 [	0.761	0.709	0.395	1e-52
356530165	639	PREDICTED: uncharacterized protein LOC10	0.759	0.563	0.343	8e-47
3786014	377	hypothetical protein [Arabidopsis thalia	0.622	0.782	0.395	8e-44

>gi|224087896|ref|XP_002308260.1| predicted protein [Populus trichocarpa] gi|222854236|gb|EEE91783.1| predicted protein [Populus trichocarpa]

 Score =  393 bits (1009), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 238/477 (49%), Positives = 323/477 (67%), Gaps = 50/477 (10%)

Query: 20  KTTTDDVAVGADPNHLINGQK-----DDVRSQASEPADIQNVQVDADRH--QSNGAESAN 72
           K + DDV+V A  N+  NGQ      D+   + S   D+ + + D + H  + NGA   +
Sbjct: 25  KASEDDVSVAAATNNNSNGQNHGNVNDNQVIEVSSNGDVVDAE-DFNGHYDKPNGAAPHS 83

Query: 73  LAEAERQHLLQREAMAI------LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYK 126
            A  E    LQ E  ++       EET+K LR+E +SHIQKEATLE TV+QLQNE   + 
Sbjct: 84  AALQETIKHLQNETDSLTRTKDTFEETIKRLRDENDSHIQKEATLEETVKQLQNESASHT 143

Query: 127 EKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK 186
           +K +A+LE+TI QL+  N+L +QKEAT E+TIKQL+ +ND H+Q+E  LE  I  LQSEK
Sbjct: 144 QK-EASLEDTINQLRSVNNLCIQKEATFEDTIKQLKTENDSHLQKEADLEKRIVQLQSEK 202

Query: 187 EFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLS 246
           +FWLQKEA   +K++ L+DE AAL    AS+ E+++LLE+DKDSWT  E+ +KETIA ++
Sbjct: 203 DFWLQKEAGFGEKLNHLQDEKAAL----ASIGEKIRLLESDKDSWTISENTTKETIARMN 258

Query: 247 VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS-DESKKHATS--------EQ 297
           +D+T+LRMQVVELE+SRN+L++EN+QLKE++S+L+ QL + D S   A +        E+
Sbjct: 259 IDVTRLRMQVVELEDSRNSLVKENQQLKESISNLKLQLQNIDTSVSFANTSELGKLGAEK 318

Query: 298 KDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAV---TALT 354
           ++ ++QIEAA AL+DKLITEN +LVEKVN+L +KLD Q  AA  SSA G   +   + L 
Sbjct: 319 EELNSQIEAACALVDKLITENADLVEKVNELYIKLDHQGTAASFSSATGRGVIVRNSELA 378

Query: 355 SDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQ 414
           + T PM++S+ N+++L ++LE+               +  +P  +V  SSEA  SGEIVQ
Sbjct: 379 NGTHPMADSNANLTALGHKLES---------------LEVEPAVVVQYSSEA-GSGEIVQ 422

Query: 415 IPLDDKEVQDLELQVVESYTD-KVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNK 470
           IPLDD EV DLE+Q  E  TD K  AVPLTDAPLIGAPFRL+SFVAKYVSG DLVN+
Sbjct: 423 IPLDDNEVPDLEMQAAE--TDYKSGAVPLTDAPLIGAPFRLISFVAKYVSGGDLVNR 477

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575616|ref|XP_002528708.1| conserved hypothetical protein [Ricinus communis] gi|223531880|gb|EEF33697.1| conserved hypothetical protein [Ricinus communis]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 243/493 (49%), Positives = 321/493 (65%), Gaps = 67/493 (13%)

Query: 18  QTKTTTDDVAVGADPNHLINGQKDDVRSQASEPADIQN------VQVDA-DRHQSNGAES 70
           Q+KTT DD       +H  NG   +  +Q ++ A+IQN        VD  DRHQ+ G E 
Sbjct: 22  QSKTTEDDAVFVGGVDHQ-NGASSNGNNQVTDLAEIQNGDVQNAANVDGFDRHQNTGTEI 80

Query: 71  ANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQ 130
           +   EAE+Q   QREA  I EET+K L+NE + HIQKEA L  ++++LQ E D+ + K Q
Sbjct: 81  SISVEAEKQQWFQREA--IFEETIKRLQNENDLHIQKEAILRKSIKELQEENDIQRRK-Q 137

Query: 131 ATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQRE------------------ 172
             LEET+++LQ  ND  +QKEATLEETIK+LRN ND  +Q+E                  
Sbjct: 138 VMLEETVKELQNANDSALQKEATLEETIKELRNTNDSALQKEVKLEKTIKELRSAKDSAL 197

Query: 173 ---GGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKD 229
               GL+  IA LQSE E +LQ +A LE+K+    +E+A+L +K ASLEE++K LE++KD
Sbjct: 198 QKEAGLKKKIAQLQSENELFLQTKAGLEEKLQLSLNENASLGLKEASLEEKIKQLESEKD 257

Query: 230 SWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQL----- 284
           SWT  E+ +KETIA ++VD+T+LRMQVVELEESRN+LL+EN+QL EN+S L+ Q+     
Sbjct: 258 SWTLAENTTKETIARMNVDVTRLRMQVVELEESRNSLLKENQQLMENISDLQLQVQNLET 317

Query: 285 ------SSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVA 338
                 +S E KKHA  E +D  +QIEAA AL+DKLITEN ELVEKVN+L +KLD+QS  
Sbjct: 318 NISSASTSCEQKKHAL-EGEDLESQIEAACALVDKLITENAELVEKVNELYIKLDQQSTT 376

Query: 339 AGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPP 398
           A  SS  G+  +T + +D+ P  +S +NMS + ++LE+   + V+          AD   
Sbjct: 377 ATASS--GNAEITYI-ADSIP--QSDENMSVVVHKLES---LEVEHAAALPYAAEAD--- 425

Query: 399 LVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFV 458
                     SGEIVQIPLDD E++DLELQ VES  DK  AVP++DAPLIGAPFRL+SFV
Sbjct: 426 ----------SGEIVQIPLDDNELRDLELQAVES--DKTEAVPISDAPLIGAPFRLISFV 473

Query: 459 AKYVSGADLVNKN 471
           AKYVSGADLV+K+
Sbjct: 474 AKYVSGADLVDKD 486

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139390|ref|XP_002323089.1| predicted protein [Populus trichocarpa] gi|222867719|gb|EEF04850.1| predicted protein [Populus trichocarpa]

 Score =  359 bits (921), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 218/437 (49%), Positives = 286/437 (65%), Gaps = 60/437 (13%)

Query: 52  DIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATL 111
           D+++     D+      +S+ LAEAE+Q  LQREA    EET+K L +E +SHIQKE T 
Sbjct: 66  DVEDFNTHNDKPNGVAPQSSILAEAEKQWWLQREAT--FEETIKQLEDENDSHIQKEVTF 123

Query: 112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQR 171
           E                      ETI+QLQ +ND  +QKEAT E+TIKQL+ +NDLH+Q+
Sbjct: 124 E----------------------ETIKQLQDENDSHIQKEATFEDTIKQLKTENDLHMQK 161

Query: 172 EGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSW 231
           E GLEM I  LQ EK+FW  KEA LE+K++ L DE AAL +K ASLEE++  L+++KDSW
Sbjct: 162 EAGLEMKIMQLQREKDFWFLKEAGLEEKLNLLLDEKAALGLKLASLEEKIGQLDSEKDSW 221

Query: 232 TQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKK 291
              E+ +KE +  +++DIT LRMQVVELE SRN+L++EN+QLKE+VS L+ QL + E+++
Sbjct: 222 AVSENTTKEIVGRMNIDITSLRMQVVELEYSRNSLVKENQQLKESVSDLKLQLQNVETQQ 281

Query: 292 HATS-----------EQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAG 340
             +S           E++D ++QIEAA AL+DKLITEN ELVEKVN+L +KLD+Q  AA 
Sbjct: 282 SISSANTSELGKNDAEKEDLNSQIEAACALVDKLITENAELVEKVNELYIKLDQQKAAAS 341

Query: 341 LSSAIGSDAV---TALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPP 397
           LSS+ GSD +   + L + T PMSESS++   L +                   + ADPP
Sbjct: 342 LSSSAGSDVILRNSELANGTPPMSESSESALGLKSE-----------------SLDADPP 384

Query: 398 PLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSF 457
             VL  S    + EIVQIPLDD EV D+E+Q      DK + VPLTDAPLIGAPFRL+SF
Sbjct: 385 AAVLPQSSEPDAEEIVQIPLDDNEVPDVEMQA----EDK-SGVPLTDAPLIGAPFRLISF 439

Query: 458 VAKYVSGADLVNKNASN 474
           VAKYVSGADLV+K+ SN
Sbjct: 440 VAKYVSGADLVSKDDSN 456

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741755|emb|CBI32887.3| unnamed protein product [Vitis vinifera]

 Score =  321 bits (823), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 228/501 (45%), Positives = 317/501 (63%), Gaps = 67/501 (13%)

Query: 1   MEDEKKKKRNKKKKNNKQTKTTTDDVAVGA-----DPNHL---INGQKDDVRSQASEPAD 52
           MEDEKKKK+NKKKKN +   +    V VG      D NHL    +G ++ +       AD
Sbjct: 1   MEDEKKKKKNKKKKNKQHKASEGPAVGVGEEIASLDENHLSTQTHGNQESI-------AD 53

Query: 53  IQN--VQ---VDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQK 107
           +QN  VQ   VD + H +NG +S+ L EAE+Q  LQREA   L+E +K L N++E H QK
Sbjct: 54  VQNRDVQKENVDLNGHCANGTDSSILVEAEKQKWLQREAS--LQERIKQLENDKELHTQK 111

Query: 108 EATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDL 167
           E+ L         E D                 ++Q    +++EATLEE IKQL+++NDL
Sbjct: 112 ESILA--------EAD-----------------KKQ---WLKREATLEERIKQLQDENDL 143

Query: 168 HIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEAD 227
           H+Q+E GLEM I  LQ+EK  W+QKEA LE KI QL DE++ L++K ASLEE+++  E +
Sbjct: 144 HMQKEAGLEMRIVQLQTEKHSWIQKEATLEGKIQQLLDENSTLSVKWASLEEKVEHQERE 203

Query: 228 KDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQL--- 284
           ++SW   E+ S+E I+ L+ +  +L+ QV+ELEE R N+LQEN+ LKE VSSL+ Q+   
Sbjct: 204 RNSWVLKENSSREIISSLNDENRKLQGQVMELEEFRINILQENQLLKEKVSSLQLQIKEL 263

Query: 285 --------SSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQS 336
                   +S E  KHA S+  D + Q EAA  LI+KL +EN +LVEKVN+L ++LD+  
Sbjct: 264 EESVSSAHASTEITKHA-SKHVDLNPQTEAATVLIEKLTSENADLVEKVNELYIELDQLR 322

Query: 337 VAAGLSSAIGSD-AVTALTSD--TEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVH 393
           VAAGLSSAIG D  + AL +    + MSE +DN S+ + R++    V + ++R   +   
Sbjct: 323 VAAGLSSAIGLDKKIGALQNSNVADHMSEPTDNSSASSERMDPLEAVPMNDERISADIED 382

Query: 394 ADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFR 453
            +   ++ +SSE + SGEIVQIPLD+ E ++LELQ  E+  D+   VP+TDAPLIGAPFR
Sbjct: 383 VEQTAVIPNSSETDDSGEIVQIPLDENEARELELQAAEN--DRNTTVPITDAPLIGAPFR 440

Query: 454 LVSFVAKYVSGADLVNKNASN 474
            +SFVAKYVSGADLV K+++N
Sbjct: 441 FISFVAKYVSGADLVGKSSTN 461

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566804|ref|XP_003551617.1| PREDICTED: uncharacterized protein LOC100796148 [Glycine max]

 Score =  286 bits (733), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 185/417 (44%), Positives = 261/417 (62%), Gaps = 18/417 (4%)

Query: 72  NLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQA 131
           NL E    H+ Q+E ++  +ET+K L+ E E HIQ+EA  + T++ L+ E D   +KV  
Sbjct: 236 NLKEKNDVHV-QKETLS--QETIKKLKEENEVHIQEEAISKETIKNLKEENDKLLQKV-V 291

Query: 132 TLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQ 191
           +LEE I  LQ  N+L+ QK  +LE  I  L N+     ++E GLE  IA LQSE    LQ
Sbjct: 292 SLEEVINNLQTDNELQTQKHESLERKINLLENELSSFSEKEVGLETRIAQLQSENNSLLQ 351

Query: 192 KEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQ 251
           KEA L ++ +QL +E A L++K  SLE+++ LLE+D +S  + E+ +KETI+ L+ +I  
Sbjct: 352 KEATLVERTNQLLNEKAVLSLKGESLEQKIYLLESDLNSLVKKENSTKETISNLNGNIAV 411

Query: 252 LRMQVVELEESRNNLLQENRQLKENVSSLRSQL-----------SSDESKKHATSEQKDF 300
           L+ QV ELEESRNNL  EN+QL+E VSSL+S +           S D S K   SE +D 
Sbjct: 412 LQAQVEELEESRNNLFLENQQLREKVSSLQSTVQNHENSNTSSCSWDASVKDLASENEDL 471

Query: 301 STQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTE-- 358
            ++IEAA  L++KL+ EN ELVEKV +L V+LD +S   G S    S+ +T     T   
Sbjct: 472 KSEIEAAFTLVEKLMAENAELVEKVTELCVELDHRSAEVGHSGVTESNGMTEFVKPTGVA 531

Query: 359 -PMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPL 417
            P+ ES++  S  + +L +    +VK++ N  +  H        S   A+ +GEIVQIPL
Sbjct: 532 IPLPESAEYASVSSPKLNSLEETSVKDNGNSNDAKHVVGVTSNSSLVSADDAGEIVQIPL 591

Query: 418 DDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNKNASN 474
           DD E+QD+ELQ  ++  +   AVP+TDAPLIGAPFRL+SFVA +VSGADLVN+++SN
Sbjct: 592 DDNEIQDIELQDAKNVENDADAVPITDAPLIGAPFRLISFVANFVSGADLVNQSSSN 648

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481328|ref|XP_002279159.2| PREDICTED: uncharacterized protein LOC100249907 [Vitis vinifera]

 Score =  242 bits (617), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 221/565 (39%), Positives = 300/565 (53%), Gaps = 150/565 (26%)

Query: 1   MEDEKKKKRNKKKKNNKQTKTTTDDVAVG-----ADPNHL---INGQKDDVRSQASEPAD 52
           MEDEKKKK+NKKKKN +   +    V VG      D NHL    +G ++ +       AD
Sbjct: 1   MEDEKKKKKNKKKKNKQHKASEGPAVGVGEEIASLDENHLSTQTHGNQESI-------AD 53

Query: 53  IQN--VQ---VDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQK 107
           +QN  VQ   VD + H +NG +S+ L EAE+Q  LQREA   L+E +K L N++E H QK
Sbjct: 54  VQNRDVQKENVDLNGHCANGTDSSILVEAEKQKWLQREAS--LQERIKQLENDKELHTQK 111

Query: 108 EATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDL 167
           E+ L         E D                 ++Q    +++EATLEE IKQL+++NDL
Sbjct: 112 ESILA--------EAD-----------------KKQ---WLKREATLEERIKQLQDENDL 143

Query: 168 HIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEAD 227
           H+Q+E GLEM I  LQ+EK  W+QKEA LE KI QL DE++ L++K              
Sbjct: 144 HMQKEAGLEMRIVQLQTEKHSWIQKEATLEGKIQQLLDENSTLSVK-------------- 189

Query: 228 KDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQL--- 284
              W      S+E I+ L+ +  +L+ QV+ELEE R N+LQEN+ LKE VSSL+ Q+   
Sbjct: 190 ---WNS----SREIISSLNDENRKLQGQVMELEEFRINILQENQLLKEKVSSLQLQIKEL 242

Query: 285 --------SSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQS 336
                   +S E  KHA S+  D + Q EAA  LI+KL +EN +LVEKVN+L ++LD+  
Sbjct: 243 EESVSSAHASTEITKHA-SKHVDLNPQTEAATVLIEKLTSENADLVEKVNELYIELDQLR 301

Query: 337 VAAGLSSAIGSD-AVTALTSD--TEPMSESSDNMSSLNNRLETQGVVAVK---------- 383
           VAAGLSSAIG D  + AL +    + MSE +DN S+ + R+E+   V +           
Sbjct: 302 VAAGLSSAIGLDKKIGALQNSNVADHMSEPTDNSSASSERMESVEAVPIHGQSSQEAVPM 361

Query: 384 EDRNGINGVHADP-------PPLVLSSSEA-----EYSGEIVQI---------PLDDK-- 420
            D N    V           P L  SS EA     + S E V I         P++D+  
Sbjct: 362 HDENSQEAVPIHDQRSLEAVPMLDESSQEAVPIHDQRSIEAVPINDKSPLEAVPMNDERI 421

Query: 421 --EVQDLELQVV---ESYTD---KVAAVPL-----------------------TDAPLIG 449
             +++D+E   V    S TD   ++  +PL                       TDAPLIG
Sbjct: 422 SADIEDVEQTAVIPNSSETDDSGEIVQIPLDENEARELELQAAENDRNTTVPITDAPLIG 481

Query: 450 APFRLVSFVAKYVSGADLVNKNASN 474
           APFR +SFVAKYVSGADLV K+++N
Sbjct: 482 APFRFISFVAKYVSGADLVGKSSTN 506

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79570413|ref|NP_181392.2| ATP synthase D chain-related protein [Arabidopsis thaliana] gi|51968994|dbj|BAD43189.1| hypothetical protein [Arabidopsis thaliana] gi|330254458|gb|AEC09552.1| ATP synthase D chain-related protein [Arabidopsis thaliana]

 Score =  214 bits (546), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 151/397 (38%), Positives = 240/397 (60%), Gaps = 29/397 (7%)

Query: 75  EAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLE 134
           E E +  +Q+EA+  LEE + HL+ E E+H+  EA LEG +  L+ E + + +  +A LE
Sbjct: 113 ETENEAHIQKEAL--LEERLVHLKTENEAHVHNEALLEGKLLHLRTENEDHIQN-EALLE 169

Query: 135 ETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEA 194
           E +  L+ +N+  +Q EA LEE +   R +N+ H Q E  LE  +   +++ +  L++ +
Sbjct: 170 EKLLHLRTENEAHIQNEALLEERLLHFRTENEAHKQNEEKLEERLVQYKNKNDMLLREMS 229

Query: 195 ALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRM 254
           + E ++ QL DE +    K ASLE++++ L+ D++S    E  S+E I+ L+ +I +LR 
Sbjct: 230 STEAQMRQLLDERSTFTQKEASLEKKVQQLQHDEESLVAEEKSSREMISSLNNEIARLRA 289

Query: 255 QVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKL 314
           QV ELE+S++NLL++N+ LKE +S+L+ Q  + +S     SE+ + ++QIEAA  L++KL
Sbjct: 290 QVTELEKSKSNLLEQNQSLKETISNLQVQHENHDSNAKGASEE-ELNSQIEAACTLVEKL 348

Query: 315 ITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRL 374
           ITEN +LVEKVN+L +KL++   A+  S AI  +   +L  +  P+    D +  ++N  
Sbjct: 349 ITENADLVEKVNELCIKLNQSQHASPESLAIEVEKSESL--EEIPI---HDELIRIDNSR 403

Query: 375 ETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYT 434
           +     ++K  RN   G   +  PL L++     +GE+           D+E QV  +  
Sbjct: 404 DMD-TASIK--RNFSEGEIEETVPLSLNA-----NGEV-----------DVESQVAVAGE 444

Query: 435 DKV-AAVPLTDAPLIGAPFRLVSFVAKYVSGADLVNK 470
           D++ A VPL DAPLIGAPFRLVSFVA+YVSGADL  K
Sbjct: 445 DEINAGVPLADAPLIGAPFRLVSFVARYVSGADLAAK 481

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823743|ref|XP_002879754.1| hypothetical protein ARALYDRAFT_345641 [Arabidopsis lyrata subsp. lyrata] gi|297325593|gb|EFH56013.1| hypothetical protein ARALYDRAFT_345641 [Arabidopsis lyrata subsp. lyrata]

 Score =  213 bits (543), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 160/405 (39%), Positives = 239/405 (59%), Gaps = 44/405 (10%)

Query: 82  LQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQ 141
           LQ+EA   LEE + HL+ E E+HIQ EA LE  +  L+ E + + +  +A LEE +  L+
Sbjct: 132 LQKEAF--LEERLVHLKTENEAHIQNEALLEEKLLHLRTENEAHTQN-EALLEEKLLHLR 188

Query: 142 RQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEM----NIANLQSEKE---------- 187
            +N+  +Q EA LEE +  LR++N+ H Q E  LE+    NI  +Q + E          
Sbjct: 189 TENEDHIQNEARLEERLLHLRSENEAHKQNEDHLEVGGQNNIVFMQEKLEERLVQYKNKN 248

Query: 188 -FWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLS 246
              L++ ++ E ++ QL DE +    K  SLE++++ L+ D++S    E  S+E I+ L+
Sbjct: 249 DMLLREMSSTEAQMRQLLDERSTFTQKEVSLEKKVQQLQHDEESLVAEEKSSREMISSLN 308

Query: 247 VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEA 306
            +I +LR QV ELEES++NLL++N+ LKE VSSL+ Q  + +S     SE+ + ++QIEA
Sbjct: 309 NEIARLRAQVTELEESKSNLLEQNQSLKETVSSLQVQHENHDSNAKGASEE-ELNSQIEA 367

Query: 307 AGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDN 366
           A  L++KLITEN ELVEKVN+L +KL++   A+  S AI  +   +L  +  P+    D 
Sbjct: 368 ACTLVEKLITENAELVEKVNELCIKLNQSQHASPESLAIEVEKSESL--EEIPI---HDE 422

Query: 367 MSSLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLE 426
           +  ++N  +    +     RN   G   +  PL L++     +GE+           D+E
Sbjct: 423 LIRIDNSKDMDTALI---KRNLSEGEIEETVPLSLNA-----NGEV-----------DVE 463

Query: 427 LQVVESYTDKVAA-VPLTDAPLIGAPFRLVSFVAKYVSGADLVNK 470
            QVV +  D+V+A VPL DAPLIGAPFRLVSFVA+YVSGADL  K
Sbjct: 464 SQVVVAGEDEVSAGVPLADAPLIGAPFRLVSFVARYVSGADLAAK 508

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530165|ref|XP_003533654.1| PREDICTED: uncharacterized protein LOC100811378 [Glycine max]

 Score =  194 bits (493), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 151/439 (34%), Positives = 228/439 (51%), Gaps = 79/439 (17%)

Query: 72  NLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQA 131
           NL E    H+ Q+E ++  +ET++ L+ E E HIQKEA  + T+++ + E D   +K + 
Sbjct: 241 NLKEKNDMHM-QKETLS--QETIRKLKEENEGHIQKEAISKETIKKFEEENDKLVQK-ET 296

Query: 132 TLEETIQQLQRQNDLRMQKEATLE----------------------------ETIKQLRN 163
           +LE  I QLQ +N+  +QKE  ++                            E+++ L  
Sbjct: 297 SLEMRIAQLQSENNSLLQKEYIIDGILDLGPNPDHWAEQNKDQLLDPSPKEMESLEGLYQ 356

Query: 164 QNDL------HIQR--EGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA 215
           +  L      +I R    GLE   A L SE    LQKEA L ++ +QL +E   L++K  
Sbjct: 357 KAALWRVMFSYIGRRLHVGLETRFAQLHSENNSLLQKEATLVERTNQLLNEKEVLSLKGE 416

Query: 216 SLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKE 275
           SLE+++ LLE+D  S  + E+ +K+TI+ L+ +I  L++Q +                  
Sbjct: 417 SLEQKIYLLESDLSSLVEKENSTKDTISKLNGNIAVLQVQDL------------------ 458

Query: 276 NVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQ 335
                              SE KD  ++IEAA  L++KL+ EN ELVEKV +L V+LD Q
Sbjct: 459 ------------------ASENKDLKSEIEAAFTLVEKLMAENAELVEKVTELCVELDHQ 500

Query: 336 SVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGINGVHAD 395
           S     +        T +     P  ES++  S    +L +    +VK++ N  N     
Sbjct: 501 SAVTEPNEMTEFAKPTGVAI---PPPESAEYASVSAPKLNSLEETSVKDNGNSFNDAKHV 557

Query: 396 PPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDAPLIGAPFRLV 455
              +  SS  ++ +GEIVQIPLDD E+QD+ELQ  ++  +   AVP+TDAPLIGAPFRL+
Sbjct: 558 VGVMSNSSLLSDDAGEIVQIPLDDNEIQDIELQDAKNVENDADAVPITDAPLIGAPFRLI 617

Query: 456 SFVAKYVSGADLVNKNASN 474
           SFVA +VSGADLV+ ++SN
Sbjct: 618 SFVANFVSGADLVDPSSSN 636

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3786014|gb|AAC67360.1| hypothetical protein [Arabidopsis thaliana]

 Score =  184 bits (467), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 127/321 (39%), Positives = 198/321 (61%), Gaps = 26/321 (8%)

Query: 151 EATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL 210
           E  LEETIKQLR +N  ++Q+E  LE  +   +++ +  L++ ++ E ++ QL DE +  
Sbjct: 81  EVLLEETIKQLREENGSYLQKEEKLEERLVQYKNKNDMLLREMSSTEAQMRQLLDERSTF 140

Query: 211 NMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQEN 270
             K ASLE++++ L+ D++S    E  S+E I+ L+ +I +LR QV ELE+S++NLL++N
Sbjct: 141 TQKEASLEKKVQQLQHDEESLVAEEKSSREMISSLNNEIARLRAQVTELEKSKSNLLEQN 200

Query: 271 RQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSV 330
           + LKE +S+L+ Q  + +S     SE+ + ++QIEAA  L++KLITEN +LVEKVN+L +
Sbjct: 201 QSLKETISNLQVQHENHDSNAKGASEE-ELNSQIEAACTLVEKLITENADLVEKVNELCI 259

Query: 331 KLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGIN 390
           KL++   A+  S AI  +   +L  +  P+    D +  ++N  +     ++K  RN   
Sbjct: 260 KLNQSQHASPESLAIEVEKSESL--EEIPI---HDELIRIDNSRDMD-TASIK--RNFSE 311

Query: 391 GVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKV-AAVPLTDAPLIG 449
           G   +  PL L++     +GE+           D+E QV  +  D++ A VPL DAPLIG
Sbjct: 312 GEIEETVPLSLNA-----NGEV-----------DVESQVAVAGEDEINAGVPLADAPLIG 355

Query: 450 APFRLVSFVAKYVSGADLVNK 470
           APFRLVSFVA+YVSGADL  K
Sbjct: 356 APFRLVSFVARYVSGADLAAK 376

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	474
TAIR|locus:2064168	482	AT2G38580 "AT2G38580" [Arabido	0.700	0.688	0.330	8.1e-44
MGI|MGI:3041210	718	Ccdc157 "coiled-coil domain co	0.776	0.512	0.227	2.9e-10
SGD|S000004300	911	IMH1 "Protein involved in vesi	0.748	0.389	0.222	1.1e-09
UNIPROTKB|E1BS91	1147	CEP135 "Uncharacterized protei	0.685	0.283	0.231	2.5e-09
UNIPROTKB|E1C7U7	1155	CEP135 "Uncharacterized protei	0.685	0.281	0.231	2.5e-09
MGI|MGI:1924298	692	Ccdc41 "coiled-coil domain con	0.675	0.462	0.226	2.7e-09
RGD|1305732	1679	Gcc2 "GRIP and coiled-coil dom	0.656	0.185	0.214	6.6e-09
UNIPROTKB|O42184	1433	CLIP1 "CAP-Gly domain-containi	0.675	0.223	0.252	1.1e-08
RGD|1359593	692	Ccdc41 "coiled-coil domain con	0.677	0.463	0.232	1.6e-08
UNIPROTKB|F1SCX7	1828	KIF20B "Uncharacterized protei	0.573	0.148	0.254	2e-08

TAIR|locus:2064168 AT2G38580 "AT2G38580" [Arabidopsis thaliana (taxid:3702)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 114/345 (33%), Positives = 197/345 (57%)

Query:    69 ESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK 128
             E+    E E +  +Q+EA+  LEE + HL+ E E+H+  EA LEG +  L+ E + + + 
Sbjct:   107 ENVRRLETENEAHIQKEAL--LEERLVHLKTENEAHVHNEALLEGKLLHLRTENEDHIQN 164

Query:   129 VQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF 188
              +A LEE +  L+ +N+  +Q EA LEE +   R +N+ H Q E  LE  +   +++ + 
Sbjct:   165 -EALLEEKLLHLRTENEAHIQNEALLEERLLHFRTENEAHKQNEEKLEERLVQYKNKNDM 223

Query:   189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVD 248
              L++ ++ E ++ QL DE +    K ASLE++++ L+ D++S    E  S+E I+ L+ +
Sbjct:   224 LLREMSSTEAQMRQLLDERSTFTQKEASLEKKVQQLQHDEESLVAEEKSSREMISSLNNE 283

Query:   249 ITQLRMQVVELEESRNNLLQENRQLKENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAG 308
             I +LR QV ELE+S++NLL++N+ LKE +                 SE+ + ++QIEAA 
Sbjct:   284 IARLRAQVTELEKSKSNLLEQNQSLKETISNLQVQHENHDSNAKGASEE-ELNSQIEAAC 342

Query:   309 ALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMS 368
              L++KLITEN +LVEKVN+L +KL++   A+  S AI  +   +L  +  P+    D + 
Sbjct:   343 TLVEKLITENADLVEKVNELCIKLNQSQHASPESLAIEVEKSESL--EEIPIH---DELI 397

Query:   369 SLNNRLETQGVVAVKEDRNGINGVHADPPPLVLSSS-EAEYSGEI 412
              ++N  +     ++K  RN   G   +  PL L+++ E +   ++
Sbjct:   398 RIDNSRDMD-TASIK--RNFSEGEIEETVPLSLNANGEVDVESQV 439

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

MGI|MGI:3041210 Ccdc157 "coiled-coil domain containing 157" [Mus musculus (taxid:10090)]

 Score = 178 (67.7 bits), Expect = 2.9e-10, P = 2.9e-10
 Identities = 90/395 (22%), Positives = 162/395 (41%)

Query:    38 GQKDDVRSQASEPAD-IQNVQVDADRHQSNGAESANLAEAER-QHLLQREAMAILEETVK 95
             GQKD +R Q S+    +Q  Q    R Q+  AE   LA+ E  +H L  E    L+  V 
Sbjct:   309 GQKDGLRKQVSKLEQALQQEQGQRQR-QTEEAERT-LAKCEHDRHQLLTETCD-LKTKVA 365

Query:    96 HLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLE 155
              L  + +   +    +E   QQL+ E     E+ +A  E  +QQL+ Q  L   +     
Sbjct:   366 VLEGDLKQQQKSIQAMEAKAQQLEEE----GER-RAAAERQVQQLEEQVQLLAGRLDGAS 420

Query:   156 ETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA 215
             + I+    + D    R   +  +  +LQ+++   LQ+   L+Q+  +LR        +R+
Sbjct:   421 QQIRWASTELDKEKARVDSMVRHQESLQAKQRTLLQQLDCLDQEREELRGSLDEAEAQRS 480

Query:   216 SLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKE 275
              LEE+L+ L++D++         +E +  L  +   L     +L+ + + L Q+  +LKE
Sbjct:   481 ELEEQLQSLQSDREQEQCQLQAQQELLQSLQQEKQDLEQVTTDLQLTISELRQQLEELKE 540

Query:   276 N----VXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDKLITENIEL---VEKVNDL 328
                  V             + +++  +D   Q++A    I  L  EN  L   + K+ ++
Sbjct:   541 RERLLVAFPDLHQPEEAQIQSSSNVTQDMERQVQANAIRIQVLQEENKRLQSMLTKIREV 600

Query:   329 SVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNG 388
             + +   + V  G    + S     +   T P +++    S L  R ++ G       R  
Sbjct:   601 AQQGGLKMVPQG---QLWSPPYKGIQGATPP-AQAQSAFSGLTGRRQSPGSRTSSTGRTH 656

Query:   389 INGVHADP---P---PLVLSSSEAEYSGEIVQIPL 417
               G+   P   P   P   S  +  +S    Q P+
Sbjct:   657 PGGLRTSPSRQPGGLPSKFSLGDGSHSASCTQNPI 691

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

SGD|S000004300 IMH1 "Protein involved in vesicular transport" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 174 (66.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 86/386 (22%), Positives = 164/386 (42%)

Query:    33 NHLINGQKDDVRSQASEP-ADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILE 91
             N L++  KD+++  +S+   +++ V+++ D  +   A      EA+   L  R  + +L 
Sbjct:   404 NELVDA-KDEIKESSSKQNEEVKTVKLELDDLRHKNATMIEAYEAKNTEL--RSKIELLS 460

Query:    92 ETVKHLRNERESHIQKEATLEGTVQQLQNECD-LYKEKVQATLEETIQQLQRQNDLRMQK 150
             + V+HL+N      +++ T +  V +L  E   L  EK   T E T   L+     + + 
Sbjct:   461 KKVEHLKNLCTEKEKEQTTSQNKVAKLNEEISQLTYEKSNITKELT--SLRTSYKQKEKT 518

Query:   151 EATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL 210
              + LEE +KQ   Q D+  +    L  + A + +  +   ++   L   I++  +     
Sbjct:   519 VSYLEEQVKQFSEQKDVAEKSTEQLRKDHAKISNRLDLLKKENETLHNDIAKNSNSYEEY 578

Query:   211 NMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQEN 270
               +   L ERL +L+   ++   ++S S E I  +     +L    V+L+ES   +L   
Sbjct:   579 LKENGKLSERLNILQEKYNTLQNVKSNSNEHIDSIKRQCEELN---VKLKESTKKILSLE 635

Query:   271 RQLKE--NVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDL 328
              +L E  N+            +  + S+  D S Q E    L +KL      L ++ N L
Sbjct:   636 DELNEYANIVQDKTREANTLRRLVSDSQTDDSSKQKE----LENKLAY----LTDEKNKL 687

Query:   329 SVKLDRQSVAAGLSSAIGSDAVTALTSDT-------EPMSESSDNMSSLNNRLETQGVVA 381
               +LD Q+             VT L S+        E +    D +  +NN ++ +   A
Sbjct:   688 EAELDLQTSRKATELQEWKHTVTELKSEIHALKLREEGLKSEVDALKHVNNDIKRK-TQA 746

Query:   382 VKEDRNGINGVHADPPPLVLSSSEAE 407
               +D + +  + ++   L LS S+A+
Sbjct:   747 TSDDSDQLEQITSN---LKLSLSKAD 769

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IMP

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

GO:0005829 "cytosol" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=IMP

GO:0003674 "molecular_function" evidence=ND

GO:0000042 "protein targeting to Golgi" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006950 "response to stress" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

UNIPROTKB|E1BS91 CEP135 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 172 (65.6 bits), Expect = 2.5e-09, P = 2.5e-09
 Identities = 80/346 (23%), Positives = 146/346 (42%)

Query:    30 ADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAI 89
             AD   L+  +K+ +R +     +  N++    +H  +  E+ N+ + E +    +  ++I
Sbjct:   577 ADFRRLM-AEKESLREKLKIQQEAANLEKSKMQHDISVLEN-NIQQFELERCELKSTISI 634

Query:    90 LEETVKHLRNERESHIQKEATLEGTVQQLQNE-CDLY--KEKVQATLEETIQQLQ-RQND 145
             L+E +K L NE +    K         QL+ E C L+   E++Q T+E+   +L  ++++
Sbjct:   635 LKERIKSLENELKLKSSKLIQTSDDSSQLKAELCSLHLLNEQLQRTVEDLQHRLSLKKDE 694

Query:   146 LRMQKE--ATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL 203
             L+  +E    LEE I +L  ++    +    L   I  L  EK+   +      +KI+ L
Sbjct:   695 LQSAQEEIVKLEEKIDRLNQKSTSQDEAVNVLRSTITVLDKEKDNLQETVDEKTEKIACL 754

Query:   204 RDESAALNMKRASLEERLKL--LEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEE 261
              D  A  N ++     RL L  LE+  D    + S     I+ L   +     ++ E   
Sbjct:   755 DDNLA--NKEKTITHLRLTLSELESSTDQLKDLLSSRDREISSLRRQLDASHTEIAETGR 812

Query:   262 SRNNLLQENRQL--------KENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDK 313
              +   L+ENR+L        +EN             K+   +   ++ T++    +LI  
Sbjct:   813 VKEIALKENRRLQDDLATMTRENQAVSSELEDAIREKEEMKTRVHNYITEVSRFESLIAS 872

Query:   314 LITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTS-DTE 358
                EN EL+EK   L  + +   + A  +    S     L S DT+
Sbjct:   873 KEKENQELLEKFRMLHTQAEDWEIKAHQAEGESSSIRLELLSVDTD 918

GO:0007099 "centriole replication" evidence=IEA

GO:0010457 "centriole-centriole cohesion" evidence=IEA

UNIPROTKB|E1C7U7 CEP135 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 172 (65.6 bits), Expect = 2.5e-09, P = 2.5e-09
 Identities = 80/346 (23%), Positives = 146/346 (42%)

Query:    30 ADPNHLINGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAI 89
             AD   L+  +K+ +R +     +  N++    +H  +  E+ N+ + E +    +  ++I
Sbjct:   580 ADFRRLM-AEKESLREKLKIQQEAANLEKSKMQHDISVLEN-NIQQFELERCELKSTISI 637

Query:    90 LEETVKHLRNERESHIQKEATLEGTVQQLQNE-CDLY--KEKVQATLEETIQQLQ-RQND 145
             L+E +K L NE +    K         QL+ E C L+   E++Q T+E+   +L  ++++
Sbjct:   638 LKERIKSLENELKLKSSKLIQTSDDSSQLKAELCSLHLLNEQLQRTVEDLQHRLSLKKDE 697

Query:   146 LRMQKE--ATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL 203
             L+  +E    LEE I +L  ++    +    L   I  L  EK+   +      +KI+ L
Sbjct:   698 LQSAQEEIVKLEEKIDRLNQKSTSQDEAVNVLRSTITVLDKEKDNLQETVDEKTEKIACL 757

Query:   204 RDESAALNMKRASLEERLKL--LEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEE 261
              D  A  N ++     RL L  LE+  D    + S     I+ L   +     ++ E   
Sbjct:   758 DDNLA--NKEKTITHLRLTLSELESSTDQLKDLLSSRDREISSLRRQLDASHTEIAETGR 815

Query:   262 SRNNLLQENRQL--------KENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDK 313
              +   L+ENR+L        +EN             K+   +   ++ T++    +LI  
Sbjct:   816 VKEIALKENRRLQDDLATMTRENQAVSSELEDAIREKEEMKTRVHNYITEVSRFESLIAS 875

Query:   314 LITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTS-DTE 358
                EN EL+EK   L  + +   + A  +    S     L S DT+
Sbjct:   876 KEKENQELLEKFRMLHTQAEDWEIKAHQAEGESSSIRLELLSVDTD 921

GO:0005814 "centriole" evidence=IEA

GO:0007099 "centriole replication" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0010457 "centriole-centriole cohesion" evidence=IEA

MGI|MGI:1924298 Ccdc41 "coiled-coil domain containing 41" [Mus musculus (taxid:10090)]

 Score = 169 (64.5 bits), Expect = 2.7e-09, P = 2.7e-09
 Identities = 79/349 (22%), Positives = 151/349 (43%)

Query:    51 ADIQNVQVDADRHQSN--GAESANLAEAERQHLLQREAMAILEET--VKHLRNERESHIQ 106
             A+ Q+ ++ A+R +     +   N     + H   RE   +  E   +KH      + I+
Sbjct:   259 AEKQSAKLQAERLEKELQSSNEQNTCLISKLHRADREISTLASEVKELKHANKLEITDIK 318

Query:   107 KEAT-----LEGTVQQLQNECDLYK---EKVQATLEETIQQL-QRQNDLRMQKEATLEET 157
              EA      LE    ++Q+E D  +   E +++T+E     L ++  +L  + +A  EE 
Sbjct:   319 LEAARAKSELERERNKIQSELDGLQSDNEILKSTVEHHKALLVEKDRELIRKVQAAKEEG 378

Query:   158 IKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAA-LEQKI--SQLRDESAALNMKR 214
              ++L    D  ++ E  L  ++  ++ E++ W Q E    E+K+  SQ+ +E+A   ++ 
Sbjct:   379 YQKLMVLQDEKLELENRLS-DLEKMKVERDVWRQSEKEQCEEKLRASQMAEEAARRELQS 437

Query:   215 ASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLK 274
               L+ + +++  +K    ++E+      + L   I+ L++QV  L +S N+LL  N  LK
Sbjct:   438 TRLKLQQQIVNTEKAEKEKLEN------SELKQQISHLQIQVTSLTQSENDLLNSNHMLK 491

Query:   275 ENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGA--LIDK-LITENI-ELVEKVNDLSV 330
             + V            +  A   Q D    +E      L +K  + E I +  EK N    
Sbjct:   492 DMVERLKQECRNL--RSQAEKAQLDVEKTLEEKQIQWLEEKHKLHERITDREEKYNQAKE 549

Query:   331 KLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGV 379
             KL R + A     ++  + +  L    E +    + + + N  L  Q V
Sbjct:   550 KLQRAATAQKKRKSLHENKLKRLQEKVEVLEAKKEELETENQVLNRQNV 598

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

RGD|1305732 Gcc2 "GRIP and coiled-coil domain containing 2" [Rattus norvegicus (taxid:10116)]

 Score = 170 (64.9 bits), Expect = 6.6e-09, P = 6.6e-09
 Identities = 70/327 (21%), Positives = 144/327 (44%)

Query:    44 RSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERES 103
             + QAS+  ++Q     A   +    E+ N  + E + LL +E ++ LE T+K+L+ +   
Sbjct:   505 QQQASDVHELQQKLRTAFNEKDALLETINRLQGENEKLLSQELVSELESTMKNLKADNSM 564

Query:   104 HI----QKEATL---EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEE 156
             ++    QK+  L   E  +  L  E D +  K++ + EE I  L ++ +   +    L E
Sbjct:   565 YLASLGQKDTLLQELEAKISSLAEEKDDFISKIKTSREE-IDDLHQKWEREQKLSVELRE 623

Query:   157 TIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRAS 216
               +Q    N    QR   L   +  +  EK    Q +  +  ++  + ++  AL+ K  S
Sbjct:   624 AAEQAAQHNSELRQRVSELTGKLDEILREKS---QNDQNIMVQMKTMTEDQEALSSKIKS 680

Query:   217 LEERLKLLEADKDSWTQ-MESVSKETIAGLSVDITQLRMQVVELEESRNNL--LQENRQL 273
             L E    L ++K   ++ +E++  +        + +   ++  + E R++L  L EN QL
Sbjct:   681 LYEENNRLHSEKVQLSRDLEALQSQQDFAYKEHVAEFEKKLQLMVEERDDLNKLLENEQL 740

Query:   274 KENVXXXXXXXXXXXXKKHAT--SEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVK 331
             +++             +      +E++D  T ++A G  +  +  E   LV + +   ++
Sbjct:   741 QKSFVKTQLYEFLKQMRPSILEDNEEEDVVTVLKAVGESLVTVKEEKHNLVFEYDARVLE 800

Query:   332 LDRQSVAAGLSSAIGSDAVTALTSDTE 358
             L+R+       S +  + + AL  D+E
Sbjct:   801 LERRIKCLQEESVVQCEELRALVRDSE 827

GO:0000042 "protein targeting to Golgi" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=ISO

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

GO:0005802 "trans-Golgi network" evidence=ISO;ISS

GO:0006622 "protein targeting to lysosome" evidence=ISO;ISS

GO:0016020 "membrane" evidence=IEA

GO:0031023 "microtubule organizing center organization" evidence=ISO;ISS

GO:0034067 "protein localization to Golgi apparatus" evidence=ISO;ISS

GO:0034453 "microtubule anchoring" evidence=ISO;ISS

GO:0034499 "late endosome to Golgi transport" evidence=ISO;ISS

GO:0042147 "retrograde transport, endosome to Golgi" evidence=ISO

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

GO:0070861 "regulation of protein exit from endoplasmic reticulum" evidence=ISO;ISS

GO:0071955 "recycling endosome to Golgi transport" evidence=ISO;ISS

GO:0090161 "Golgi ribbon formation" evidence=ISO;ISS

GO:0043001 "Golgi to plasma membrane protein transport" evidence=ISO

UNIPROTKB|O42184 CLIP1 "CAP-Gly domain-containing linker protein 1" [Gallus gallus (taxid:9031)]

 Score = 163 (62.4 bits), Expect = 1.1e-08, Sum P(2) = 1.1e-08
 Identities = 88/348 (25%), Positives = 155/348 (44%)

Query:    52 DIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERES-HIQKEAT 110
             D +N   +    Q N  +S +L E E       E     E+T+++L+ + ES   Q    
Sbjct:   659 DYENEMSNLKLKQEN-EKSQHLKEIEALKAKLLEVTEEKEQTLENLKAKLESVEDQHLVE 717

Query:   111 LEGTVQQLQNECDL-YKEK--VQATLEETIQQL-QRQNDLRMQKEATLE-ETIKQLRNQN 165
             +E T+ +LQ E ++  KE   +QA   E  + +      +R  +E  L+   +++  ++ 
Sbjct:   718 MEDTLNKLQ-EAEIKVKELDVLQAKCNEQTKLIGSLTQQIRASEEKLLDLAALQKANSEG 776

Query:   166 DLHIQREG----GLEMNIANLQSEKEFWLQKEA-ALEQKISQLRDESAALNMKRASLEER 220
              L IQ+        E  I NL++EK   L KE    EQK+  L    +A+N  + SLE+ 
Sbjct:   777 KLEIQKLSEQLQAAEKQIQNLETEKVSNLTKELQGKEQKLLDLEKNLSAVNQVKDSLEKE 836

Query:   221 LKLLE----ADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKEN 276
             L+LL+    +  D     +   +ETI  L+    Q  +   ELE+ ++NL     +LKE 
Sbjct:   837 LQLLKEKFTSAVDGAENAQRAMQETINKLNQKEEQFALMSSELEQLKSNLTVMETKLKER 896

Query:   277 VXXXXXXXXXXXXKKHATSE-QK---DFSTQIEAAG---ALIDKLITENIEL-VEKVNDL 328
                           ++  +E  K   D S Q+        L ++ + E I+L + K N+ 
Sbjct:   897 EEREQQLTEAKVKLENDIAEIMKSSGDSSAQLMKMNDELRLKERQL-EQIQLELTKANEK 955

Query:   329 SVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLET 376
             +V+L + +V      A  S   T L +  E + +  D ++ +  ++ET
Sbjct:   956 AVQLQK-NVEQTAQKAEQSQQET-LKTHQEELKKMQDQLTDMKKQMET 1001

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0001726 "ruffle" evidence=IEA

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0001578 "microtubule bundle formation" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005881 "cytoplasmic microtubule" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0031116 "positive regulation of microtubule polymerization" evidence=IEA

GO:0035371 "microtubule plus end" evidence=IEA

GO:0044354 "macropinosome" evidence=IEA

GO:0051010 "microtubule plus-end binding" evidence=IEA

RGD|1359593 Ccdc41 "coiled-coil domain containing 41" [Rattus norvegicus (taxid:10116)]

 Score = 162 (62.1 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 81/348 (23%), Positives = 150/348 (43%)

Query:    51 ADIQNVQVDADRHQSN--GAESANLAEAERQHLLQREAMAILEETVKHLR--NERE-SHI 105
             A+ Q+ ++ A+R +     +   N     + H   RE ++ L   VK L+  N+ E + +
Sbjct:   259 AEKQSAKLQAERLEKELQSSNEQNTCLISKLHKADRE-ISTLTSQVKELKHANKLEITDV 317

Query:   106 QKEAT-----LEGTVQQLQNECDLYK---EKVQATLEE-TIQQLQRQNDLRMQKEATLEE 156
             + EA      LE    ++Q+E D  +   E +++T+E   +  +++  +L  + +A  EE
Sbjct:   318 KLEAARAKSELERERNKIQSELDGLQSDNEILKSTVEHHKVLLVEKDRELIRKVQAAKEE 377

Query:   157 TIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRAS 216
               ++L    D  ++ E  L  ++  ++ E + W Q E   +Q   +LR   AA    R  
Sbjct:   378 GYQKLVVLQDEKLELENRLS-DLEKMKVEHDVWRQSEK--DQCEEKLRASQAAEEAARRE 434

Query:   217 LEE-RLKLLEADKDSWTQMESVSKETIAG--LSVDITQLRMQVVELEESRNNLLQENRQL 273
             L+  RLKL    +      E   KE +    L   I+ L++QV  L +S N+LL  N+ L
Sbjct:   435 LQSIRLKL----QQQIVNTEKAEKEKLENSELKQQISHLQIQVTSLTQSENDLLNSNQML 490

Query:   274 KENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDK-LITENI-ELVEKVNDLSVK 331
             K+ V            +      + + + + +    L +K  + E I +  EK N    K
Sbjct:   491 KDMVERLKQECRHLRSQAEKVQLEVEKTLEEKQIQWLEEKHKLHERITDREEKYNQAKEK 550

Query:   332 LDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLETQGV 379
             L R + A     ++  + +  L    E +    + + + N  L  Q V
Sbjct:   551 LQRAATAQKKRKSLHENKLKRLQEKVEVLEAKKEELETENQVLNRQNV 598

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|F1SCX7 KIF20B "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 166 (63.5 bits), Expect = 2.0e-08, P = 2.0e-08
 Identities = 78/307 (25%), Positives = 147/307 (47%)

Query:    54 QNVQVDADRHQSNGAE-SANLAEAERQ-HLLQREAMAILEETVKHLR---NERE---SHI 105
             QN++VD  R + + AE    LA+A+RQ   +Q+E ++++ +  K LR   N+ E   +  
Sbjct:  1279 QNLKVDLQRKEEDYAEVKEKLADAKRQIEQVQKE-VSVMRDDEKLLRVKINDLEKKKNQC 1337

Query:   106 QKEATL-EGTVQQLQNECDLYKEKVQATLEETIQQLQRQ-NDLRMQKEATLEETIKQLRN 163
              +E  + + T+QQL+ +  L  +KV    EE IQQ +R   DL + KE  +E+    L  
Sbjct:  1338 SEEIDMKQRTIQQLKEQ--LNNQKV----EEAIQQYERVCKDLSV-KEKIIEDMRMTLEE 1390

Query:   164 QNDLHIQREGGLEMNIAN---LQSEKEFWLQKEAALEQKISQ-----LRDESAALNMKRA 215
             Q    ++++  LE  +     L +E E W +K   LE K ++     L D +  LN+K +
Sbjct:  1391 QEQTQVEQDQVLEAKLEEAERLATELEKWKEKCKDLETKSNERSNKELEDNTDILNIKLS 1450

Query:   216 SLEERLKLLE----ADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENR 271
              L++ L+  E    AD+  W + E +   T A  + D+    M+  +  E R + L++  
Sbjct:  1451 KLQDELQESEQKYKADRKKWLE-EKMMLITQAKEAEDLRNKEMK--KYAEDREHCLKQQN 1507

Query:   272 QLKENVXXXXXXXXXXXXKKHATSEQKDFSTQIEAAGALIDKLITEN-IELVEKVNDLSV 330
             ++ E +            +     +Q   + +I+    +      +N IE ++K+   + 
Sbjct:  1508 EM-EILKEQLAKKDGSLQQWREERDQLVAALEIQLKTLISSNAQKDNEIEQLKKITSEAS 1566

Query:   331 KLDRQSV 337
             K ++Q++
Sbjct:  1567 KTEKQTM 1573

GO:0050699 "WW domain binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005654 "nucleoplasm" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005875 "microtubule associated complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_VI000910 hypothetical protein (477 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	474
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-10
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-09
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-08
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-06
pfam12128	1198	pfam12128, DUF3584, Protein of unknown function (D	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
TIGR03185	650	TIGR03185, DNA_S_dndD, DNA sulfur modification pro	4e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
pfam00429	560	pfam00429, TLV_coat, ENV polyprotein (coat polypro	0.001
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.001
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.002
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	0.002
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.003
pfam07888	546	pfam07888, CALCOCO1, Calcium binding and coiled-co	0.004

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

 Score = 63.2 bits (154), Expect = 2e-10
 Identities = 56/232 (24%), Positives = 98/232 (42%), Gaps = 1/232 (0%)

Query: 60  ADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQ 119
                   +    L E  RQ       +  L+  +  L  E E    +   LE  +++L+
Sbjct: 691 KSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELE 750

Query: 120 NECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNI 179
            E +  +E++   LEE ++ L+       ++   LEE  + L+ + +   +     E  +
Sbjct: 751 EELEELQERL-EELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRL 809

Query: 180 ANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSK 239
             L+ E E   Q+   LEQ+I +L +E   L  K   LEE L+ LE + +   +     +
Sbjct: 810 DALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELE 869

Query: 240 ETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKK 291
                L  ++ +L  +  ELEE    L  E  +LKE +  LR +L   E+K 
Sbjct: 870 AEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKL 921

Length = 1163

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

 Score = 58.6 bits (142), Expect = 5e-09
 Identities = 70/329 (21%), Positives = 135/329 (41%), Gaps = 33/329 (10%)

Query: 90  LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYK----EKVQATLEETIQQLQRQND 145
           LE+ ++ L  + E   ++   L+  +++L+    L K     K    LEE + +L+ + +
Sbjct: 198 LEKQLEKLERQAEK-AERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELE 256

Query: 146 LRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRD 205
              ++    E+ I++L+            L   +  LQ E     ++   LE +IS LR+
Sbjct: 257 ELQEELEEAEKEIEELK-------SELEELREELEELQEELLELKEEIEELEGEISLLRE 309

Query: 206 ESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNN 265
               L  +   LEERL+ L+   ++  +     +  +  L   + +L     ELEE  + 
Sbjct: 310 RLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSA 369

Query: 266 LLQE----NRQLKENVSSLRSQLSSDESK--------KHATSEQKDFSTQIEAAGALIDK 313
           LL+E       L+E ++ L ++L+   ++        +      +  S ++E     + +
Sbjct: 370 LLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKE 429

Query: 314 LITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNR 373
           L  E  EL  ++ +L+ +L+              +    L    E +      +SSL  R
Sbjct: 430 LEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEAR 489

Query: 374 LET--------QGVVAVKEDRN-GINGVH 393
           L+         QGV AV E    G+ GV+
Sbjct: 490 LDRLEAEQRASQGVRAVLEALESGLPGVY 518

Length = 1163

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

 Score = 57.0 bits (138), Expect = 1e-08
 Identities = 48/216 (22%), Positives = 105/216 (48%), Gaps = 4/216 (1%)

Query: 84  REAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQ 143
           RE +  L+E +  L+ E E    + + L   +++L+NE +  +E+++  L+E I+ L+ +
Sbjct: 280 REELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEE-LKEKIEALKEE 338

Query: 144 NDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL 203
            + R      LE+ + +L    +   ++   L   +  L+   E   ++ A LE +++++
Sbjct: 339 LEERETLLEELEQLLAELEEAKEELEEK---LSALLEELEELFEALREELAELEAELAEI 395

Query: 204 RDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESR 263
           R+E   L  +  SLEERL+ L    +   +     +  +  L  ++ +L  ++ ELEE  
Sbjct: 396 RNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQL 455

Query: 264 NNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKD 299
             L    ++L+  ++ L+ +L   E +  +   + D
Sbjct: 456 EELRDRLKELERELAELQEELQRLEKELSSLEARLD 491

Length = 1163

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

 Score = 57.0 bits (138), Expect = 2e-08
 Identities = 57/255 (22%), Positives = 109/255 (42%), Gaps = 3/255 (1%)

Query: 124 LYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ 183
           L + +    LEE I++L+ +     +  A L + +++L  + +   +    L   I+ L+
Sbjct: 673 LERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALR 732

Query: 184 SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERL-KLLEADKDSWTQMESVSKETI 242
            +      +   LE++I+QL  E   L  +   LEERL +  E   ++  ++E + +  I
Sbjct: 733 KDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEEL-EAQI 791

Query: 243 AGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQ-KDFS 301
             L  ++  LR  + EL      L +E   L+E + SL  ++++ E +     EQ ++ S
Sbjct: 792 EQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELS 851

Query: 302 TQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMS 361
             IE+  A I++L     EL  ++  L  +      A  L  +   +    L       S
Sbjct: 852 EDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRS 911

Query: 362 ESSDNMSSLNNRLET 376
           E    +  L  +L  
Sbjct: 912 ELRRELEELREKLAQ 926

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 = 56.2 bits (136), Expect = 3e-08
 Identities = 59/252 (23%), Positives = 114/252 (45%), Gaps = 19/252 (7%)

Query: 68  AESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKE 127
             +A L E E +    R  ++ LEE ++ L+ E  +   + + LE   Q L+       E
Sbjct: 257 ELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLA-NLE 315

Query: 128 KVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKE 187
           +    LE  +++L+ + D   ++ A LEE +++L+ + +        LE  +  L++E E
Sbjct: 316 RQLEELEAQLEELESKLDELAEELAELEEKLEELKEELE-------SLEAELEELEAELE 368

Query: 188 FWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGL-- 245
               +   LE+++  LR + A L ++ ASL   ++ LEA  +         ++ I  L  
Sbjct: 369 ELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLK 428

Query: 246 ---SVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFST 302
                ++ +L+ ++ ELEE    L +E  +L+E +  LR +L      + A         
Sbjct: 429 KLEEAELKELQAELEELEEELEELQEELERLEEALEELREEL------EEAEQALDAAER 482

Query: 303 QIEAAGALIDKL 314
           ++    A +D L
Sbjct: 483 ELAQLQARLDSL 494

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

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

 Score = 53.1 bits (128), Expect = 2e-07
 Identities = 56/289 (19%), Positives = 121/289 (41%), Gaps = 19/289 (6%)

Query: 61  DRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQN 120
           D  +  G     + + E++    +E +  LEE +  L  E E+   +   LE  +++L+ 
Sbjct: 713 DASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEE 772

Query: 121 ECDLYKEKV--------QATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQRE 172
           +    +E +         + + E   +L +  +   + EA L E  ++L   N L +++E
Sbjct: 773 DLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKL---NRLTLEKE 829

Query: 173 GGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA-------SLEERLKLLE 225
             LE  I  LQ ++    ++  ++E++I  L  +   L  +          LE RL  L+
Sbjct: 830 -YLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLK 888

Query: 226 ADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS 285
            ++D         +  I  L   I + R ++ EL+     L +E  ++++          
Sbjct: 889 KERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPKGEDEEIPE 948

Query: 286 SDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDR 334
            + S +   +E +    +I A   +    I E  E+++++++L  K  +
Sbjct: 949 EELSLEDVQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEKRAK 997

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

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

 Score = 52.8 bits (127), Expect = 3e-07
 Identities = 59/301 (19%), Positives = 138/301 (45%), Gaps = 10/301 (3%)

Query: 42  DVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNER 101
            +     + A+++    +  +      E   L +  ++       ++ L + +  L  E 
Sbjct: 685 KIEELEEKIAELEKALAELRKELEELEE--ELEQLRKELEELSRQISALRKDLARLEAEV 742

Query: 102 ESHIQKEATLEGTVQQLQNECDLYKEKVQ------ATLEETIQQLQRQNDLRMQKEATLE 155
           E   ++ A L   + +L+ E +  +E+++      A  E  I++L+ Q +   ++   L 
Sbjct: 743 EQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALR 802

Query: 156 ETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA 215
           E + +LR +  L  +    L   + +L+       ++   LE++I +L ++  +L  +  
Sbjct: 803 EALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIE 862

Query: 216 SLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKE 275
            LEE ++ LE++ ++     +  +E +A L  ++ +L  ++ ELE  R+ L +E  +L+E
Sbjct: 863 ELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELRE 922

Query: 276 NVSSLRSQLSSDESKKHATSEQ--KDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLD 333
            ++ L  +L   E +     E+  +++S  +E A AL +K+  +  E   ++  L  K+ 
Sbjct: 923 KLAQLELRLEGLEVRIDNLQERLSEEYSLTLEEAEALENKIEDDEEEARRRLKRLENKIK 982

Query: 334 R 334
            
Sbjct: 983 E 983

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

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

 Score = 48.9 bits (117), Expect = 5e-06
 Identities = 42/218 (19%), Positives = 94/218 (43%), Gaps = 8/218 (3%)

Query: 126 KEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSE 185
           KE+ +  LE T + L+R  DL  + E  LE+  +Q          +    E+ +A L ++
Sbjct: 174 KEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLLAK 233

Query: 186 KEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGL 245
            +   ++   LE+++S+L +E   L  +    E+ ++ L+++ +   +     +E +  L
Sbjct: 234 LKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLEL 293

Query: 246 SVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES--------KKHATSEQ 297
             +I +L  ++  L E    L  E  +L+E +  L+ ++ + +          +      
Sbjct: 294 KEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLL 353

Query: 298 KDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQ 335
            +     E     +  L+ E  EL E + +   +L+ +
Sbjct: 354 AELEEAKEELEEKLSALLEELEELFEALREELAELEAE 391

Length = 1163

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

 Score = 48.9 bits (117), Expect = 5e-06
 Identities = 45/250 (18%), Positives = 93/250 (37%), Gaps = 21/250 (8%)

Query: 127 EKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK 186
           E++   ++E  QQL+R    R + E       ++   +    ++ +  LE     ++ + 
Sbjct: 187 ERLDLIIDEKRQQLERLRREREKAERYQALLKEKREYEGYELLKEKEALERQKEAIERQL 246

Query: 187 EFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVS-KETIAGL 245
               ++   L ++IS+L      +      L +++K L  +       E +  KE I  L
Sbjct: 247 ASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEE-------EQLRVKEKIGEL 299

Query: 246 SVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIE 305
             +I  L   + E E    +  +   +L+  +  L +++             ++   +IE
Sbjct: 300 EAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEI-------------EELEREIE 346

Query: 306 AAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSD 365
                 DKL  E  EL E++ DL  +L+        +     D    L      ++E   
Sbjct: 347 EERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKR 406

Query: 366 NMSSLNNRLE 375
            +  L   L+
Sbjct: 407 ELDRLQEELQ 416

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

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

 Score = 48.2 bits (115), Expect = 9e-06
 Identities = 45/215 (20%), Positives = 91/215 (42%), Gaps = 8/215 (3%)

Query: 127 EKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK 186
           E     LEE ++ L+ +          L   +++L  Q +   +    LE  +  LQS  
Sbjct: 680 EAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRL 739

Query: 187 EFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLS 246
           E   ++   LE+++ +L++    L  +  SLEE L  L+ + +   +     +E +  L 
Sbjct: 740 EELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELE 799

Query: 247 VDITQLRMQVVELEESRNNLL-------QENRQLKENVSSLRSQLSSDESKKHATSEQKD 299
            ++ +   ++  LE    +L        QE  +L+E +  L  +L   E +     ++ +
Sbjct: 800 EELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELE 859

Query: 300 -FSTQIEAAGALIDKLITENIELVEKVNDLSVKLD 333
               ++E   A  ++L  E  EL E+  +L  +L 
Sbjct: 860 ELKEELEELEAEKEELEDELKELEEEKEELEEELR 894

Length = 1163

>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584)

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 48/281 (17%), Positives = 95/281 (33%), Gaps = 37/281 (13%)

Query: 52  DIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERES-------H 104
           D+Q + V  D   +       L +AE             EE +     E E         
Sbjct: 589 DLQRLDVP-DYAANETELRERLQQAEEALQSAVAKQKQAEEQLVQANAELEEQKRAEAEA 647

Query: 105 IQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQ-NDLRMQKEATLEETIKQLRN 163
                     +Q+LQNE    K+K++  + E  QQ + Q   L  Q +  LE+    L  
Sbjct: 648 RTALKQARLDLQRLQNEQQSLKDKLELAIAERKQQAETQLRQLDAQLKQLLEQQQAFLEA 707

Query: 164 -QNDLHIQR----------EGGLEMNIANLQSEKEFWLQKEAALEQKISQLR-------- 204
            ++D    R          EG L+  +A L +  E         + ++ +L+        
Sbjct: 708 LKDDFRELRTERLAKWQVVEGELDNQLAQLSAAIE---AARTQAKARLKELKKQYDRELA 764

Query: 205 ------DESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVE 258
                 +    L  +   LE  ++ +   +    +  +  +ET         +     ++
Sbjct: 765 SLDVDPNTVKELKRQIEELETTIERIAVRRPEVREYRAFMQETWLHRDSLREERPNLAIQ 824

Query: 259 LEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKD 299
           L E  ++  +  ++L   +   + +    E ++ A  +Q D
Sbjct: 825 LRELESSAEELQQELTRLIKDTKLRRKKLEQERKALEKQLD 865

This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 943 to 1234 amino acids in length. This family contains a P-loop motif suggesting it is a nucleotide binding protein. It may be involved in replication. Length = 1198

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

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 52/276 (18%), Positives = 116/276 (42%), Gaps = 30/276 (10%)

Query: 84  REAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKV------QATLEETI 137
            + ++     +  +  E E   Q+E  L+  +++L+ +    ++++         LE  I
Sbjct: 708 SQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARI 767

Query: 138 QQLQRQ--------NDL-RMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF 188
           ++L+          NDL      + + E   +L    +   + E  L      L      
Sbjct: 768 EELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRL--- 824

Query: 189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVD 248
              ++  LE++I +L+++   L  +  S+E+ ++ L   K+    +E   +E    L   
Sbjct: 825 -TLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEE---LEEELEE----LEAA 876

Query: 249 ITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAG 308
           +  L  ++ +L++ R+ L  + R+L+  +  L +Q+   E K+   SE K     +E   
Sbjct: 877 LRDLESRLGDLKKERDELEAQLRELERKIEELEAQI---EKKRKRLSELKAKLEALEEEL 933

Query: 309 ALIDKLITENIELVEKVNDL-SVKLDRQSVAAGLSS 343
           + I+    E+ E+ E+   L  V+ + Q V   + +
Sbjct: 934 SEIEDPKGEDEEIPEEELSLEDVQAELQRVEEEIRA 969

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

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 44.0 bits (104), Expect = 2e-04
 Identities = 56/266 (21%), Positives = 115/266 (43%), Gaps = 9/266 (3%)

Query: 36  INGQKDDVRSQASEPADIQNVQVDADRHQSNGAESANLAEAERQHLLQREAMAI--LEET 93
              + +++  Q SE   +++++   +  +    E   L E + +   +     I  LEE 
Sbjct: 183 AKAKIEELEGQLSE--LLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEER 240

Query: 94  VKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEAT 153
           +  L  E+E   + +A L            + +E++   LE  +++L+ + +   + E  
Sbjct: 241 LAELEEEKERLEELKARLLEIESLELEALKIREEEL-RELERLLEELEEKIERLEELERE 299

Query: 154 LEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMK 213
           +EE  ++L     L  + E  LE  + +L+   E   +K   LE ++ +L +E    N  
Sbjct: 300 IEELEEELEGLRALLEELEELLE-KLKSLEERLEKLEEKLEKLESELEELAEE---KNEL 355

Query: 214 RASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQL 273
              LEERLK LE   +   +    + E +  L   I +L+ ++ EL  +   + +E  +L
Sbjct: 356 AKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEEL 415

Query: 274 KENVSSLRSQLSSDESKKHATSEQKD 299
           ++ +  L  +L   E +     EQ +
Sbjct: 416 EKELEELERELEELEEEIKKLEEQIN 441

Length = 908

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

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 63/303 (20%), Positives = 135/303 (44%), Gaps = 26/303 (8%)

Query: 102 ESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQL 161
           E   ++   L+  +++ + E     E++ A L+E  ++L+       + E  +EE  K+L
Sbjct: 235 EELREELEELQEELKEAEEEL----EELTAELQELEEKLEELRLEVSELEEEIEELQKEL 290

Query: 162 RNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERL 221
               +  I R   LE     L+       ++   LE ++ +L  +   L  + A LEE+L
Sbjct: 291 YALANE-ISR---LEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKL 346

Query: 222 KLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLR 281
           + L+ + +S        +  +        +L  ++ ELEE    L  +  QL+  ++SL 
Sbjct: 347 EELKEELESLEAELEELEAELE-------ELESRLEELEEQLETLRSKVAQLELQIASLN 399

Query: 282 SQLSSDESKKHATSEQKD-FSTQIEAAG-----ALIDKLITENIELVEKVNDLSVKLDRQ 335
           +++   E++     ++++    +IE        A + +L  E  EL E++ +L  +L+R 
Sbjct: 400 NEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERL 459

Query: 336 SVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLNNRLE-----TQGVVAVKEDRNGIN 390
             A         +A  AL +    +++    + SL    E     ++GV A+ ++++G++
Sbjct: 460 EEALEELREELEEAEQALDAAERELAQLQARLDSLERLQENLEGFSEGVKALLKNQSGLS 519

Query: 391 GVH 393
           G+ 
Sbjct: 520 GIL 522

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

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

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 37/222 (16%), Positives = 87/222 (39%), Gaps = 6/222 (2%)

Query: 70  SANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKV 129
            A +A  ER    +   +   EE +  L  E +  + +   LE  +++ +   D   E+ 
Sbjct: 300 EAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEY 359

Query: 130 QA------TLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ 183
                    L   ++++ ++      +     E +++L+ + +   +    L+  +  L 
Sbjct: 360 AELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLS 419

Query: 184 SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIA 243
            E        A +E KI++L +E     ++    E +L+ L AD   + Q     KE   
Sbjct: 420 EELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYD 479

Query: 244 GLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS 285
            +  ++++L+ ++ E E       +  R  +     L++ + 
Sbjct: 480 RVEKELSKLQRELAEAEAQARASEERVRGGRAVEEVLKASIQ 521

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

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

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 36/177 (20%), Positives = 83/177 (46%), Gaps = 5/177 (2%)

Query: 68  AESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQ----LQNECD 123
           A    L E E       + +A LEE  + L  +  + +++   L   +++    L+ E  
Sbjct: 334 ALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELA 393

Query: 124 LYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ 183
             + +++  L+  I+ L+ + +   ++   L+E +K+L  + +        L   +  L+
Sbjct: 394 EIRNELE-ELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELE 452

Query: 184 SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKE 240
            + E    +   LE+++++L++E   L  + +SLE RL  LEA++ +   + +V + 
Sbjct: 453 EQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRASQGVRAVLEA 509

Length = 1163

>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD

 Score = 42.4 bits (100), Expect = 4e-04
 Identities = 62/305 (20%), Positives = 120/305 (39%), Gaps = 27/305 (8%)

Query: 39  QKDDVRSQASEPADIQNVQVDADRHQSNG----AESANLAEAERQHLLQREAMAILEETV 94
           Q +     A E A ++N   +A R   +              ER+ L ++     +E   
Sbjct: 221 QSEKYEDLAQEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKE--IEAAR 278

Query: 95  KHLRNERESHIQKEATL-------EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLR 147
           K  R +          L       + T  QLQ E +  + + Q T EE  ++ +   +  
Sbjct: 279 KANRAQLRELAADPLPLLLIPNLLDSTKAQLQKE-EQSQ-QNQLTQEELEERDKELLE-S 335

Query: 148 MQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDES 207
           + K A   E +K++  +    I +    +  I +  S  E   Q E  ++Q   +L+D  
Sbjct: 336 LPKLALPAEHVKEIAAEL-AEIDKPATTDSEIPHRLSGSEL-TQLEVLIQQVKRELQDAK 393

Query: 208 AALNMKRASLEERLKLLEADKDSWTQMESV-SKETIAGLSVDITQLRMQVVELEESRNNL 266
           + L  +   LEE L  ++       ++ ++ S+E IA L  ++ + + ++   E     L
Sbjct: 394 SQLLKELRELEEELAEVD------KKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEEL 447

Query: 267 LQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVN 326
           L++   LKE + +LR  L     +K    E +   T  + A   + +   + +E   K+ 
Sbjct: 448 LRQLETLKEAIEALRKTLDEKTKQKINAFELERAITIADKAKKTLKEFREKLLE--RKLQ 505

Query: 327 DLSVK 331
            L  +
Sbjct: 506 QLEEE 510

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria [DNA metabolism, Restriction/modification]. Length = 650

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

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 43/208 (20%), Positives = 88/208 (42%), Gaps = 2/208 (0%)

Query: 125 YKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQS 184
              ++Q  L E ++ L+R+      +   +E  + +L  +     ++ G +E  I  L+ 
Sbjct: 672 EPAELQ-RLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQ 730

Query: 185 EKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAG 244
           E+E   ++   LE+ +S L  E   +  +   LE R++ LE D     +  +  +  ++ 
Sbjct: 731 EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 245 LSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQI 304
             +   Q  +  +E E SR        + K N  +L  +    E  +    ++ D   QI
Sbjct: 791 SRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKE-IQELQEQRIDLKEQI 849

Query: 305 EAAGALIDKLITENIELVEKVNDLSVKL 332
           ++    I+ L  +  EL E++ +L   L
Sbjct: 850 KSIEKEIENLNGKKEELEEELEELEAAL 877

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

>gnl|CDD|215915 pfam00429, TLV_coat, ENV polyprotein (coat polyprotein)

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 28/117 (23%), Positives = 46/117 (39%), Gaps = 24/117 (20%)

Query: 116 QQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGL 175
             LQ+        +QA LE +I  L+           +L E + Q R   DL    +GGL
Sbjct: 426 TSLQHALI---SDIQA-LESSINDLEDSLT-------SLAEVVLQNRRGLDLLFLEQGGL 474

Query: 176 EMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWT 232
               A LQ E  F+      +   I++L++           L +R +LL  ++  + 
Sbjct: 475 ---CAALQEECCFYADHSGIVRDSIAKLQER----------LPQRQRLLTDNQLWFE 518

Length = 560

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

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 42/185 (22%), Positives = 82/185 (44%), Gaps = 17/185 (9%)

Query: 106 QKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQN 165
           ++   LE  ++ L+ E +  +E+++    E + + + + +   ++   LEE I + R   
Sbjct: 475 ERVEELEAELEDLEEEVEEVEERLERA--EDLVEAEDRIERLEERREDLEELIAERRETI 532

Query: 166 DLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLE 225
           +   +R   L    A L++E E   +  A  E++  + R+E A LN K A L+ER++ L 
Sbjct: 533 EEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESL- 591

Query: 226 ADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS 285
                         E I  L   I     ++  L E R  L + N + +E ++  R +  
Sbjct: 592 --------------ERIRTLLAAIADAEDEIERLREKREALAELNDERRERLAEKRERKR 637

Query: 286 SDESK 290
             E++
Sbjct: 638 ELEAE 642

Length = 880

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

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 24/101 (23%), Positives = 47/101 (46%), Gaps = 4/101 (3%)

Query: 130 QATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFW 189
             +  E + +LQ++     ++ A L+E + +L+ +N    Q    LE  +  LQ E    
Sbjct: 61  TPSARERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKE---- 116

Query: 190 LQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDS 230
           L +   L     +L +E+  L  + A L++  + LEA+ + 
Sbjct: 117 LARIKQLSANAIELDEENRELREELAELKQENEALEAENER 157

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|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 39.9 bits (94), Expect = 0.002
 Identities = 33/144 (22%), Positives = 68/144 (47%), Gaps = 16/144 (11%)

Query: 83  QREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQR 142
           +  A  I+EE  K         ++KEA LE      + E    + +++  L+E   +LQR
Sbjct: 31  EELAKRIIEEAKKEAET-----LKKEALLEA-----KEEVHKLRAELERELKERRNELQR 80

Query: 143 QNDLRMQKEATLEETIKQLRNQNDLHIQREGGL---EMNIANLQSEKEFWLQKEAALEQK 199
                +Q+E TL+  ++ L  + +   ++E  L   E N+   + E E  + ++    ++
Sbjct: 81  LERRLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQREELER 140

Query: 200 ISQL-RDESAALNMKRASLEERLK 222
           IS L ++E+  + ++   +EE  +
Sbjct: 141 ISGLTQEEAKEILLE--EVEEEAR 162

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 48/308 (15%), Positives = 117/308 (37%), Gaps = 25/308 (8%)

Query: 51  ADIQNVQVDADRHQSNGAESANLAEAERQHLLQ--REAMAILEETVKHLRNERESHIQKE 108
            ++  ++++    + +  +       E + L +  RE    L E ++     +E   +K 
Sbjct: 476 LELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKL 535

Query: 109 ATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEET---IKQLRNQN 165
             LE  +++L+   +  + +        ++   ++    +++   L      +++LR + 
Sbjct: 536 EKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERL 595

Query: 166 DLHIQREGGLEMNIANLQSEKEF--WLQKEAALEQKISQLRDESAALNM----------- 212
               ++   LE  ++ L+   +     + E  LE+   +L  E   LN+           
Sbjct: 596 KELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAA 655

Query: 213 ------KRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNL 266
                 K   LE  ++      ++  Q+E   +E +  L  ++ QLR ++ EL +    +
Sbjct: 656 LEELEEKVEELEAEIRRELQRIENEEQLEEKLEE-LEQLEEELEQLREELEELLKKLGEI 714

Query: 267 LQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVN 326
            Q   +L+   + L       E  + A    ++   ++  AG   D L     ++  + N
Sbjct: 715 EQLIEELESRKAELEELKKELEKLEKALELLEELREKLGKAGLRADILRNLLAQIEAEAN 774

Query: 327 DLSVKLDR 334
           ++  KL  
Sbjct: 775 EILSKLSL 782

Length = 908

>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain (CALCOCO1) like

 Score = 39.2 bits (91), Expect = 0.004
 Identities = 42/206 (20%), Positives = 87/206 (42%), Gaps = 27/206 (13%)

Query: 133 LEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQK 192
           +   I+QL+       +K   LEE  K+ ++ ++         E N    Q         
Sbjct: 169 MRSRIEQLETALRHSTEKTEELEEQHKEAQSSSESMSA-----ERNALLAQ--------- 214

Query: 193 EAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQL 252
            A  +Q+I +L  +   L  K+   +  L+  +  +    +M+   K+ +  +++     
Sbjct: 215 RAENQQRILELEQDIQTLTQKKQENDRVLEGTQDIEAELERMKGELKQRLKKMTI----- 269

Query: 253 RMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALID 312
             Q  + E  R +L  EN QL E++ +L+ +L S + K     E      ++ + G+L D
Sbjct: 270 --QRRDEETERIDLQLENEQLHEDLRTLQERLESSQQKAGLLGE------ELASLGSLRD 321

Query: 313 KLITENIELVEKVNDLSVKLDRQSVA 338
             I E  +   +   +S++L + ++A
Sbjct: 322 HTIAELHQSRLESAQMSLQLSQLNLA 347

Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein coexpressed by Mus musculus (CoCoA/CALCOCO1). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1, and thus enhances transcriptional activation by a number of nuclear receptors. CALCOCO1 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. Length = 546

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	474
KOG0964	1200	consensus Structural maintenance of chromosome pro	99.86
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.72
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.71
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.57
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.54
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.5
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.47
PF00038	312	Filament: Intermediate filament protein; InterPro:	98.36
PF00038	312	Filament: Intermediate filament protein; InterPro:	98.14
PRK02224	880	chromosome segregation protein; Provisional	98.11
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.07
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	98.06
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	98.0
PRK11637	428	AmiB activator; Provisional	97.92
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.89
PHA02562	562	46 endonuclease subunit; Provisional	97.88
PRK02224	880	chromosome segregation protein; Provisional	97.85
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.85
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	97.83
PRK11637	428	AmiB activator; Provisional	97.79
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.78
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	97.76
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.73
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.73
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.71
PHA02562	562	46 endonuclease subunit; Provisional	97.7
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	97.6
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	97.57
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.57
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.56
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.49
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.47
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.46
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	97.46
PRK03918	880	chromosome segregation protein; Provisional	97.44
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.35
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.35
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.34
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	97.34
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.29
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.27
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.21
PRK09039	343	hypothetical protein; Validated	97.2
PRK03918	880	chromosome segregation protein; Provisional	97.18
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.17
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.17
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	97.14
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	97.13
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	97.05
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.04
PRK01156	895	chromosome segregation protein; Provisional	97.04
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.03
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.97
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	96.94
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.88
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.87
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	96.87
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.85
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.84
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.83
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.78
PRK09039	343	hypothetical protein; Validated	96.77
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	96.74
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.74
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	96.72
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.72
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.66
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.6
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.55
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	96.54
PRK04863	1486	mukB cell division protein MukB; Provisional	96.49
PRK04778	569	septation ring formation regulator EzrA; Provision	96.46
PF14662	193	CCDC155: Coiled-coil region of CCDC155	96.44
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	96.4
PRK04863	1486	mukB cell division protein MukB; Provisional	96.39
PRK04778	569	septation ring formation regulator EzrA; Provision	96.33
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.33
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.33
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.25
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	96.24
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.21
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	96.2
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	96.16
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	96.11
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.11
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.02
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.01
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.92
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	95.89
COG4372	499	Uncharacterized protein conserved in bacteria with	95.87
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	95.86
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.81
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.77
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	95.76
KOG0963	629	consensus Transcription factor/CCAAT displacement	95.72
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.69
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.59
KOG0933	1174	consensus Structural maintenance of chromosome pro	95.58
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	95.57
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.54
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.47
PRK01156	895	chromosome segregation protein; Provisional	95.45
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	95.4
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.39
COG4942	420	Membrane-bound metallopeptidase [Cell division and	95.37
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.31
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.29
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	95.27
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	95.25
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.24
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.16
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.16
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	95.13
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	95.13
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.88
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	94.86
COG4942	420	Membrane-bound metallopeptidase [Cell division and	94.78
KOG0979	1072	consensus Structural maintenance of chromosome pro	94.74
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	94.7
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	94.69
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	94.58
PF10226	195	DUF2216: Uncharacterized conserved proteins (DUF22	94.54
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	94.48
PRK15422	79	septal ring assembly protein ZapB; Provisional	94.44
COG4372	499	Uncharacterized protein conserved in bacteria with	94.35
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	94.35
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	94.21
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	93.77
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	93.63
PF15294	278	Leu_zip: Leucine zipper	93.37
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	93.35
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	93.29
KOG0979	1072	consensus Structural maintenance of chromosome pro	93.28
PRK10929	1109	putative mechanosensitive channel protein; Provisi	93.25
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	93.2
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	93.13
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	93.06
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	93.04
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	92.99
KOG1103	561	consensus Predicted coiled-coil protein [Function	92.92
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	92.75
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	92.71
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	92.64
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.48
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.4
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	92.37
KOG0249	916	consensus LAR-interacting protein and related prot	92.37
COG5185	622	HEC1 Protein involved in chromosome segregation, i	92.29
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	92.26
KOG0018	1141	consensus Structural maintenance of chromosome pro	91.96
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	91.93
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	91.8
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	91.73
PRK11281	1113	hypothetical protein; Provisional	91.62
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	91.5
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	91.38
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	91.35
COG4717	984	Uncharacterized conserved protein [Function unknow	91.35
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	91.24
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	91.02
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	90.98
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	90.91
KOG0963	629	consensus Transcription factor/CCAAT displacement	90.73
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	90.67
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	90.67
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	90.63
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	90.57
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	90.53
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	90.28
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	90.14
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	90.03
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	89.98
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	89.95
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	89.88
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	89.59
PRK10929	1109	putative mechanosensitive channel protein; Provisi	89.52
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	89.47
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.43
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	89.18
KOG1003	205	consensus Actin filament-coating protein tropomyos	88.91
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	88.81
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	88.54
PRK10361	475	DNA recombination protein RmuC; Provisional	88.5
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	88.36
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	88.29
PRK10698	222	phage shock protein PspA; Provisional	88.23
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	88.05
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	87.51
PLN03188	1320	kinesin-12 family protein; Provisional	87.44
COG5185	622	HEC1 Protein involved in chromosome segregation, i	87.42
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	87.11
PF02090	147	SPAM: Salmonella surface presentation of antigen g	86.82
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	86.62
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	86.5
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	86.38
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	86.32
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	86.18
KOG4302	660	consensus Microtubule-associated protein essential	86.16
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	85.98
PF09403	126	FadA: Adhesion protein FadA; InterPro: IPR018543 F	85.81
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	85.54
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	85.36
PRK10698	222	phage shock protein PspA; Provisional	85.32
PRK15422	79	septal ring assembly protein ZapB; Provisional	85.27
PLN02939	977	transferase, transferring glycosyl groups	85.03
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	85.02
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	84.92
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	84.89
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	84.63
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	84.52
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	84.5
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	84.46
KOG0249	916	consensus LAR-interacting protein and related prot	84.4
PRK10884	206	SH3 domain-containing protein; Provisional	84.23
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	83.0
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	82.11
PRK03947	140	prefoldin subunit alpha; Reviewed	82.08
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	81.54
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	81.38
PF10186	302	Atg14: UV radiation resistance protein and autopha	81.29
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	81.28
KOG2991	330	consensus Splicing regulator [RNA processing and m	81.07
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	81.0
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	80.8
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	80.55
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	80.48
KOG3091	508	consensus Nuclear pore complex, p54 component (sc	80.39
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	80.37
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	80.25

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

Probab=99.86  E-value=9.2e-20  Score=201.36  Aligned_cols=310  Identities=19%  Similarity=0.260  Sum_probs=242.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH--
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF--  188 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~--  188 (474)
                      -++.+.+|..++.++..+|..+..++ .|++.+.+..+++.+.+|++|++|++.+....|.+......+..|.++|..  
T Consensus       263 ~~d~~~~~~~~i~ele~~l~~l~~ek-eq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~~ki~e~~  341 (1200)
T KOG0964|consen  263 VEDESEDLKCEIKELENKLTNLREEK-EQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVKDKIEEKK  341 (1200)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            34578899999999999999999999 999999999999999999999999999999999999988888888888876  


Q ss_pred             ------------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh--Hhhhhhhhhhhh-chHHHHhhhHHHHHHHH
Q 011943          189 ------------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLL--EADKDSWTQMES-VSKETIAGLSVDITQLR  253 (474)
Q Consensus       189 ------------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF--KaERDsWLkkEI-sLke~Issl~~~~~sLq  253 (474)
                                  +..+|..+..+|..|+++...|++|||    |.+||  +.|||.|+++|| .++.-|.........|+
T Consensus       342 ~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqg----r~sqFssk~eRDkwir~ei~~l~~~i~~~ke~e~~lq  417 (1200)
T KOG0964|consen  342 DELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQG----RYSQFSSKEERDKWIRSEIEKLKRGINDTKEQENILQ  417 (1200)
T ss_pred             HHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhc----cccccCcHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence                        889999999999999999999999999    99999  999999999999 99999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh-
Q 011943          254 MQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKL-  332 (474)
Q Consensus       254 ~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l-  332 (474)
                      .++..++..+....++++.|...|.+...++.++      ..++..++..++++.+.|+.||||+..|.-..--+---| 
T Consensus       418 ~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~------~~~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~  491 (1200)
T KOG0964|consen  418 KEIEDLESELKEKLEEIKELESSINETKGRMEEF------DAENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLS  491 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999      889999999999999999999999998887555444333 


Q ss_pred             ---hhhhhhhcccccccCcccccc------ccCCCCCCCCCCCccccccccccccccccccCCCCc---cCCCCCCCccc
Q 011943          333 ---DRQSVAAGLSSAIGSDAVTAL------TSDTEPMSESSDNMSSLNNRLETQGVVAVKEDRNGI---NGVHADPPPLV  400 (474)
Q Consensus       333 ---~~~~~~~~~ss~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~---~~~~~~~~~~~  400 (474)
                         +...++-+-+-++|-++...|      .+++.|+.+--   .+.+.---..++    .-+|+.   |--+++.+..+
T Consensus       492 ~~~~~L~~~~~r~v~nGi~~v~~I~e~~k~ngv~G~v~eL~---~v~~~f~tavEv----taGNsLF~iVVdndevATkI  564 (1200)
T KOG0964|consen  492 RAEKNLRATMNRSVANGIDSVRKIKEELKPNGVFGTVYELI---KVPNKFKTAVEV----TAGNSLFNIVVDNDEVATKI  564 (1200)
T ss_pred             HHHHHHHHhccchhhhhhHHHHHHHHHhcccccceehhhhh---cCCHHHHhHHhh----hcccceEEEEecccHHHHHH
Confidence               223333444444555554444      23333333211   000000011111    122322   22233333322


Q ss_pred             -cCCcccccCCceeeccCCccccchhhhhccccccccccCccCCCC
Q 011943          401 -LSSSEAEYSGEIVQIPLDDKEVQDLELQVVESYTDKVAAVPLTDA  445 (474)
Q Consensus       401 -~~~~~~~~~~eiv~~~ld~~~~~~~~~q~~~~~~d~~~~vp~~da  445 (474)
                       .-|-.-. .|+|--+||+-.-.++++      |.+.+++.|+++-
T Consensus       565 l~~~n~m~-~GrVTF~PLNrl~~r~v~------yp~~sdaiPli~k  603 (1200)
T KOG0964|consen  565 LRKLNKMK-GGRVTFMPLNRLKARDVE------YPKDSDAIPLISK  603 (1200)
T ss_pred             HHHHHhcc-CCeeEEeecccCchhhcc------CCCCCCccchHHH
Confidence             2344443 489999999988776544      3355777888764

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.72  E-value=2.8e-05  Score=88.44  Aligned_cols=35  Identities=23%  Similarity=0.188  Sum_probs=17.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          294 TSEQKDFSTQIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       294 ~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      ..++..++.+++.+......++.+-..+..+.+.+
T Consensus       447 ~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~l  481 (1164)
T TIGR02169       447 ALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRV  481 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555544444444433

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

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

Probab=98.71  E-value=6.8e-06  Score=95.95  Aligned_cols=177  Identities=22%  Similarity=0.266  Sum_probs=108.5

Q ss_pred             HHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH-------
Q 011943          150 KEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLK-------  222 (474)
Q Consensus       150 keA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERis-------  222 (474)
                      ..+.++.+|..++........+...+.+++..++..+....+........+..+......+......++.+..       
T Consensus       296 ~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~e~~~~~~~~~~~~~  375 (1163)
T COG1196         296 EIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELE  375 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            5566666666666666666666666666666666666664444444322233333333333333333333333       


Q ss_pred             -Hh--Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhh
Q 011943          223 -LL--EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQK  298 (474)
Q Consensus       223 -QF--KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~  298 (474)
                       .|  ..++-.|+..++ .+...+..++.++.++......+...+..+..++..+..++..+..++..+      ..++.
T Consensus       376 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~  449 (1163)
T COG1196         376 ELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEEL------NEELE  449 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH------HHHHH
Confidence             22  233444555555 666666666666666666666666666666666677766666666666666      77888


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh
Q 011943          299 DFSTQIEAAGALIDKLITENIELVEKVNDLSVKL  332 (474)
Q Consensus       299 dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l  332 (474)
                      .|..+++.+.+.+..+|++-..+.++.-.+.-.+
T Consensus       450 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  483 (1163)
T COG1196         450 ELEEQLEELRDRLKELERELAELQEELQRLEKEL  483 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999777776555554433

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

Probab=98.57  E-value=0.00025  Score=83.25  Aligned_cols=117  Identities=26%  Similarity=0.355  Sum_probs=74.0

Q ss_pred             hHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhhhhhhh
Q 011943          216 SLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNN-------LLQENRQLKENVSSLRSQLSSDE  288 (474)
Q Consensus       216 ~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~s-------L~eEiq~LkeqIseL~~~iqtle  288 (474)
                      .++.++..+..++..|...-..+...+..+...+..+..++..+...+..       +..+...++..+..+...+..+ 
T Consensus       804 ~~~~~~~~~~~~~~~~~~~~~~~~~ei~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~l~~~-  882 (1163)
T COG1196         804 EAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKEL-  882 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            33446666677777776554455555555555555444444444444444       4444444444444444444444 


Q ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhhhhhhh
Q 011943          289 SKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVA  338 (474)
Q Consensus       289 ~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l~~~~~~  338 (474)
                           ..+..++..++..+.+.+..+-.+...+.++.+.|+.++......
T Consensus       883 -----~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  927 (1163)
T COG1196         883 -----EEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVE  927 (1163)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 778888888899999999999988888888888887666555433

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.54  E-value=0.00023  Score=80.68  Aligned_cols=13  Identities=31%  Similarity=0.618  Sum_probs=8.7

Q ss_pred             CCceeeccCCccc
Q 011943          409 SGEIVQIPLDDKE  421 (474)
Q Consensus       409 ~~eiv~~~ld~~~  421 (474)
                      .|-+.++|||...
T Consensus       570 ~g~~~~l~l~~i~  582 (1179)
T TIGR02168       570 LGRVTFLPLDSIK  582 (1179)
T ss_pred             CCcEEEeeccccc
Confidence            5666678877654

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.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.50  E-value=0.00045  Score=78.82  Aligned_cols=53  Identities=21%  Similarity=0.156  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHH
Q 011943          139 QLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQ  191 (474)
Q Consensus       139 QLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llq  191 (474)
                      .++.+...+-.....++..+..++.......+....+..++..++.++..+..
T Consensus       291 ~l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~  343 (1164)
T TIGR02169       291 RVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELER  343 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555555555555555555555555555555555555555555544444333

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.

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

Probab=98.47  E-value=0.0026  Score=69.67  Aligned_cols=97  Identities=18%  Similarity=0.218  Sum_probs=59.9

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      .|...+...+..+..|..++..+++.+..--.+.+.|..++......-. + .......++.+|++.+--++.+++.|-+
T Consensus       361 ~l~~~~e~~k~~ie~L~~el~~~e~~lqEer~E~qkL~~ql~ke~D~n~-v-qlsE~~rel~Elks~lrv~qkEKEql~~  438 (546)
T PF07888_consen  361 ALQHSAEADKDEIEKLSRELQMLEEHLQEERMERQKLEKQLGKEKDCNR-V-QLSENRRELQELKSSLRVAQKEKEQLQE  438 (546)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH-H-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444455555555555555555555555555555542221111 0 0111256777899999999999999999


Q ss_pred             HHHHHHhhhhhhhHhhhhh
Q 011943          317 ENIELVEKVNDLSVKLDRQ  335 (474)
Q Consensus       317 EnakL~ekvneL~~~l~~~  335 (474)
                      |...|++-+-.|--.|+.-
T Consensus       439 EkQeL~~yi~~Le~r~~~~  457 (546)
T PF07888_consen  439 EKQELLEYIERLEQRLDKV  457 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            9999999888887777654

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 [].

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

Probab=98.36  E-value=0.002  Score=64.30  Aligned_cols=180  Identities=22%  Similarity=0.271  Sum_probs=123.8

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHhhH------HHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHH
Q 011943          108 EATLEGTVQQLQNECDLYKEKVQATLE------ETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIAN  181 (474)
Q Consensus       108 e~~~Ee~IkqLqeEi~~lkqkLE~lle------EkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~Ikq  181 (474)
                      ..+++..|..|+..|+.+......+..      ..+..++..+....+....++..|..|+...+........++.+|..
T Consensus        49 ~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~  128 (312)
T PF00038_consen   49 KEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQS  128 (312)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHH
Confidence            556788888888888777665322222      22345555555567778889999999999999999999999999999


Q ss_pred             HHHHHHHH----HHHHHHHHHHHH-HHHHHHH---------HHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhH
Q 011943          182 LQSEKEFW----LQKEAALEQKIS-QLRDESA---------ALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLS  246 (474)
Q Consensus       182 Lq~EI~~l----lqKEa~LeeeL~-~L~~e~~---------~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~  246 (474)
                      |+.++..+    .++-..+..++. ....+.+         +|.-=..-.+..+.+++.+=+.|.+..+ .+........
T Consensus       129 L~eEl~fl~~~heeEi~~L~~~~~~~~~~e~~~~~~~dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~  208 (312)
T PF00038_consen  129 LKEELEFLKQNHEEEIEELREQIQSSVTVEVDQFRSSDLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSS  208 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSTT----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhhhhccccccceeecccccccchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccc
Confidence            99999983    233333333331 1111111         1111122234455666788899999999 8888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          247 VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       247 ~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .....+..++..+...+..+..++..|+.....|..++..+
T Consensus       209 ~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~l  249 (312)
T PF00038_consen  209 EELESAKEELKELRRQIQSLQAELESLRAKNASLERQLREL  249 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHH
Confidence            88888888888888888888888888888887777777755

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 ....

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

Probab=98.14  E-value=0.0047  Score=61.71  Aligned_cols=98  Identities=22%  Similarity=0.347  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhH------HHHHHHHHHHHHHHHHHHhHHHHHH
Q 011943           86 AMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLE------ETIQQLQRQNDLRMQKEATLEETIK  159 (474)
Q Consensus        86 ~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lle------EkikQLe~E~~~~lQkeA~lE~kIk  159 (474)
                      .+.+++.+|+.|+...|.....-+-++-.+..|..++..++.+++....      ..|..|..+.+........++..|.
T Consensus        48 ~~~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~  127 (312)
T PF00038_consen   48 IKEMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQ  127 (312)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHH
Confidence            4778999999999999998888899999999999999999887776543      4455566777777778888888888


Q ss_pred             HHHhhhhHHHHhhhhHHHHHHHHHHHH
Q 011943          160 QLRNQNDLHIQREGGLEMNIANLQSEK  186 (474)
Q Consensus       160 dLq~~~~s~~QkEa~LEe~IkqLq~EI  186 (474)
                      .|+.+.....+   .++++|..|+..+
T Consensus       128 ~L~eEl~fl~~---~heeEi~~L~~~~  151 (312)
T PF00038_consen  128 SLKEELEFLKQ---NHEEEIEELREQI  151 (312)
T ss_dssp             HHHHHHHHHHH---HHHHHHHTTSTT-
T ss_pred             HHHHHHHHHHh---hhhhhhhhhhhcc
Confidence            88887654322   2444555555444

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 ....

>PRK02224 chromosome segregation protein; Provisional

Probab=98.11  E-value=0.0032  Score=71.17  Aligned_cols=86  Identities=17%  Similarity=0.211  Sum_probs=45.6

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      .+...+..++.....+..++..++..+..+..++..+...+..+..++...      ..++.++...++.+......++.
T Consensus       353 ~le~~~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~l~~el~el~~~l~~~------~~~~~~~e~~l~~l~~~~~~l~~  426 (880)
T PRK02224        353 DLEERAEELREEAAELESELEEAREAVEDRREEIEELEEEIEELRERFGDA------PVDLGNAEDFLEELREERDELRE  426 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------hhhhhhhHHHHHHHHHHHHHHHH
Confidence            444444444444444555555555555555555555555555555544433      23455666666666666666666


Q ss_pred             HHHHHHhhhhhh
Q 011943          317 ENIELVEKVNDL  328 (474)
Q Consensus       317 EnakL~ekvneL  328 (474)
                      +-..+...+..+
T Consensus       427 ~~~~~~~~~~~~  438 (880)
T PRK02224        427 REAELEATLRTA  438 (880)
T ss_pred             HHHHHHHHHHHH
Confidence            655555444433

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

Probab=98.07  E-value=0.0092  Score=65.51  Aligned_cols=167  Identities=21%  Similarity=0.285  Sum_probs=96.6

Q ss_pred             HHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhh
Q 011943           95 KHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGG  174 (474)
Q Consensus        95 ~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~  174 (474)
                      .....|+.-..+.-..|++.+.+|+.++..+...|.....+- .+|.............+..+...|       ....+.
T Consensus       146 E~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~-e~L~~~~kel~~~~e~l~~E~~~L-------~~q~~e  217 (546)
T PF07888_consen  146 EECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEM-EQLKQQQKELTESSEELKEERESL-------KEQLAE  217 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
Confidence            344455555666667777777888888888777775544444 666666665555544444444444       344455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH----HHhHh--hhhhhhhhhh-chHHHHhhhHH
Q 011943          175 LEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERL----KLLEA--DKDSWTQMES-VSKETIAGLSV  247 (474)
Q Consensus       175 LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERi----sQFKa--ERDsWLkkEI-sLke~Issl~~  247 (474)
                      +.++|.+|+.+|..+.++....+..+..+......+.+.++-|.+|+    .+++.  .+..-++.|+ .|++.+..++.
T Consensus       218 ~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~~eLk~rLk~~~~~~~~~~~~~~~~~~e~e~LkeqLr~~qe  297 (546)
T PF07888_consen  218 ARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLEAELKQRLKETVVQLKQEETQAQQLQQENEALKEQLRSAQE  297 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            55666666666666666665555555555444444444443333333    33311  1122345566 77777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 011943          248 DITQLRMQVVELEESRNNLLQE  269 (474)
Q Consensus       248 ~~~sLq~QV~~LEesl~sL~eE  269 (474)
                      .+.+.+.++.-|.+++..+..-
T Consensus       298 ~lqaSqq~~~~L~~EL~~~~~~  319 (546)
T PF07888_consen  298 QLQASQQEAELLRKELSDAVNV  319 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777776655443

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 [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=98.06  E-value=0.0091  Score=73.35  Aligned_cols=109  Identities=26%  Similarity=0.293  Sum_probs=54.8

Q ss_pred             HHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943           90 LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus        90 ~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      ++.-++.+..+.+-.-.+...++..-+.++.++..++..++..-... ..++.+....-.++-.+++.|..+++.+....
T Consensus       906 le~~l~~~~~~~e~~ee~~~~le~~~~~~~~e~~~l~~~~~~~E~~~-~k~~~Ek~~~e~~~~~l~~e~~~~~e~~~kL~  984 (1930)
T KOG0161|consen  906 LEKELKELKERLEEEEEKNAELERKKRKLEQEVQELKEQLEELELTL-QKLELEKNAAENKLKNLEEEINSLDENISKLS  984 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555544445555555555555555555555544422222 45555555555555555555555555555555


Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          170 QREGGLEMNIANLQSEKEFWLQKEAALEQK  199 (474)
Q Consensus       170 QkEa~LEe~IkqLq~EI~~llqKEa~Leee  199 (474)
                      .....+++.+.+|.+.+.....+-..+...
T Consensus       985 kekk~lEe~~~~l~~~l~~~eek~~~l~k~ 1014 (1930)
T KOG0161|consen  985 KEKKELEERIRELQDDLQAEEEKAKSLNKA 1014 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555533333333333

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

Probab=98.00  E-value=0.0048  Score=69.52  Aligned_cols=102  Identities=24%  Similarity=0.274  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011943           81 LLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQ  160 (474)
Q Consensus        81 ~~q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkd  160 (474)
                      .-..++..-||-.||+|+.|.-.-.|-|.=|.-.|..|...-..++..|..+..+- ++|+.....+.+..-.-...|..
T Consensus       414 ~~~~~a~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~en-e~Lq~Kl~~L~~aRq~DKq~l~~  492 (697)
T PF09726_consen  414 NSEPDAISRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQEN-EQLQNKLQNLVQARQQDKQSLQQ  492 (697)
T ss_pred             ccChHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666788899999999888878777777776655554444444444433333 44444444333333333333333


Q ss_pred             HHhhhhHHHHhhhhHHHHHHHHH
Q 011943          161 LRNQNDLHIQREGGLEMNIANLQ  183 (474)
Q Consensus       161 Lq~~~~s~~QkEa~LEe~IkqLq  183 (474)
                      |+.+......+++.+|.+|...+
T Consensus       493 LEkrL~eE~~~R~~lEkQL~eEr  515 (697)
T PF09726_consen  493 LEKRLAEERRQRASLEKQLQEER  515 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444555444433

; GO: 0016021 integral to membrane

>PRK11637 AmiB activator; Provisional

Probab=97.92  E-value=0.011  Score=62.35  Aligned_cols=83  Identities=19%  Similarity=0.168  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWL  190 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~ll  190 (474)
                      +++.+++++.+|..+..++        .+++.+.+...+.+..++..|..+........+.-..++.+|..++.+|..+.
T Consensus        45 ~~~~l~~l~~qi~~~~~~i--------~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q  116 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSV--------RQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLE  116 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555554444        33334444444444444444444444444444444444444555555554444


Q ss_pred             HHHHHHHHHHH
Q 011943          191 QKEAALEQKIS  201 (474)
Q Consensus       191 qKEa~LeeeL~  201 (474)
                      .+....+..|.
T Consensus       117 ~~l~~~~~~l~  127 (428)
T PRK11637        117 QQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHH
Confidence            44444433333

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.89  E-value=0.026  Score=69.52  Aligned_cols=192  Identities=20%  Similarity=0.196  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 011943          139 QLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLE  218 (474)
Q Consensus       139 QLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LE  218 (474)
                      ..+..+.........+|..++++.+.......+...++.+...++.++..+......++..+.+++.++..+-.+--.|+
T Consensus       891 ~aee~~~~~~~~k~~le~~l~~~~~~~e~~ee~~~~le~~~~~~~~e~~~l~~~~~~~E~~~~k~~~Ek~~~e~~~~~l~  970 (1930)
T KOG0161|consen  891 EAEELLERLRAEKQELEKELKELKERLEEEEEKNAELERKKRKLEQEVQELKEQLEELELTLQKLELEKNAAENKLKNLE  970 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555666667778888888888888888888888888888888877777777778888888888777777777777


Q ss_pred             HHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hhhhhhh
Q 011943          219 ERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES-KKHATSE  296 (474)
Q Consensus       219 ERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~-~~~~~~E  296 (474)
                      +++..+.. +.+=|.+|- .+.+.+..+..++.....++..|.+....++..++.+...+..-+.....+|- +..+..+
T Consensus       971 ~e~~~~~e-~~~kL~kekk~lEe~~~~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkle~e 1049 (1930)
T KOG0161|consen  971 EEINSLDE-NISKLSKEKKELEERIRELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKLEGE 1049 (1930)
T ss_pred             HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777432 222233333 44555555555555555555554444444444444444444433333333321 1222333


Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHh
Q 011943          297 QKDFSTQIEAAGALIDKLITENIELVEKVNDLSVK  331 (474)
Q Consensus       297 ~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~  331 (474)
                      ...++..+..+...+..|-..-.+.-.....|..+
T Consensus      1050 l~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k 1084 (1930)
T KOG0161|consen 1050 LKDLQESIEELKKQKEELDNQLKKKESELSQLQSK 1084 (1930)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444433333333333333

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.88  E-value=0.014  Score=62.48  Aligned_cols=26  Identities=19%  Similarity=0.351  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHhh
Q 011943          139 QLQRQNDLRMQKEATLEETIKQLRNQ  164 (474)
Q Consensus       139 QLe~E~~~~lQkeA~lE~kIkdLq~~  164 (474)
                      .++.+.+.+......++..+..|++.
T Consensus       217 ~l~~e~~~l~~~~~~l~~~l~~l~~~  242 (562)
T PHA02562        217 RKQNKYDELVEEAKTIKAEIEELTDE  242 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

>PRK02224 chromosome segregation protein; Provisional

Probab=97.85  E-value=0.021  Score=64.75  Aligned_cols=14  Identities=14%  Similarity=0.024  Sum_probs=9.5

Q ss_pred             ccCCCCCcCCC-chh
Q 011943          440 VPLTDAPLIGA-PFR  453 (474)
Q Consensus       440 vp~~dap~iga-pfr  453 (474)
                      +.|.|.|..|- |.|
T Consensus       814 ~~ilDEp~~~lD~~~  828 (880)
T PRK02224        814 PLILDEPTVFLDSGH  828 (880)
T ss_pred             ceEecCCcccCCHHH
Confidence            35778888776 454

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

Probab=97.85  E-value=0.015  Score=56.93  Aligned_cols=51  Identities=12%  Similarity=0.186  Sum_probs=28.8

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .|...|......+.+|.............+...|..|..++.+...+....
T Consensus       145 eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~a  195 (237)
T PF00261_consen  145 ELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFA  195 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555555555666666666555555544

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

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

Probab=97.83  E-value=0.01  Score=68.53  Aligned_cols=128  Identities=22%  Similarity=0.253  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhh-----------------HHHHHHHHHHHH
Q 011943          196 LEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGL-----------------SVDITQLRMQVV  257 (474)
Q Consensus       196 LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl-----------------~~~~~sLq~QV~  257 (474)
                      |..+...|+.+...+.+--+.||.+...++-|++.++. |+ +......+.                 ..+...|..+++
T Consensus       413 Ls~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~-e~~t~~~s~~rq~~e~e~~~q~ls~~~Q~~~et~el~~~ik  491 (1195)
T KOG4643|consen  413 LSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLE-ETSTVTRSLSRQSLENEELDQLLSLQDQLEAETEELLNQIK  491 (1195)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666666666677777777777776543 33 444443333                 233334555566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 011943          258 ELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSV  330 (474)
Q Consensus       258 ~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~  330 (474)
                      .|.++++.-..++..|...++.+..+++++      ......+..+.+.+....-.|=++|+.|-.++..||+
T Consensus       492 nlnk~L~~r~~elsrl~a~~~elkeQ~kt~------~~qye~~~~k~eeLe~~l~~lE~ENa~LlkqI~~Lk~  558 (1195)
T KOG4643|consen  492 NLNKSLNNRDLELSRLHALKNELKEQYKTC------DIQYELLSNKLEELEELLGNLEEENAHLLKQIQSLKT  558 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666655      4455555566666666666666666666666666665

>PRK11637 AmiB activator; Provisional

Probab=97.79  E-value=0.019  Score=60.62  Aligned_cols=14  Identities=0%  Similarity=0.107  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHHH
Q 011943          115 VQQLQNECDLYKEK  128 (474)
Q Consensus       115 IkqLqeEi~~lkqk  128 (474)
                      |++++.++..+..+
T Consensus        56 i~~~~~~i~~~~~~   69 (428)
T PRK11637         56 IAAKEKSVRQQQQQ   69 (428)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>TIGR00606 rad50 rad50

Probab=97.78  E-value=0.016  Score=69.17  Aligned_cols=96  Identities=16%  Similarity=0.149  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHH
Q 011943          114 TVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATL---EETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWL  190 (474)
Q Consensus       114 ~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~l---E~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~ll  190 (474)
                      ++.+|+.++..+..+++.+..+- ..+..+...+-+.+..+   ...+...+.......+....|+.+|..|..++..+.
T Consensus       823 s~~ele~ei~~~~~el~~l~~~~-e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~~r~~le~~L~el~~el~~l~  901 (1311)
T TIGR00606       823 TVQQVNQEKQEKQHELDTVVSKI-ELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQFEEQLVELSTEVQSLI  901 (1311)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555554432222 44455555555555555   222333333334455566677777777777777766


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 011943          191 QKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       191 qKEa~LeeeL~~L~~e~~~L  210 (474)
                      .....++.+|.-+..+...+
T Consensus       902 ~~~~~~~~~~~~~~~~~~~~  921 (1311)
T TIGR00606       902 REIKDAKEQDSPLETFLEKD  921 (1311)
T ss_pred             HHHHHHHHHhhhhhHHHHHH
Confidence            65555555555554444433

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

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

Probab=97.76  E-value=0.031  Score=62.45  Aligned_cols=166  Identities=26%  Similarity=0.373  Sum_probs=104.1

Q ss_pred             HHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943           90 LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus        90 ~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      +.|+|++|+-|.|-.          ..+|+.+...+.+++.- +.+.+..|..++...+..+-.+|-.|.+|++....-.
T Consensus         2 l~e~l~qlq~Erd~y----------a~~lk~e~a~~qqr~~q-mseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~   70 (617)
T PF15070_consen    2 LMESLKQLQAERDQY----------AQQLKEESAQWQQRMQQ-MSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPP   70 (617)
T ss_pred             hHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence            468899999998873          33455555555555443 3333377777778888888888888888886554322


Q ss_pred             ---------HhhhhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhhHHHHHHHh---Hhhhhhhhhh
Q 011943          170 ---------QREGGLEMNIANLQSEKEFWLQKEAALE---QKISQLRDESAALNMKRASLEERLKLL---EADKDSWTQM  234 (474)
Q Consensus       170 ---------QkEa~LEe~IkqLq~EI~~llqKEa~Le---eeL~~L~~e~~~L~qKQ~~LEERisQF---KaERDsWLkk  234 (474)
                               ..+..|..++.+|+.+++.|..+-...-   +.|..|..+.   ..+-..||+++..+   ..++..+|- 
T Consensus        71 ~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~Eq---EerL~ELE~~le~~~e~~~D~~kLLe-  146 (617)
T PF15070_consen   71 PPEPPAGPSEVEQQLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQ---EERLAELEEELERLQEQQEDRQKLLE-  146 (617)
T ss_pred             CccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence                     3334566777777777777654433332   2333332221   22223455566666   445555443 


Q ss_pred             hh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          235 ES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQEN  270 (474)
Q Consensus       235 EI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEi  270 (474)
                      .+ +=+..+++.-..|..|..++.+|+..+-.|..++
T Consensus       147 ~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~ltne~  183 (617)
T PF15070_consen  147 QLQSDKATASRALSQNRELKEQLAELQDAFVKLTNEN  183 (617)
T ss_pred             hhcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence            45 7777788888888889999998888777777666

>TIGR00606 rad50 rad50

Probab=97.73  E-value=0.055  Score=64.73  Aligned_cols=34  Identities=6%  Similarity=0.082  Sum_probs=19.2

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          296 EQKDFSTQIEAAGALIDKLITENIELVEKVNDLS  329 (474)
Q Consensus       296 E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~  329 (474)
                      ....+...+..+...+..|....+.+...+..|.
T Consensus      1048 ~~~~~~~e~~~l~~~~~~l~~~~a~l~g~~k~le 1081 (1311)
T TIGR00606      1048 QVLQMKQEHQKLEENIDLIKRNHVLALGRQKGYE 1081 (1311)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555666666666666666655554444443

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

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

Probab=97.73  E-value=0.02  Score=62.92  Aligned_cols=59  Identities=20%  Similarity=0.266  Sum_probs=33.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHH
Q 011943          109 ATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLH  168 (474)
Q Consensus       109 ~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~  168 (474)
                      +-++..|..|.++++.++.+++-+.... ...+.+.++++.....+|.++.-++..+...
T Consensus       109 a~~e~ei~kl~~e~~elr~~~~~~~k~~-~~~re~~~~~~~~l~~leAe~~~~krr~~~l  167 (546)
T KOG0977|consen  109 AKLEIEITKLREELKELRKKLEKAEKER-RGAREKLDDYLSRLSELEAEINTLKRRIKAL  167 (546)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHH-hhhHHHHHHHhhhhhhhhhHHHHHHHHHHHH
Confidence            4466677777777777777766654444 4444555555554444444444444443333

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

Probab=97.71  E-value=0.018  Score=56.42  Aligned_cols=46  Identities=15%  Similarity=0.232  Sum_probs=26.1

Q ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          242 IAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       242 Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .......+..|..+++..+.+....+..+..|...|+.|...+...
T Consensus       171 e~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~  216 (237)
T PF00261_consen  171 EDEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKE  216 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555666666666666666666666655555555555544

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

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.70  E-value=0.016  Score=62.02  Aligned_cols=52  Identities=15%  Similarity=0.196  Sum_probs=28.1

Q ss_pred             HHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          156 ETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDES  207 (474)
Q Consensus       156 ~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~  207 (474)
                      ..+.+|+.+.+........++.++.+|+.++..+...-..+...|..+....
T Consensus       213 ~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~  264 (562)
T PHA02562        213 ENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAA  264 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHH
Confidence            3455555555555555566666666666666555444344444444444444

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=97.60  E-value=0.031  Score=57.45  Aligned_cols=159  Identities=16%  Similarity=0.187  Sum_probs=102.1

Q ss_pred             hhhhhhhh-------hhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHH---HHHHHHHHHHHHHHHHhHHHHHHHHHhhhh
Q 011943           97 LRNERESH-------IQKEATLEGTVQQLQNECDLYKEKVQATLEET---IQQLQRQNDLRMQKEATLEETIKQLRNQND  166 (474)
Q Consensus        97 l~~e~d~~-------~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEk---ikQLe~E~~~~lQkeA~lE~kIkdLq~~~~  166 (474)
                      |+-||-|.       -|....||..|.-+.--+....+..+-....+   =.-++..++.|+.-.-.|-..+..|++.++
T Consensus        68 L~aENt~L~SkLe~EKq~kerLEtEiES~rsRLaaAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne  147 (305)
T PF14915_consen   68 LKAENTMLNSKLEKEKQNKERLETEIESYRSRLAAAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNE  147 (305)
T ss_pred             HHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhH
Confidence            55566553       45555666666655555555444443333332   012345566677777777777777777777


Q ss_pred             HHHHhhhhHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhH
Q 011943          167 LHIQREGGLEMNIANLQSEKEF---------------------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLE  225 (474)
Q Consensus       167 s~~QkEa~LEe~IkqLq~EI~~---------------------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFK  225 (474)
                      ...|+-...+-+++.|+.+..-                     ...+..+++.-...-+.+......|+.++|||+.|++
T Consensus       148 ~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kqes~eERL~Qlq  227 (305)
T PF14915_consen  148 ILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQESLEERLSQLQ  227 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777766666666555433                     4455555666666667778888899999999999998


Q ss_pred             hhhhhhhhhhh-chHHHHhhhHHHHHHHHHHH
Q 011943          226 ADKDSWTQMES-VSKETIAGLSVDITQLRMQV  256 (474)
Q Consensus       226 aERDsWLkkEI-sLke~Issl~~~~~sLq~QV  256 (474)
                      ++ +.||.+.. ............+..++.+.
T Consensus       228 sE-N~LLrQQLddA~~K~~~kek~ViniQ~~f  258 (305)
T PF14915_consen  228 SE-NMLLRQQLDDAHNKADNKEKTVINIQDQF  258 (305)
T ss_pred             HH-HHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            75 78888888 66666666665555555444

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

Probab=97.57  E-value=0.027  Score=62.84  Aligned_cols=162  Identities=22%  Similarity=0.314  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH---
Q 011943          112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF---  188 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~---  188 (474)
                      -+.|++|+.+-+.+-..           |+.+...|-++.+.|-..+..|+.+......+-..|+..|..|+..+..   
T Consensus         3 ~e~l~qlq~Erd~ya~~-----------lk~e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~   71 (617)
T PF15070_consen    3 MESLKQLQAERDQYAQQ-----------LKEESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPP   71 (617)
T ss_pred             HHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Confidence            46778888887776655           6668888999999999999999999999999999999999999988876   


Q ss_pred             ------HHHHHHHHHHHHHHHHHHHHHHHHhhhh---HHHHHHHhHhhhhhhhhhhhchHHHHhhhH---HHHHHHHHHH
Q 011943          189 ------WLQKEAALEQKISQLRDESAALNMKRAS---LEERLKLLEADKDSWTQMESVSKETIAGLS---VDITQLRMQV  256 (474)
Q Consensus       189 ------llqKEa~LeeeL~~L~~e~~~L~qKQ~~---LEERisQFKaERDsWLkkEIsLke~Issl~---~~~~sLq~QV  256 (474)
                            -...|..+..++..|..++..|..+-..   =.+.++.+..+.+.-|.   .+.+.+..+.   .+..+|..++
T Consensus        72 ~~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~---ELE~~le~~~e~~~D~~kLLe~l  148 (617)
T PF15070_consen   72 PEPPAGPSEVEQQLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLA---ELEEELERLQEQQEDRQKLLEQL  148 (617)
T ss_pred             ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhh
Confidence                  2233445555555565555544422111   12244444222222221   2222332222   3345666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          257 VELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       257 ~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ..=+..++-....|.+|+.++.+++..+-.+
T Consensus       149 qsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~l  179 (617)
T PF15070_consen  149 QSDKATASRALSQNRELKEQLAELQDAFVKL  179 (617)
T ss_pred             cccchHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            6666777778889999999999999877766

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

Probab=97.57  E-value=0.057  Score=66.09  Aligned_cols=194  Identities=20%  Similarity=0.246  Sum_probs=113.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHH--
Q 011943           78 RQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLE--  155 (474)
Q Consensus        78 ~~~~~q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE--  155 (474)
                      -=++|-|| +.|++--+--|+-|+.+.+|+=+++..+|..|+..++...-+-+....     -..+....+.+.+.+-  
T Consensus      1154 iv~~LR~E-kei~~tk~~~lk~e~~~L~qq~~~~~k~i~dL~~sL~~~r~~~q~~a~-----s~~e~~~i~~~v~~vNll 1227 (1822)
T KOG4674|consen 1154 IVSFLRKE-KEIAETKLDTLKRENARLKQQVASLNRTIDDLQRSLTAERASSQKSAV-----SDDEHKEILEKVEEVNLL 1227 (1822)
T ss_pred             HHHHHHhH-HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchh-----hhhhhhHHHHHHHHHHHH
Confidence            34566666 578888888899999999999999999999999888876655322111     1123444555555444  


Q ss_pred             -HHHHHHHhhhhHHHHhhhhHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh-Hh
Q 011943          156 -ETIKQLRNQNDLHIQREGGLEMNIAN-------LQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL-EA  226 (474)
Q Consensus       156 -~kIkdLq~~~~s~~QkEa~LEe~Ikq-------Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF-Ka  226 (474)
                       +.=+-|+.++.....+-..+.+.|..       |+.++..+.-+......++..|+.+...|.+.-..|.+.+... .+
T Consensus      1228 ~EsN~~LRee~~~~~~k~qEl~~~i~kl~~el~plq~~l~el~~e~~~~~ael~~l~~e~~~wK~R~q~L~~k~k~~d~~ 1307 (1822)
T KOG4674|consen 1228 RESNKVLREENEANLEKIQELRDKIEKLNFELAPLQNELKELKAELQEKVAELKKLEEENDRWKQRNQDLLEKYKDSDKN 1307 (1822)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHH
Confidence             33444555554444444444444333       4444444555555666666677777777777777666664444 33


Q ss_pred             hhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Q 011943          227 DKDSWTQMES-VSKETIAGLSVDITQLRMQVVELE----ESRNNLLQENRQLKENVS  278 (474)
Q Consensus       227 ERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LE----esl~sL~eEiq~LkeqIs  278 (474)
                      +...+ ..|| .|++.+......+..|.+....++    ..++.+..+++.+..++.
T Consensus      1308 ~~~kL-~~ei~~Lk~el~~ke~~~~el~~~~~~~q~~~k~qld~l~~e~~~lt~~~~ 1363 (1822)
T KOG4674|consen 1308 DYEKL-KSEISRLKEELEEKENLIAELKKELNRLQEKIKKQLDELNNEKANLTKELE 1363 (1822)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33332 3366 666666666655555555555544    333344444444444443

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

Probab=97.56  E-value=0.038  Score=62.47  Aligned_cols=92  Identities=26%  Similarity=0.252  Sum_probs=59.0

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhhhhh---------------hhhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKEN-------VSSLRSQLSSDES---------------KKHAT  294 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~Lkeq-------IseL~~~iqtle~---------------~~~~~  294 (474)
                      .++.....++.++..|+.+.+..++.+..++.++++|+..       ...|-..++.+..               +..|=
T Consensus       542 ~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtriKldLf  621 (697)
T PF09726_consen  542 SCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRIKLDLF  621 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            6777888888888888888888888888888888777653       3345555554421               22222


Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          295 SEQKDFSTQIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       295 ~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      +-.-+.+.|+|.+...+..-=+|=.+|+-|+.+|
T Consensus       622 saLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~~  655 (697)
T PF09726_consen  622 SALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQL  655 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444556666666555544444445556677776

; GO: 0016021 integral to membrane

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

Probab=97.49  E-value=0.03  Score=55.91  Aligned_cols=161  Identities=20%  Similarity=0.331  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 011943          114 TVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKE  193 (474)
Q Consensus       114 ~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKE  193 (474)
                      .|+.|+.+++.+.+... -....++.++.+.+.+-+....++..+.+|++.              +.+++.+|.....+.
T Consensus        11 ~iq~lD~e~~rl~~~~~-~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~q--------------v~~~e~ei~~~r~r~   75 (239)
T COG1579          11 AIQKLDLEKDRLEPRIK-EIRKALKKAKAELEALNKALEALEIELEDLENQ--------------VSQLESEIQEIRERI   75 (239)
T ss_pred             HHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHH
Confidence            34556666666655533 344444555555555555555555555555444              555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          194 AALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQL  273 (474)
Q Consensus       194 a~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~L  273 (474)
                      ...+.++....+.+            .++.|..|-+       .+++.+.+++.++..|...+..++..+..+...+..+
T Consensus        76 ~~~e~kl~~v~~~~------------e~~aL~~E~~-------~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~  136 (239)
T COG1579          76 KRAEEKLSAVKDER------------ELRALNIEIQ-------IAKERINSLEDELAELMEEIEKLEKEIEDLKERLERL  136 (239)
T ss_pred             HHHHHHHhccccHH------------HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555554443333            3333332222       3444444444444444444444444444444444444


Q ss_pred             HHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q 011943          274 KENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITE  317 (474)
Q Consensus       274 keqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrE  317 (474)
                      ...+.+....+.         .++..++.+..+....|..|..+
T Consensus       137 e~~~~e~~~~~e---------~e~~~i~e~~~~~~~~~~~L~~~  171 (239)
T COG1579         137 EKNLAEAEARLE---------EEVAEIREEGQELSSKREELKEK  171 (239)
T ss_pred             HHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHh
Confidence            444443333222         23444444444444444444433

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

Probab=97.47  E-value=0.18  Score=62.06  Aligned_cols=107  Identities=21%  Similarity=0.316  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhh------hhhhhhhh-chHHHHhhhHHH---
Q 011943          179 IANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADK------DSWTQMES-VSKETIAGLSVD---  248 (474)
Q Consensus       179 IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaER------DsWLkkEI-sLke~Issl~~~---  248 (474)
                      |..++.++..+..+-..+...+..++...+-+....++++-+...+..++      ..||..|. +..+.+..+..+   
T Consensus       138 le~l~~~n~~l~~ql~ss~~~~~e~e~r~~e~~s~~vs~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re~s~  217 (1822)
T KOG4674|consen  138 LEALESENKDLNDQLKSSTKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRREHSI  217 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhh
Confidence            33344444445555555555555555555555555555555555553332      45777776 666665555555   


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          249 -ITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       249 -~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                       +..|..++..++..+..+...++.|+.+...|...+.
T Consensus       218 ~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie  255 (1822)
T KOG4674|consen  218 EVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIE  255 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             5555555555555555555555555555555555444

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

Probab=97.46  E-value=0.094  Score=61.39  Aligned_cols=87  Identities=20%  Similarity=0.177  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhh-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGG-----------LEMNIANLQSEKEFWLQKEAALEQKISQLRDE  206 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~-----------LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e  206 (474)
                      .++........++...++..+..+......+.+-+..           -..+++.+..+|.....+...+.++++....+
T Consensus       231 ~~~~e~i~~l~k~i~e~~e~~~~~~~~e~~~~~l~~Lk~k~~W~~V~~~~~ql~~~~~~i~~~qek~~~l~~ki~~~~~k  310 (1074)
T KOG0250|consen  231 DLKEEEIKNLKKKIKEEEEKLDNLEQLEDLKENLEQLKAKMAWAWVNEVERQLNNQEEEIKKKQEKVDTLQEKIEEKQGK  310 (1074)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555555555555444433333322221           22333444444444555555555555555555


Q ss_pred             HHHHHHhhhhHHHHHHHh
Q 011943          207 SAALNMKRASLEERLKLL  224 (474)
Q Consensus       207 ~~~L~qKQ~~LEERisQF  224 (474)
                      +....+|-...|.++..+
T Consensus       311 ~~~~r~k~teiea~i~~~  328 (1074)
T KOG0250|consen  311 IEEARQKLTEIEAKIGEL  328 (1074)
T ss_pred             HHHHhhhhhHHHHHHHHH
Confidence            555555444444455555

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=97.46  E-value=0.13  Score=52.93  Aligned_cols=54  Identities=17%  Similarity=0.415  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh----Hhhhhhhhhhh
Q 011943          182 LQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL----EADKDSWTQME  235 (474)
Q Consensus       182 Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF----KaERDsWLkkE  235 (474)
                      ++..-+.|.---..|...+..|.+.+..|.++-..-|-+++.|    -..||++--+-
T Consensus       121 fqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKt  178 (305)
T PF14915_consen  121 FQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKT  178 (305)
T ss_pred             HHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444777777788888999999999999888888888887    45677764443

>PRK03918 chromosome segregation protein; Provisional

Probab=97.44  E-value=0.25  Score=55.96  Aligned_cols=7  Identities=14%  Similarity=0.515  Sum_probs=3.3

Q ss_pred             HHHHHHH
Q 011943           76 AERQHLL   82 (474)
Q Consensus        76 ~~~~~~~   82 (474)
                      ++|..+|
T Consensus       145 ~~r~~~~  151 (880)
T PRK03918        145 ESREKVV  151 (880)
T ss_pred             HHHHHHH
Confidence            3554444

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

Probab=97.35  E-value=0.24  Score=51.02  Aligned_cols=71  Identities=13%  Similarity=0.278  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~  208 (474)
                      ..|..+.+.+..+.-.+-.+.+++.+...++...+..+.+++.+|+..-+.+..+-..+-..+..+....+
T Consensus        30 ~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~  100 (294)
T COG1340          30 DELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRN  100 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33444444444444445555555566666666666666666666666666655555555555555544444

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

Probab=97.35  E-value=0.32  Score=57.14  Aligned_cols=38  Identities=11%  Similarity=0.177  Sum_probs=18.3

Q ss_pred             HHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHH
Q 011943           91 EETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK  128 (474)
Q Consensus        91 eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqk  128 (474)
                      .+++.+.++..+.+--.=.-+++.|..++..+..+.+.
T Consensus       220 ~~~~~~~~~~i~~~~e~i~~l~k~i~e~~e~~~~~~~~  257 (1074)
T KOG0250|consen  220 MESLDHAKELIDLKEEEIKNLKKKIKEEEEKLDNLEQL  257 (1074)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            34444545544444444444455555555555544443

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

Probab=97.34  E-value=0.14  Score=60.54  Aligned_cols=23  Identities=22%  Similarity=0.212  Sum_probs=16.2

Q ss_pred             CCceeeccCCccccchhhhhccc
Q 011943          409 SGEIVQIPLDDKEVQDLELQVVE  431 (474)
Q Consensus       409 ~~eiv~~~ld~~~~~~~~~q~~~  431 (474)
                      -|----|+||-+..|.-.++++-
T Consensus       666 LgraTFi~LDki~~~~~~l~~i~  688 (1293)
T KOG0996|consen  666 LGRATFIILDKIKDHQKKLAPIT  688 (1293)
T ss_pred             CCceeEEehHhhhhhhhccCCCC
Confidence            34455689999887777776644

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

Probab=97.34  E-value=0.2  Score=57.37  Aligned_cols=135  Identities=19%  Similarity=0.221  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHh----hHHHHHHHHHHHHHHHHHHH
Q 011943           77 ERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQAT----LEETIQQLQRQNDLRMQKEA  152 (474)
Q Consensus        77 ~~~~~~q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~l----leEkikQLe~E~~~~lQkeA  152 (474)
                      |..|+||-.| ++++|+.+.|+--|...-..-.-.|..++.|+.+++.+++..-..    -+.+ +=|..++..+...++
T Consensus       256 E~d~~lq~sa-k~ieE~m~qlk~kns~L~~ElSqkeelVk~~qeeLd~lkqt~t~a~gdseqat-kylh~enmkltrqka  333 (1265)
T KOG0976|consen  256 EQDMDLQASA-KEIEEKMRQLKAKNSVLGDELSQKEELVKELQEELDTLKQTRTRADGDSEQAT-KYLHLENMKLTRQKA  333 (1265)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhhccHHHHH-HHHHHHHHHHHHHHH
Confidence            7899999998 788999999988887766555666777888888888888774332    3344 556777788888888


Q ss_pred             hHHHHHHHHHhhhhHHHHhh--------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 011943          153 TLEETIKQLRNQNDLHIQRE--------------GGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMK  213 (474)
Q Consensus       153 ~lE~kIkdLq~~~~s~~QkE--------------a~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qK  213 (474)
                      .+.|.+++-+-+.++--.+.              ..+.+.+..++.+..+++...+...++|+.+.+..-.|.+-
T Consensus       334 dirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~e~~  408 (1265)
T KOG0976|consen  334 DIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRLEQG  408 (1265)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhc
Confidence            88777766554443333222              23444555666677778888888888888887777666554

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

Probab=97.29  E-value=0.19  Score=59.39  Aligned_cols=72  Identities=18%  Similarity=0.185  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-hhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          255 QVVELEESRNNLLQENRQLKENVSSLRSQLSSD-ESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVN  326 (474)
Q Consensus       255 QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl-e~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvn  326 (474)
                      ++...+.++.-|...-.+....+..++..+.+. +..+....++.+++..+..+-.+.+..-.+-++++.+.-
T Consensus       501 e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~~~k~l~~~~~e~~  573 (1293)
T KOG0996|consen  501 ELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKEKEKELPKLRKEER  573 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhHHHHHHHHH
Confidence            333333444444444444444444444444433 223333444444444444444444444444444444333

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.27  E-value=0.12  Score=50.18  Aligned_cols=174  Identities=20%  Similarity=0.219  Sum_probs=103.7

Q ss_pred             HHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHH
Q 011943           91 EETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQ  170 (474)
Q Consensus        91 eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Q  170 (474)
                      +--=++|..|+-..-+.=.++++.-.+|.++|..+...+..+            ..+++.--.++..+.+|+....+...
T Consensus        14 ~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~------------Qqal~~aK~l~eEledLk~~~~~lEE   81 (193)
T PF14662_consen   14 QLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSL------------QQALQKAKALEEELEDLKTLAKSLEE   81 (193)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334456666666666666667777777777777777776442            14566666778888888888777777


Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHH
Q 011943          171 REGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDI  249 (474)
Q Consensus       171 kEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~  249 (474)
                      ....|..+-.+++.|+..+..+...|..+-..+..+.+       +|..|+.+|..+... |+..+ .-+.-+......+
T Consensus        82 ~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~-------~lk~~~~eL~~~~~~-Lq~Ql~~~e~l~~~~da~l  153 (193)
T PF14662_consen   82 ENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERD-------GLKKRSKELATEKAT-LQRQLCEFESLICQRDAIL  153 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhh-------hHHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777766666665555555544443       344455555332222 33333 3333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          250 TQLRMQVVELEESRNNLLQENRQLKENVSSLRSQL  284 (474)
Q Consensus       250 ~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~i  284 (474)
                      ..-..++..|...+..+..-++.|+-.++.|+.++
T Consensus       154 ~e~t~~i~eL~~~ieEy~~~teeLR~e~s~LEeql  188 (193)
T PF14662_consen  154 SERTQQIEELKKTIEEYRSITEELRLEKSRLEEQL  188 (193)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555556655555555554

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

Probab=97.21  E-value=0.34  Score=49.80  Aligned_cols=113  Identities=21%  Similarity=0.298  Sum_probs=57.1

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHH
Q 011943          171 REGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDI  249 (474)
Q Consensus       171 kEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~  249 (474)
                      -...|++.+..|+.+...+.+..+.+..-+..+......|..+-..|+......    ..-=+.++ .++..|..+...+
T Consensus       150 l~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~----~~~D~~eL~~lr~eL~~~~~~i  225 (325)
T PF08317_consen  150 LKEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEI----ESCDQEELEALRQELAEQKEEI  225 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hhcCHHHHHHHHHHHHHHHHHH
Confidence            334455555556666555555555555555555555554444444333222222    22222444 5555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          250 TQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       250 ~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ...+.++..++..+..+...+..+..++..+..+|+.+
T Consensus       226 ~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~  263 (325)
T PF08317_consen  226 EAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEA  263 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555555555555554444433

>PRK09039 hypothetical protein; Validated

Probab=97.20  E-value=0.049  Score=56.62  Aligned_cols=122  Identities=22%  Similarity=0.254  Sum_probs=66.1

Q ss_pred             HHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-
Q 011943          158 IKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-  236 (474)
Q Consensus       158 IkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-  236 (474)
                      |.+|-+-.....+....++..|..|+..+..+...-+.++..+..+...       ...++.++.++..+-+. .+.+. 
T Consensus        62 Ia~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~~~~~~-------~~~~~~~~~~l~~~L~~-~k~~~s  133 (343)
T PRK09039         62 IAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALLAELAGA-------GAAAEGRAGELAQELDS-EKQVSA  133 (343)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-------cchHHHHHHHHHHHHHH-HHHHHH
Confidence            3445555555556666666666666666665555555544444422111       11223344444211111 12333 


Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .....|..++.++..|+.|+..++..+...+......+.+|..+..++...
T Consensus       134 e~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        134 RALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666677777777777777777777777777777766666666665543

>PRK03918 chromosome segregation protein; Provisional

Probab=97.18  E-value=0.67  Score=52.58  Aligned_cols=29  Identities=7%  Similarity=0.260  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhh
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQND  166 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~  166 (474)
                      .+++.+.....+....++..+..++....
T Consensus       196 ~~l~~~~~~l~~ei~~l~~e~~~l~~~~~  224 (880)
T PRK03918        196 KEKEKELEEVLREINEISSELPELREELE  224 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444333

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

Probab=97.17  E-value=0.09  Score=52.64  Aligned_cols=87  Identities=16%  Similarity=0.283  Sum_probs=49.0

Q ss_pred             hhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhh----hhHHHHHHHHHH
Q 011943          235 ESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQK----DFSTQIEAAGAL  310 (474)
Q Consensus       235 EIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~----dLksQiEal~d~  310 (474)
                      -++....+..++.++..+..+...|+.++..+..++..|...+..+..++...      ...+.    .+...+..+-..
T Consensus        84 ~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~------e~~~~e~~~~~e~e~~~i~e~  157 (239)
T COG1579          84 AVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERL------EKNLAEAEARLEEEVAEIREE  157 (239)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555555555555555555555555555555555555555544      33333    444445556666


Q ss_pred             HHHHHHHHHHHHhhhhh
Q 011943          311 IDKLITENIELVEKVND  327 (474)
Q Consensus       311 RK~LwrEnakL~ekvne  327 (474)
                      +..+-.+-..|+++.+.
T Consensus       158 ~~~~~~~~~~L~~~l~~  174 (239)
T COG1579         158 GQELSSKREELKEKLDP  174 (239)
T ss_pred             HHHHHHHHHHHHHhcCH
Confidence            77788888999997765

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.17  E-value=0.23  Score=48.10  Aligned_cols=88  Identities=19%  Similarity=0.215  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 011943          114 TVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKE  193 (474)
Q Consensus       114 ~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKE  193 (474)
                      .|..|+.++..+..++        ..+..|+.-+=+--..-+--|..|.+.....-|--..+.+++..|+...-....++
T Consensus        13 ki~~L~n~l~elq~~l--------~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~   84 (194)
T PF15619_consen   13 KIKELQNELAELQRKL--------QELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQE   84 (194)
T ss_pred             HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667777777777775        33444555444444445555566666655555666666666777777666666666


Q ss_pred             HHHHHHHHHHHHHHHH
Q 011943          194 AALEQKISQLRDESAA  209 (474)
Q Consensus       194 a~LeeeL~~L~~e~~~  209 (474)
                      ..++.+|.....+.-.
T Consensus        85 r~~~~klk~~~~el~k  100 (194)
T PF15619_consen   85 RELERKLKDKDEELLK  100 (194)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6677666666555543

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

Probab=97.14  E-value=0.29  Score=56.46  Aligned_cols=197  Identities=16%  Similarity=0.193  Sum_probs=127.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHH---HHHHhhhhHHHHhhhhHHHHHHHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETI---KQLRNQNDLHIQREGGLEMNIANLQSEKE  187 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kI---kdLq~~~~s~~QkEa~LEe~IkqLq~EI~  187 (474)
                      ++-.+..|+.++....+..+--.++- .||+.+..++.......|--.   .+..++.-....+=..+.+.+.+|..+..
T Consensus       363 ~~~ql~~le~~~~e~q~~~qe~~~e~-eqLr~elaql~a~r~q~eka~~~~ee~e~~~l~~e~ry~klkek~t~l~~~h~  441 (980)
T KOG0980|consen  363 YENQLLALEGELQEQQREAQENREEQ-EQLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTELRQEHA  441 (980)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556666666666555555555 666666666666666555544   66666666666666677777778888887


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          188 FWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLL  267 (474)
Q Consensus       188 ~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~  267 (474)
                      .++.|-...-.++.-.+.-.....-+.+-|...+.+++.+++.|..+=-+....+.+++.+..-|+.++..|+..+.++.
T Consensus       442 ~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~e~~~~~le~l~~El~~l~~e~~~lq~~~~~~~  521 (980)
T KOG0980|consen  442 DLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKTESQAKALESLRQELALLLIELEELQRTLSNLA  521 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            77777777776666655555555555566667777778888888888778888888888888888888888888877666


Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q 011943          268 QENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITE  317 (474)
Q Consensus       268 eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrE  317 (474)
                      ++-.....++..+..+-..         +.+.+..+.++..++|.++-+-
T Consensus       522 qs~~~~~~~l~~~l~~KD~---------~~~~~~~~~~e~~~~~~e~e~s  562 (980)
T KOG0980|consen  522 QSHNNQLAQLEDLLKQKDR---------LAAELVAREEEREALRLEAERS  562 (980)
T ss_pred             HHHHHHHHHHHHHHHhhHH---------HHHHHHHHHHHHHHHHHHHHhh
Confidence            6655555555544222221         2444555555455555544443

>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=97.13  E-value=0.092  Score=59.65  Aligned_cols=61  Identities=20%  Similarity=0.220  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          247 VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       247 ~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      .+..++.+++..|++++..|......+.        ++..+-+ +.+.+-...|+..+|+..++||.|=.
T Consensus       121 vefE~~Khei~rl~Ee~~~l~~qlee~~--------rLk~iae-~qleEALesl~~EReqk~~LrkEL~~  181 (717)
T PF09730_consen  121 VEFEGLKHEIKRLEEEIELLNSQLEEAA--------RLKEIAE-KQLEEALESLKSEREQKNALRKELDQ  181 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666665555555544444331        1121101 11233355677888888888887644

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

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

Probab=97.05  E-value=0.22  Score=57.08  Aligned_cols=55  Identities=16%  Similarity=0.286  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhh
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQND  166 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~  166 (474)
                      +...|+.++-++..+++..+.+..+. ++|+.+..+.+-..+.++.....|+...+
T Consensus       662 yK~lI~~lD~~~e~lkQ~~~~l~~e~-eeL~~~vq~~~s~hsql~~q~~~Lk~qLg  716 (970)
T KOG0946|consen  662 YKGLIRELDYQIENLKQMEKELQVEN-EELEEEVQDFISEHSQLKDQLDLLKNQLG  716 (970)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            66677777777777777766666666 77777776666666666666666666655

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

Probab=97.04  E-value=0.96  Score=54.12  Aligned_cols=71  Identities=30%  Similarity=0.444  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh---ch-HHHHhhhHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES---VS-KETIAGLSVDITQLRMQVVELEESRN  264 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI---sL-ke~Issl~~~~~sLq~QV~~LEesl~  264 (474)
                      |...++.+..++..+......   .....++++    .+-+.|.+.|+   .. ...|..++..+..|..++...+....
T Consensus       723 ~~~~~~~~d~~i~~i~~~i~~---~~~~~~~~~----~~le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie~~r~  795 (1201)
T PF12128_consen  723 WQELEAELDEQIEQIKQEIAA---AKQEAKEQL----KELEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIEERRA  795 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH----HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            555555555555555443332   223222333    34445555554   22 33666666666666666666665554


Q ss_pred             HH
Q 011943          265 NL  266 (474)
Q Consensus       265 sL  266 (474)
                      ..
T Consensus       796 ~V  797 (1201)
T PF12128_consen  796 EV  797 (1201)
T ss_pred             HH
Confidence            33

>PRK01156 chromosome segregation protein; Provisional

Probab=97.04  E-value=0.96  Score=51.89  Aligned_cols=32  Identities=13%  Similarity=0.265  Sum_probs=16.1

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          297 QKDFSTQIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       297 ~~dLksQiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      +.+++..++.+...+..|-.+=..|....++|
T Consensus       411 ~~e~~~~~~~l~~~i~~l~~~i~~l~~~~~el  442 (895)
T PRK01156        411 LNEINVKLQDISSKVSSLNQRIRALRENLDEL  442 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555555544555444444

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

Probab=97.03  E-value=0.49  Score=55.01  Aligned_cols=75  Identities=21%  Similarity=0.303  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHH---------HHHHHHH-----HHHHHHHHHHHHHHH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIAN---------LQSEKEF-----WLQKEAALEQKISQL  203 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~Ikq---------Lq~EI~~-----llqKEa~LeeeL~~L  203 (474)
                      +||+.=+..++++.|.++-.|.+-+-+-.-.......+...+.-         |..|+..     +.+....+++++++|
T Consensus       265 eqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve~lkEr~del  344 (1243)
T KOG0971|consen  265 EQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVEALKERVDEL  344 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56677777777777777776655444333222222222222222         2222222     555566666677777


Q ss_pred             HHHHHHHHH
Q 011943          204 RDESAALNM  212 (474)
Q Consensus       204 ~~e~~~L~q  212 (474)
                      +..+..|..
T Consensus       345 etdlEILKa  353 (1243)
T KOG0971|consen  345 ETDLEILKA  353 (1243)
T ss_pred             HHHHHHHHH
Confidence            666666644

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

Probab=96.97  E-value=0.6  Score=54.31  Aligned_cols=48  Identities=15%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Q 011943          115 VQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRN  163 (474)
Q Consensus       115 IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~  163 (474)
                      ..++.+.|.+++.. +-+.+|+-.-|+.+...+--+.-.+|..+.=|+.
T Consensus       306 mad~ad~iEmaTld-KEmAEERaesLQ~eve~lkEr~deletdlEILKa  353 (1243)
T KOG0971|consen  306 MADTADAIEMATLD-KEMAEERAESLQQEVEALKERVDELETDLEILKA  353 (1243)
T ss_pred             HHHHHHHHHHHHhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555544 3444555455555555555555555554444443

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=96.94  E-value=0.54  Score=51.16  Aligned_cols=189  Identities=19%  Similarity=0.206  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhhh---hh----hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 011943           77 ERQHLLQREAMAILEETVKHLRNERESH---IQ----KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQ  149 (474)
Q Consensus        77 ~~~~~~q~e~~~~~eeti~~l~~e~d~~---~~----~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQ  149 (474)
                      |..+-| .|+|| |-|+|++|+..|--.   ||    .-..||+.|+.|+..+..-..     ..+-|+.|+.-...++-
T Consensus       304 Eslqpl-eedma-LNEvL~kLk~tn~kQq~~IqdLq~sN~yLe~kvkeLQ~k~~kQqv-----fvDiinkLk~niEeLIe  376 (527)
T PF15066_consen  304 ESLQPL-EEDMA-LNEVLQKLKHTNRKQQNRIQDLQCSNLYLEKKVKELQMKITKQQV-----FVDIINKLKENIEELIE  376 (527)
T ss_pred             hccCCc-HHHHH-HHHHHHHHHhhhHHHHHHHHHhhhccHHHHHHHHHHHHHhhhhhH-----HHHHHHHHHHHHHHHHH
Confidence            555666 46665 788999999877542   22    334566666666655432211     22223333333333332


Q ss_pred             HHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhh
Q 011943          150 KEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKD  229 (474)
Q Consensus       150 keA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERD  229 (474)
                      -.-.+=+.-              ...+.++..|+.-..-..+.-.+-+.+=..|+-+.......=+.|+||+.-=-..||
T Consensus       377 dKY~viLEK--------------nd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelkK~k~nyv~LQEry~~eiQqKn  442 (527)
T PF15066_consen  377 DKYRVILEK--------------NDIEKTLQNLQEALANTQKHLQESRNEKETLQLELKKIKANYVHLQERYMTEIQQKN  442 (527)
T ss_pred             hHhHhhhhh--------------hhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhh
Confidence            222222222              223333333333333322222222222233333444445555677888877766788


Q ss_pred             hhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhhhh
Q 011943          230 SWTQMESVSKETIAGLSVDITQLRMQVVELEESRNN----LLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       230 sWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~s----L~eEiq~LkeqIseL~~~iqt  286 (474)
                      ..+..=+.+...++.....+..|+.--.+|+....+    |..|-......+=+|+..++.
T Consensus       443 ksvsqclEmdk~LskKeeeverLQ~lkgelEkat~SALdlLkrEKe~~EqefLslqeEfQk  503 (527)
T PF15066_consen  443 KSVSQCLEMDKTLSKKEEEVERLQQLKGELEKATTSALDLLKREKETREQEFLSLQEEFQK  503 (527)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888887788888888888888888777777765532    222333333333355555553

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

Probab=96.88  E-value=1.3  Score=51.07  Aligned_cols=193  Identities=17%  Similarity=0.188  Sum_probs=107.8

Q ss_pred             hhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHH
Q 011943          105 IQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQS  184 (474)
Q Consensus       105 ~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~  184 (474)
                      .|.+.++...+-.|++.+..++..+-.+. -+...++.+...+--.++.++..+++-+.+.+....+--.+++.|.--..
T Consensus        84 tqetriyRrdv~llEddlk~~~sQiriLQ-n~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~  162 (1265)
T KOG0976|consen   84 TQETRIYRRDVNLLEDDLKHHESQIRILQ-NKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAH  162 (1265)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhH
Confidence            56677777777777777777766654432 22355555555555555555555555555555555544445555544444


Q ss_pred             HHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhH-----hhhhhh-------hhhhh-----
Q 011943          185 EKEF-----------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLE-----ADKDSW-------TQMES-----  236 (474)
Q Consensus       185 EI~~-----------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFK-----aERDsW-------LkkEI-----  236 (474)
                      +|-+           +...+.++...+...-.++.       -|++++.+|+     .++-++       +.++|     
T Consensus       163 eIf~~~~~L~nk~~~lt~~~~q~~tkl~e~~~en~-------~le~k~~k~~e~~~~nD~~sle~~~~q~~tq~vl~ev~  235 (1265)
T KOG0976|consen  163 DIFMIGEDLHDKNEELNEFNMEFQTKLAEANREKK-------ALEEKLEKFKEDLIEKDQKSLELHKDQENTQKVLKEVM  235 (1265)
T ss_pred             HHHHHHHHHhhhhhHHhHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHH
Confidence            4444           33333333333333333332       2455666661     112122       11222     


Q ss_pred             ---chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hhhhhhhhhhhHHHHH
Q 011943          237 ---VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES-KKHATSEQKDFSTQIE  305 (474)
Q Consensus       237 ---sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~-~~~~~~E~~dLksQiE  305 (474)
                         +-+..+..++.+...+.+++..|+-+...+++.-.+++..-+.|...++..+. ++.+..+..+|++-+.
T Consensus       236 QLss~~q~ltp~rk~~s~i~E~d~~lq~sak~ieE~m~qlk~kns~L~~ElSqkeelVk~~qeeLd~lkqt~t  308 (1265)
T KOG0976|consen  236 QLSSQKQTLTPLRKTCSMIEEQDMDLQASAKEIEEKMRQLKAKNSVLGDELSQKEELVKELQEELDTLKQTRT  308 (1265)
T ss_pred             HHHHhHhhhhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               22234455666777888888888888888888888887777777777775533 5566666666665543

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

Probab=96.87  E-value=0.78  Score=53.73  Aligned_cols=184  Identities=18%  Similarity=0.219  Sum_probs=114.9

Q ss_pred             hhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHH
Q 011943          105 IQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQS  184 (474)
Q Consensus       105 ~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~  184 (474)
                      +++.+.|+-.|++|+++|..-.+.-...++.- ..+.+....--+....++=+-..|.+       .+..+-.+|..|+.
T Consensus       299 ~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l-~~~~~ki~e~~~EL~~I~Pky~~l~~-------ee~~~~~rl~~l~~  370 (1200)
T KOG0964|consen  299 SKKKTKLELKIKDLQDQITGNEQQRNLALHVL-QKVKDKIEEKKDELSKIEPKYNSLVD-------EEKRLKKRLAKLEQ  370 (1200)
T ss_pred             HHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHH-HHHHHHHHHHHHHHHHhhhHHHHHHh-------HHHHHHHHHHHHHH
Confidence            55667777778888888777777743333322 44444444443333333333333333       34445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh---Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHH
Q 011943          185 EKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL---EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELE  260 (474)
Q Consensus       185 EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF---KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LE  260 (474)
                      ....++.+-....+ +. ..++++-|..++-   +++.+.   ..++...+++|+ +++..+......+..|...+.+.+
T Consensus       371 ~~~~l~~Kqgr~sq-Fs-sk~eRDkwir~ei---~~l~~~i~~~ke~e~~lq~e~~~~e~~l~~~~e~i~~l~~si~e~~  445 (1200)
T KOG0964|consen  371 KQRDLLAKQGRYSQ-FS-SKEERDKWIRSEI---EKLKRGINDTKEQENILQKEIEDLESELKEKLEEIKELESSINETK  445 (1200)
T ss_pred             HHHHHHHhhccccc-cC-cHHHHHHHHHHHH---HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhh
Confidence            55554444332211 11 1234444544443   334433   556777888999 899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHH
Q 011943          261 ESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAA  307 (474)
Q Consensus       261 esl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal  307 (474)
                      .+.+.+..++-.++...+++....+.+      -.+-..|++.++.+
T Consensus       446 ~r~~~~~~~~~~~k~~~del~~~Rk~l------WREE~~l~~~i~~~  486 (1200)
T KOG0964|consen  446 GRMEEFDAENTELKRELDELQDKRKEL------WREEKKLRSLIANL  486 (1200)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHH
Confidence            999999999999999999999888877      55566666655443

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

Probab=96.87  E-value=0.48  Score=52.58  Aligned_cols=194  Identities=22%  Similarity=0.269  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH---
Q 011943          112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF---  188 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~---  188 (474)
                      +..+..|+.+|.-++++++....++|+-.+-=.. .+...-.++....+|+..-++..+--..+.+.+.++++-...   
T Consensus         7 eq~ve~lr~eierLT~el~q~t~e~~qaAeyGL~-lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hkk~~~   85 (772)
T KOG0999|consen    7 EQEVEKLRQEIERLTEELEQTTEEKIQAAEYGLE-LLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHKKVAR   85 (772)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3445556666666666666555555433222111 122222233333333333333333333444444444433222   


Q ss_pred             ------------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchH-------HHHhhhHHHH
Q 011943          189 ------------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSK-------ETIAGLSVDI  249 (474)
Q Consensus       189 ------------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLk-------e~Issl~~~~  249 (474)
                                  --.+|..+-.+|-.|+++..   |+..    .+..-++|++.+.+.=-.++       ..-..++.++
T Consensus        86 ~g~e~EesLLqESaakE~~yl~kI~eleneLK---q~r~----el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~el  158 (772)
T KOG0999|consen   86 DGEEREESLLQESAAKEEYYLQKILELENELK---QLRQ----ELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDEL  158 (772)
T ss_pred             cchhhHHHHHHHHHHhHHHHHHHHHHHHHHHH---HHHH----HHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHH
Confidence                        22344444445555544432   1122    23333555555543322333       3334445555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh----hhhhhhhhhhhHHHHHHHHHHHHH
Q 011943          250 TQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES----KKHATSEQKDFSTQIEAAGALIDK  313 (474)
Q Consensus       250 ~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~----~~~~~~E~~dLksQiEal~d~RK~  313 (474)
                      ..+.--.+.|=.+.+.|+++|=.|+.+++.|....=.+|.    .+.+.+++.-|++|++++.-+++-
T Consensus       159 Ke~KfRE~RllseYSELEEENIsLQKqVs~LR~sQVEyEglkheikRleEe~elln~q~ee~~~Lk~I  226 (772)
T KOG0999|consen  159 KEYKFREARLLSEYSELEEENISLQKQVSNLRQSQVEYEGLKHEIKRLEEETELLNSQLEEAIRLKEI  226 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcchHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555566667788888888888888877654433332    344566777788888887777653

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

Probab=96.85  E-value=0.21  Score=55.23  Aligned_cols=166  Identities=17%  Similarity=0.142  Sum_probs=89.8

Q ss_pred             HHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhh
Q 011943          148 MQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEAD  227 (474)
Q Consensus       148 lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaE  227 (474)
                      -.-.+.+|..|..++...+......++++..|..|+.+++.+.++-....+...-.......+...-+.|+..+..|++.
T Consensus        84 s~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr  163 (546)
T KOG0977|consen   84 SGIKAKYEAELATARKLLDETARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRR  163 (546)
T ss_pred             cchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            34456778888888888888888888888888888888888666655554444444444333333333333366666554


Q ss_pred             hhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hh-------------h----h
Q 011943          228 KDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS-SD-------------E----S  289 (474)
Q Consensus       228 RDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq-tl-------------e----~  289 (474)
                      +..+--....|+.....+...+..+..++..----...+...+|.|++.|.-+..... .+             +    =
T Consensus       164 ~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~Etllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~~~~~rd~t~~~r~~F  243 (546)
T KOG0977|consen  164 IKALEDELKRLKAENSRLREELARARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEIEEERRKARRDTTADNREYF  243 (546)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHhhcccccchHHH
Confidence            4443222224444444444444433332222222223344455555555553332222 00             0    0


Q ss_pred             hhhhhhhhhhhHHHHHHHHHHHHH
Q 011943          290 KKHATSEQKDFSTQIEAAGALIDK  313 (474)
Q Consensus       290 ~~~~~~E~~dLksQiEal~d~RK~  313 (474)
                      ...|+.-+.+++.++++-...-+.
T Consensus       244 ~~eL~~Ai~eiRaqye~~~~~nR~  267 (546)
T KOG0977|consen  244 KNELALAIREIRAQYEAISRQNRK  267 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHH
Confidence            334456677777777776665554

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

Probab=96.84  E-value=0.77  Score=51.39  Aligned_cols=116  Identities=19%  Similarity=0.181  Sum_probs=52.4

Q ss_pred             HHHHHHHhhhhHHHHhhhh-----------HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 011943          156 ETIKQLRNQNDLHIQREGG-----------LEMNIANLQSEKEF-------WLQKEAALEQKISQLRDESAALNMKRASL  217 (474)
Q Consensus       156 ~kIkdLq~~~~s~~QkEa~-----------LEe~IkqLq~EI~~-------llqKEa~LeeeL~~L~~e~~~L~qKQ~~L  217 (474)
                      .-|++|+.-.++..++...           |.+++..|+.....       .+++-..++.+++.+..+.......-..|
T Consensus       394 ~ni~kL~~~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL  473 (594)
T PF05667_consen  394 ENIAKLQALVEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQL  473 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555555444444           44444444443332       44444455555555554443332222222


Q ss_pred             HHHHHHh--HhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          218 EERLKLL--EADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENR  271 (474)
Q Consensus       218 EERisQF--KaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq  271 (474)
                      ...+..+  ..-|-.++++=..+-..|.-++.+|.....+...|+.+++.+.....
T Consensus       474 ~~e~e~~~k~~~Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~  529 (594)
T PF05667_consen  474 VKELEKLPKDVNRSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGKLD  529 (594)
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2333333  22334444433344444555555555555555555555555544433

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

Probab=96.83  E-value=1.2  Score=53.42  Aligned_cols=97  Identities=15%  Similarity=0.252  Sum_probs=47.6

Q ss_pred             HHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhh-HHHHhh
Q 011943           94 VKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQND-LHIQRE  172 (474)
Q Consensus        94 i~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~-s~~QkE  172 (474)
                      +..+......+.-...-+|+.+++....+..+...+.....+. ++.+.+...+......++.++......-. ....+-
T Consensus       609 l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l  687 (1201)
T PF12128_consen  609 LEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQEL-KQAEQDLQRLKNEREQLKQEIEEAKEERKEQIEEQL  687 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333334456666666666666666544333333 55555555555555555555555444332 223333


Q ss_pred             hhHHHHHHHHHHHHHHHHH
Q 011943          173 GGLEMNIANLQSEKEFWLQ  191 (474)
Q Consensus       173 a~LEe~IkqLq~EI~~llq  191 (474)
                      ..++..+++++.++..|+.
T Consensus       688 ~~l~~~l~~~~~e~~~~~~  706 (1201)
T PF12128_consen  688 NELEEELKQLKQELEELLE  706 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555544

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

Probab=96.78  E-value=0.58  Score=45.42  Aligned_cols=142  Identities=19%  Similarity=0.269  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 011943          113 GTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQK  192 (474)
Q Consensus       113 e~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqK  192 (474)
                      ..|+.|.+++...+.. +....-.+..+..++..+..-.+.++..+..|+..              +..+...+.++.  
T Consensus        27 ~lIksLKeei~emkk~-e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~--------------L~~y~kdK~~L~--   89 (201)
T PF13851_consen   27 ELIKSLKEEIAEMKKK-EERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQ--------------LKNYEKDKQSLQ--   89 (201)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHH--
Confidence            4577777777777776 33344444555555655555555555555555544              444444444421  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          193 EAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENR  271 (474)
Q Consensus       193 Ea~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq  271 (474)
                        .++.++..++.+...|......|+.|+.+++.|||.|..+-. .+.+.-.--...+.-|...+..|.+.+.....+..
T Consensus        90 --~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~  167 (201)
T PF13851_consen   90 --NLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLN  167 (201)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              222233333333333333334567788888888888887766 66666666666666677777766666665555555


Q ss_pred             HH
Q 011943          272 QL  273 (474)
Q Consensus       272 ~L  273 (474)
                      +.
T Consensus       168 ev  169 (201)
T PF13851_consen  168 EV  169 (201)
T ss_pred             HH
Confidence            44

>PRK09039 hypothetical protein; Validated

Probab=96.77  E-value=0.18  Score=52.53  Aligned_cols=142  Identities=13%  Similarity=0.106  Sum_probs=66.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHH
Q 011943          110 TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFW  189 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~l  189 (474)
                      .|..+|..++.+++.+..++.        +|-.-...-...-+.++..|.+|+.........++.++..+..........
T Consensus        43 fLs~~i~~~~~eL~~L~~qIa--------~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~~~~~~~~~~  114 (343)
T PRK09039         43 FLSREISGKDSALDRLNSQIA--------ELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALLAELAGAGAAA  114 (343)
T ss_pred             HHHHHHhhHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcchH
Confidence            455555556666666555542        233333334445566666677777666655555555555444222212222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          190 LQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQ  268 (474)
Q Consensus       190 lqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~e  268 (474)
                      ..+.+.+..+|......-..-+.               .=.+|+.|| .|+..+..++..+..+..+....+..+..+..
T Consensus       115 ~~~~~~l~~~L~~~k~~~se~~~---------------~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~  179 (343)
T PRK09039        115 EGRAGELAQELDSEKQVSARALA---------------QVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGR  179 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333222211111               122344555 55555555555555555555555555555544


Q ss_pred             HHHHHH
Q 011943          269 ENRQLK  274 (474)
Q Consensus       269 Eiq~Lk  274 (474)
                      .++...
T Consensus       180 ~L~~a~  185 (343)
T PRK09039        180 RLNVAL  185 (343)
T ss_pred             HHHHHH
Confidence            444443

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

Probab=96.74  E-value=0.00036  Score=77.95  Aligned_cols=176  Identities=22%  Similarity=0.283  Sum_probs=0.0

Q ss_pred             HHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhhHHHHHHHhHh
Q 011943          150 KEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALE---QKISQLRDESAALNMKRASLEERLKLLEA  226 (474)
Q Consensus       150 keA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~Le---eeL~~L~~e~~~L~qKQ~~LEERisQFKa  226 (474)
                      ..+.+.-.+..|+++..-.......+..++..++.++..+.++-..+.   .+...|.++.+.|..+-.    |+.++.+
T Consensus       240 ~~~~l~~ql~~L~~el~~~e~~~~d~~~~~e~le~ei~~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~----r~~klE~  315 (713)
T PF05622_consen  240 ELADLRAQLRRLREELERLEEQRDDLKIELEELEKEIDELRQENEELQAEAREARALRDELDELREKAD----RADKLEN  315 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH----HHHHHHH
Confidence            344455555555555544333334344444444444444333332222   455666666666655544    3333321


Q ss_pred             hhhhh--hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhhhhhh-hhhhhhhhhhhh
Q 011943          227 DKDSW--TQMES-VSKETIAGLSVDITQLRMQVVELEESRNN---LLQENRQLKENVSSLRSQLSSD-ESKKHATSEQKD  299 (474)
Q Consensus       227 ERDsW--LkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~s---L~eEiq~LkeqIseL~~~iqtl-e~~~~~~~E~~d  299 (474)
                      +=..+  =-.++ .++..+..++..|..+......|++.+..   +..++..++.+|..+...+... .....+..++..
T Consensus       316 ~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~  395 (713)
T PF05622_consen  316 EVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKARALKSQLEEYKKQIQELEQKLSEESRRADKLEFENKQ  395 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111  01344 66777777777777777777776666543   4444455555555555554432 112334566777


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          300 FSTQIEAAGALIDKLITENIELVEKVNDLS  329 (474)
Q Consensus       300 LksQiEal~d~RK~LwrEnakL~ekvneL~  329 (474)
                      |..++.++...++.|..+-..|.+.+.+|.
T Consensus       396 L~ek~~~l~~eke~l~~e~~~L~e~~eeL~  425 (713)
T PF05622_consen  396 LEEKLEALEEEKERLQEERDSLRETNEELE  425 (713)
T ss_dssp             ------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            788888888888888888788888777774

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.

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

Probab=96.74  E-value=0.26  Score=45.47  Aligned_cols=30  Identities=30%  Similarity=0.437  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDL  167 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s  167 (474)
                      ..|..+.+.+.-+...++.++++|...+..
T Consensus         3 ~~lk~E~d~a~~r~e~~e~~~K~le~~~~~   32 (143)
T PF12718_consen    3 QALKLEADNAQDRAEELEAKVKQLEQENEQ   32 (143)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666777777766655433

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 [].

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

Probab=96.72  E-value=0.54  Score=45.59  Aligned_cols=105  Identities=23%  Similarity=0.280  Sum_probs=70.5

Q ss_pred             HHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHh
Q 011943           92 ETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQR  171 (474)
Q Consensus        92 eti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Qk  171 (474)
                      +.|+.|+++..-.-.++.-.++.+..+..++..+..-|+.+..+. ..|+.+...+-+-...+..               
T Consensus        27 ~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~-~eL~k~L~~y~kdK~~L~~---------------   90 (201)
T PF13851_consen   27 ELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEV-EELRKQLKNYEKDKQSLQN---------------   90 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH---------------
Confidence            579999999999999999999999999999999999987766666 6666665555554443322               


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          172 EGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       172 Ea~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                         +..++..++.++..+...-..++.++.+++.+++.|+.+-.
T Consensus        91 ---~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~  131 (201)
T PF13851_consen   91 ---LKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFE  131 (201)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               22333444444444444445555555555566655555444

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

Probab=96.72  E-value=1  Score=53.70  Aligned_cols=19  Identities=32%  Similarity=0.485  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHh
Q 011943          195 ALEQKISQLRDESAALNMK  213 (474)
Q Consensus       195 ~LeeeL~~L~~e~~~L~qK  213 (474)
                      .++..+..++.....|...
T Consensus       585 ~~~d~l~~le~~k~~ls~~  603 (1317)
T KOG0612|consen  585 DLEDKLSLLEESKSKLSKE  603 (1317)
T ss_pred             cHHHHHHHHHHHHHHHHHH
Confidence            4444555554444444333

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

Probab=96.66  E-value=1.9  Score=49.83  Aligned_cols=28  Identities=18%  Similarity=0.252  Sum_probs=19.9

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHhhHH
Q 011943          108 EATLEGTVQQLQNECDLYKEKVQATLEE  135 (474)
Q Consensus       108 e~~~Ee~IkqLqeEi~~lkqkLE~lleE  135 (474)
                      =.-+|+.|+.|+.+|..+...+.....+
T Consensus       240 i~~lEr~l~~le~Ei~~L~~~~~~~~~~  267 (775)
T PF10174_consen  240 IASLERMLRDLEDEIYRLRSRGELSEAD  267 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccccccc
Confidence            3567888888888888887766544443

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 [].

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

Probab=96.60  E-value=1.1  Score=46.17  Aligned_cols=47  Identities=28%  Similarity=0.384  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhH
Q 011943          179 IANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLE  225 (474)
Q Consensus       179 IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFK  225 (474)
                      +..|+.....+.+-.+.|...+..+..-...+..+...|+.++.+++
T Consensus       151 ~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk  197 (325)
T PF08317_consen  151 KEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLK  197 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444445555555555555555555555555555555555554

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=96.55  E-value=0.33  Score=50.31  Aligned_cols=177  Identities=17%  Similarity=0.215  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHH---HHHHHHHHHhHHHHHHHHHhhhhH-----------HHHhhhhHHHHHHHH
Q 011943          117 QLQNECDLYKEKVQATLEETIQQLQRQ---NDLRMQKEATLEETIKQLRNQNDL-----------HIQREGGLEMNIANL  182 (474)
Q Consensus       117 qLqeEi~~lkqkLE~lleEkikQLe~E---~~~~lQkeA~lE~kIkdLq~~~~s-----------~~QkEa~LEe~IkqL  182 (474)
                      .|...+..+...|.. ..+.|.||+.+   +++++|..+........-.+....           +.-.-.-|..+++.|
T Consensus        94 ~L~~~~~~le~~L~~-~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le~Lq~Klk~L  172 (306)
T PF04849_consen   94 DLSERNEALEEQLGA-ALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLEALQEKLKSL  172 (306)
T ss_pred             cHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhHHHHHHHHHHH
Confidence            344444444444433 22333555544   456666666555433222222110           111123477778888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhh--hhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHH
Q 011943          183 QSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEAD--KDSWTQMES-VSKETIAGLSVDITQLRMQVVEL  259 (474)
Q Consensus       183 q~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaE--RDsWLkkEI-sLke~Issl~~~~~sLq~QV~~L  259 (474)
                      +.|+..+..+-+.|...-...+.+-..|..--      +.||-..  .=.-|..|+ .-.+....+..++.+|..+|..+
T Consensus       173 EeEN~~LR~Ea~~L~~et~~~EekEqqLv~dc------v~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~Llsqivdl  246 (306)
T PF04849_consen  173 EEENEQLRSEASQLKTETDTYEEKEQQLVLDC------VKQLSEANQQIASLSEELARKTEENRRQQEEITSLLSQIVDL  246 (306)
T ss_pred             HHHHHHHHHHHHHhhHHHhhccHHHHHHHHHH------HHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888777777777766666655554443222      2445221  223355666 55566677777777888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHH
Q 011943          260 EESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEA  306 (474)
Q Consensus       260 Eesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEa  306 (474)
                      +..+..+..++..|...+.........+      ..++.+|+.++.+
T Consensus       247 Q~r~k~~~~EnEeL~q~L~~ske~Q~~L------~aEL~elqdkY~E  287 (306)
T PF04849_consen  247 QQRCKQLAAENEELQQHLQASKESQRQL------QAELQELQDKYAE  287 (306)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence            8888888888888777777665555555      5566666666544

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

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

Probab=96.54  E-value=0.84  Score=52.58  Aligned_cols=171  Identities=18%  Similarity=0.183  Sum_probs=87.6

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHH
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK  186 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI  186 (474)
                      ++-+.++...+|+.-+..++--        |+.++.+...+-|..-.|++..++|+++.......-..+.++..-|+.+.
T Consensus       644 ~~~~~~k~~e~l~~~~~kyK~l--------I~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qL  715 (970)
T KOG0946|consen  644 QTQLAEKYHEELDDIQQKYKGL--------IRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQL  715 (970)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHH--------HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445666666666666555444        46677777777777777777777777665555555555555555555444


Q ss_pred             H----------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHH
Q 011943          187 E----------FWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQV  256 (474)
Q Consensus       187 ~----------~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV  256 (474)
                      .          +....-....+++..+..+...|..++..|.+.++.-.+.+.+|=..--+-... ..--..+.+.++||
T Consensus       716 g~~~~~~~~~~q~~e~~~t~~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~-~~~~~~~~~~qeqv  794 (970)
T KOG0946|consen  716 GIISSKQRDLLQGAEASKTQNEELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAELS-QGSLNDNLGDQEQV  794 (970)
T ss_pred             cccccchhhHHhHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcc-cchhhhhhhhHHHH
Confidence            3          122222234455666666666666666655555544433333332111100000 11112223445555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          257 VELEESRNNLLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       257 ~~LEesl~sL~eEiq~LkeqIseL~~~iqt  286 (474)
                      .++...+......++++..++..++.++++
T Consensus       795 ~El~~~l~e~~~~l~~~q~e~~~~keq~~t  824 (970)
T KOG0946|consen  795 IELLKNLSEESTRLQELQSELTQLKEQIQT  824 (970)
T ss_pred             HHHHHhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            555444555555555555555555555443

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.49  E-value=3.5  Score=50.80  Aligned_cols=137  Identities=7%  Similarity=0.088  Sum_probs=72.2

Q ss_pred             HHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhh
Q 011943          150 KEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKD  229 (474)
Q Consensus       150 keA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERD  229 (474)
                      ....+...+.+|........+.-..+.+++..++.++..+..+...++.++..+....+.+-++...++..+..+... .
T Consensus       349 ei~~l~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~-~  427 (1486)
T PRK04863        349 KIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERA-K  427 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H
Confidence            333444444444444444444444444444444444444444444444444444444444444434334444444222 2


Q ss_pred             hhhh-hhh---chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          230 SWTQ-MES---VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       230 sWLk-kEI---sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .|.. -..   .|...+.........++.++..++..++.+....+.+......+......+
T Consensus       428 ~~~~~~~~SdEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql~~~~~~l~~~~Gkv  489 (1486)
T PRK04863        428 QLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAGEV  489 (1486)
T ss_pred             HHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence            2332 111   466777777777777777777777777777777777777777665555543

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.46  E-value=1.9  Score=47.60  Aligned_cols=125  Identities=14%  Similarity=0.155  Sum_probs=69.6

Q ss_pred             HHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH-HHHh-Hhhhhhh--hhh
Q 011943          159 KQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEER-LKLL-EADKDSW--TQM  234 (474)
Q Consensus       159 kdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEER-isQF-KaERDsW--Lkk  234 (474)
                      ..++........+...++.....++..+..+.+.|...+.+|..+......+...-.   .+ +.-+ ..=.+.+  +..
T Consensus       379 sel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~---k~~lpgip~~y~~~~~~~~~  455 (569)
T PRK04778        379 SELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKRYLE---KSNLPGLPEDYLEMFFEVSD  455 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HcCCCCCcHHHHHHHHHHHH
Confidence            333344444444444444444444444444555555555555555444432211000   00 0000 0001111  356


Q ss_pred             hh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          235 ES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       235 EI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqt  286 (474)
                      +| .|...+..-..+...+..++.....++..|..+...|......++..|+-
T Consensus       456 ~i~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy  508 (569)
T PRK04778        456 EIEALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQY  508 (569)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66 77778877777777888888888888888888888888888888777774

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=96.44  E-value=1  Score=44.02  Aligned_cols=129  Identities=22%  Similarity=0.270  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLL  267 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~  267 (474)
                      +++....+++++..|.....       +|||...+|.+ ...-+-+|. +|-..|..++..+..+..+...++.....|.
T Consensus        58 al~~aK~l~eEledLk~~~~-------~lEE~~~~L~a-q~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~  129 (193)
T PF14662_consen   58 ALQKAKALEEELEDLKTLAK-------SLEEENRSLLA-QARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELA  129 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHH
Confidence            45555555555555544443       34444444421 122344667 7888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHhhhhhhhh-hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          268 QENRQLKENVSSLRSQLSSDES-KKHATSEQKDFSTQIEAAGALIDKLITENIELVEKV  325 (474)
Q Consensus       268 eEiq~LkeqIseL~~~iqtle~-~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekv  325 (474)
                      .++..|+.+|-.+..-+..-+. ...-...+.+|...+++.......|..+=..|-+.+
T Consensus       130 ~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~eL~~~ieEy~~~teeLR~e~s~LEeql  188 (193)
T PF14662_consen  130 TEKATLQRQLCEFESLICQRDAILSERTQQIEELKKTIEEYRSITEELRLEKSRLEEQL  188 (193)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888544443331100 000022355566666666666666666655555543

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

Probab=96.40  E-value=0.26  Score=44.46  Aligned_cols=121  Identities=17%  Similarity=0.268  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh--Hhhhhhhhhhhh-chHHHHhhhHHHHHHHH
Q 011943          177 MNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL--EADKDSWTQMES-VSKETIAGLSVDITQLR  253 (474)
Q Consensus       177 e~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF--KaERDsWLkkEI-sLke~Issl~~~~~sLq  253 (474)
                      .++..|+.++..+......+..++..+.........--...+.++.+=  ++..+.   +++ .++..+..++..+..|+
T Consensus         3 ~e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~---~~L~~lr~e~~~~~~~~~~l~   79 (132)
T PF07926_consen    3 SELSSLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAEDI---KELQQLREELQELQQEINELK   79 (132)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555544333222222232221  222221   333 44444444444444444


Q ss_pred             HHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHH
Q 011943          254 MQVVELEES----RNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEA  306 (474)
Q Consensus       254 ~QV~~LEes----l~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEa  306 (474)
                      .++......    ..+|..+-..|...+..+..++..+      ...+.-|-.|++.
T Consensus        80 ~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL------~~QN~lLh~QlE~  130 (132)
T PF07926_consen   80 AEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDL------NEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHhh
Confidence            444333322    2345555555555555665555555      4455555555543

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

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.39  E-value=4  Score=50.33  Aligned_cols=136  Identities=13%  Similarity=0.130  Sum_probs=77.1

Q ss_pred             HHHHHHHHHhhhhhhhhhhhHh------hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011943           88 AILEETVKHLRNERESHIQKEA------TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQL  161 (474)
Q Consensus        88 ~~~eeti~~l~~e~d~~~~~e~------~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdL  161 (474)
                      +-++..+++|+.+...-.+.-.      .....+..+...+..+...++. ..+++.+++.+...+-.....++..+..+
T Consensus       317 ~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee-~eeeLeeleeeleeleeEleelEeeLeeL  395 (1486)
T PRK04863        317 AELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEE-QNEVVEEADEQQEENEARAEAAEEEVDEL  395 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555556555554322111      1234555556666666666544 33334666667777777777777777777


Q ss_pred             HhhhhHHHHhhhhHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q 011943          162 RNQNDLHIQREGGLEMNIANLQSEKEF-----------------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLL  224 (474)
Q Consensus       162 q~~~~s~~QkEa~LEe~IkqLq~EI~~-----------------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF  224 (474)
                      +.......+....++.++.+++..+..                 |...-..+..++.+++.+...+.++-..++..+++|
T Consensus       396 qeqLaelqqel~elQ~el~q~qq~i~~Le~~~~~~~~~~~SdEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql  475 (1486)
T PRK04863        396 KSQLADYQQALDVQQTRAIQYQQAVQALERAKQLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQF  475 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777666666666666666666666654                 334444445555555555555555555555555555

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.33  E-value=2.3  Score=46.97  Aligned_cols=246  Identities=15%  Similarity=0.220  Sum_probs=115.8

Q ss_pred             HHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHH----------hhHHHHHHHHHHHHHHHH-------
Q 011943           87 MAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQA----------TLEETIQQLQRQNDLRMQ-------  149 (474)
Q Consensus        87 ~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~----------lleEkikQLe~E~~~~lQ-------  149 (474)
                      ++-.++.|+.+..+.+-....|.--...|.+|.+.-..+++.+-+          .++..|..++.++..+..       
T Consensus       114 l~~~e~~~~~i~~~l~~l~~~e~~nr~~v~~l~~~y~~~rk~ll~~~~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~  193 (569)
T PRK04778        114 LDLIEEDIEQILEELQELLESEEKNREEVEQLKDLYRELRKSLLANRFSFGPALDELEKQLENLEEEFSQFVELTESGDY  193 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHHHHHHHhcCCCH
Confidence            445555666666666666666666666666666666666655422          233444444444433221       


Q ss_pred             -----HHHhHHHHHHHHHhhhhHH----HHhhhhHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHH
Q 011943          150 -----KEATLEETIKQLRNQNDLH----IQREGGLEMNIANLQSEKEF------------WLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       150 -----keA~lE~kIkdLq~~~~s~----~QkEa~LEe~IkqLq~EI~~------------llqKEa~LeeeL~~L~~e~~  208 (474)
                           -...++..+..|+....--    ..-...+=++|..|+..+..            .-.+-..++.+|.....-..
T Consensus       194 ~~A~e~l~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~~gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~  273 (569)
T PRK04778        194 VEAREILDQLEEELAALEQIMEEIPELLKELQTELPDQLQELKAGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLE  273 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHH
Confidence                 1122222222222222111    11111123334444444444            33344444444444332222


Q ss_pred             H-----HHHhhhhHHHHHHHh----Hhhhhhh--hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHH----------HHHH
Q 011943          209 A-----LNMKRASLEERLKLL----EADKDSW--TQMES-VSKETIAGLSVDITQLRMQVVELEES----------RNNL  266 (474)
Q Consensus       209 ~-----L~qKQ~~LEERisQF----KaERDsW--LkkEI-sLke~Issl~~~~~sLq~QV~~LEes----------l~sL  266 (474)
                      .     ...+-..++++|.+|    ..|..+-  +.+.. .+...+......+..|..++..+..+          ...+
T Consensus       274 ~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~l  353 (569)
T PRK04778        274 ELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQL  353 (569)
T ss_pred             hcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHH
Confidence            2     223444566666666    2222221  33444 67777777777777888887777777          5556


Q ss_pred             HHHHHHHHHHHHHHHhhhhhh--------hhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh
Q 011943          267 LQENRQLKENVSSLRSQLSSD--------ESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKL  332 (474)
Q Consensus       267 ~eEiq~LkeqIseL~~~iqtl--------e~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l  332 (474)
                      ..++..+...+..+...+...        +.-..+......+..+...+......|...+....+++..+.-+|
T Consensus       354 ekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L  427 (569)
T PRK04778        354 EKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKL  427 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666655555554444422        001111233333333344444444444444544444555554333

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

Probab=96.33  E-value=2.8  Score=47.88  Aligned_cols=210  Identities=16%  Similarity=0.191  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHH---HHHHHHHHHHHHHH
Q 011943          117 QLQNECDLYKEKVQATLEETIQQLQ-RQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMN---IANLQSEKEFWLQK  192 (474)
Q Consensus       117 qLqeEi~~lkqkLE~lleEkikQLe-~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~---IkqLq~EI~~llqK  192 (474)
                      .+..|...+.+.+.++..+.+..+. -..+++.++....+..+..|+.....+.--.+.++..   ...+|..|..+.++
T Consensus       397 ka~~E~e~l~q~l~~~~k~e~~e~~k~~~d~~~r~~~~~~~~~e~Lqk~~~~~k~ll~e~~t~gsA~ed~Qeqn~kL~~e  476 (698)
T KOG0978|consen  397 KARAETESLLQRLKALDKEERSEIRKQALDDAERQIRQVEELSEELQKKEKNFKCLLSEMETIGSAFEDMQEQNQKLLQE  476 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667777777777777777766666 5677778877777777777777776666222222211   11122223222222


Q ss_pred             HHHHHH-------HHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 011943          193 EAALEQ-------KISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRN  264 (474)
Q Consensus       193 Ea~Lee-------eL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~  264 (474)
                      -..-..       +......+...|..+-..|++.+.++++- +..++..| .|.+....+......+..+.+.+...+.
T Consensus       477 l~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~-~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le  555 (698)
T KOG0978|consen  477 LREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKAS-VDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLE  555 (698)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHH
Confidence            111111       11112222222333333344444444222 22233333 5555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhh
Q 011943          265 NLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLD  333 (474)
Q Consensus       265 sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l~  333 (474)
                      .....+..+...+..|+..+...      .....++..++.++....+.+....-.|-|+...|-++|-
T Consensus       556 ~~kk~~~e~~~~~~~Lq~~~ek~------~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kle  618 (698)
T KOG0978|consen  556 MLKKKAQEAKQSLEDLQIELEKS------EAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKLE  618 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555544      3444555555555555555555555555566666665653

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

Probab=96.33  E-value=3  Score=48.22  Aligned_cols=96  Identities=17%  Similarity=0.220  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQ  268 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~e  268 (474)
                      -+-....+..+|.+++..+..|......|..++.+-+...--=..+-..|+.........+..|..++-.|..+..+-..
T Consensus       484 ~isei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~~s~L~aa~~~ke~irq~ikdqldelskE~esk~~  563 (1118)
T KOG1029|consen  484 MISEIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQRKSELEAARRKKELIRQAIKDQLDELSKETESKLN  563 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555666666666666666666666666655532111000111134444444445555555555555555555555


Q ss_pred             HHHHHHHHHHHHHhhh
Q 011943          269 ENRQLKENVSSLRSQL  284 (474)
Q Consensus       269 Eiq~LkeqIseL~~~i  284 (474)
                      ++..+..++++|...+
T Consensus       564 eidi~n~qlkelk~~~  579 (1118)
T KOG1029|consen  564 EIDIFNNQLKELKEDV  579 (1118)
T ss_pred             hhhhHHHHHHHHHHHH
Confidence            5555555555554333

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

Probab=96.25  E-value=2.7  Score=47.22  Aligned_cols=40  Identities=13%  Similarity=0.184  Sum_probs=24.3

Q ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          290 KKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLS  329 (474)
Q Consensus       290 ~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~  329 (474)
                      ...+..+++.+..+++.-.+..+.++-.+|+=-+-+-..|
T Consensus       514 Tr~lQkeiN~l~gkL~RtF~v~dElifrdAKkDe~~rkaY  553 (594)
T PF05667_consen  514 TRELQKEINSLTGKLDRTFTVTDELIFRDAKKDEAARKAY  553 (594)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhcCHHHHHHH
Confidence            3344667777777777777777777777766333333333

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

Probab=96.24  E-value=3  Score=47.48  Aligned_cols=222  Identities=18%  Similarity=0.147  Sum_probs=133.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHH---HHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH-
Q 011943          113 GTVQQLQNECDLYKEKVQATLEETIQQL---QRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF-  188 (474)
Q Consensus       113 e~IkqLqeEi~~lkqkLE~lleEkikQL---e~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~-  188 (474)
                      .+.+.|+..+......+-.+..++-.++   ..-...+...++.++.+|-.|++-.....|+-..++++|+.|-.+... 
T Consensus       310 ~tq~~le~~lq~~~k~~~qlt~eKe~~~Ee~nk~k~~~s~~v~e~qtti~~L~~lL~~Eqqr~~~~ed~lk~l~~eLqkk  389 (786)
T PF05483_consen  310 STQKALEEDLQQATKTLIQLTEEKEAQMEELNKAKAQHSFVVTELQTTICNLKELLTTEQQRLKKNEDQLKILTMELQKK  389 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            3445566666666665555555553343   444556777899999999999999999999999999999887776655 


Q ss_pred             ----------HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhh------hhhhh-chHHHHhhhHHHHHH
Q 011943          189 ----------WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSW------TQMES-VSKETIAGLSVDITQ  251 (474)
Q Consensus       189 ----------llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsW------LkkEI-sLke~Issl~~~~~s  251 (474)
                                -..++-+++. |.....+.+.|+-....++.=...|+.--..+      ..+++ .|+..+.+.......
T Consensus       390 s~eleEmtk~k~~ke~elee-L~~~L~e~qkll~ekk~~eki~E~lq~~eqel~~llq~~ekev~dLe~~l~~~~~~eq~  468 (786)
T PF05483_consen  390 SSELEEMTKQKNNKEVELEE-LKKILAEKQKLLDEKKQFEKIAEELQGTEQELTGLLQIREKEVHDLEIQLTTIKESEQH  468 (786)
T ss_pred             hHHHHHHHHHhhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhHH
Confidence                      2233333333 44444555555554444444444443222222      34566 788888888777888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh--------hhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q 011943          252 LRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDE--------SKKHATSEQKDFSTQIEAAGALIDKLITENIELVE  323 (474)
Q Consensus       252 Lq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle--------~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~e  323 (474)
                      ...||..|+.++..=.-.+..|......|...-.++.        +.+.+...+...+.+-+.+.-..+.|-..+..|..
T Consensus       469 yskQVeeLKtELE~EkLKN~ELt~~~nkLslEkk~laQE~~~~~~elKk~qedi~~~k~qee~~~kqie~Lee~~~~Lrn  548 (786)
T PF05483_consen  469 YSKQVEELKTELEQEKLKNTELTVNCNKLSLEKKQLAQETSDMALELKKQQEDINNSKKQEEKMLKQIENLEETNTQLRN  548 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888777655555555555554444333220        11222344455555555666666666666666655


Q ss_pred             hhhhhhHhhhhh
Q 011943          324 KVNDLSVKLDRQ  335 (474)
Q Consensus       324 kvneL~~~l~~~  335 (474)
                      .++.++-++.+.
T Consensus       549 eles~~eel~~k  560 (786)
T PF05483_consen  549 ELESVKEELKQK  560 (786)
T ss_pred             HHHHHHHHHHHH
Confidence            555554444433

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

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

Probab=96.21  E-value=2.5  Score=50.65  Aligned_cols=26  Identities=19%  Similarity=0.247  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhhhhhhhHhhhhhhhh
Q 011943          313 KLITENIELVEKVNDLSVKLDRQSVA  338 (474)
Q Consensus       313 ~LwrEnakL~ekvneL~~~l~~~~~~  338 (474)
                      .|-+....+.+.|-.|...|.+-.-+
T Consensus       746 ~l~r~~~~~~~~vl~Lq~~LEqe~~~  771 (1317)
T KOG0612|consen  746 ELRRSKDQLITEVLKLQSMLEQEISK  771 (1317)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            33344566667788888777765444

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

Probab=96.20  E-value=1.9  Score=44.62  Aligned_cols=73  Identities=23%  Similarity=0.283  Sum_probs=43.8

Q ss_pred             HHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhh
Q 011943           91 EETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQ  164 (474)
Q Consensus        91 eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~  164 (474)
                      +.-+..|+...+-|+.+-..+...+..+..+.+.+..++.-+.... +.+...++..+..+..+-.+-.++...
T Consensus        12 e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~-~elr~~rdeineev~elK~kR~ein~k   84 (294)
T COG1340          12 ELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKA-QELREERDEINEEVQELKEKRDEINAK   84 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344466666777777777777777777777777766655533333 666666666665555555544444443

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

Probab=96.16  E-value=3.3  Score=47.16  Aligned_cols=70  Identities=11%  Similarity=0.165  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          136 TIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRD  205 (474)
Q Consensus       136 kikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~  205 (474)
                      .+..|..++..+.|....+-..++.++........++..+-.+|..|......+...-..++.++..--+
T Consensus       493 ~~nkLslEkk~laQE~~~~~~elKk~qedi~~~k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~  562 (786)
T PF05483_consen  493 NCNKLSLEKKQLAQETSDMALELKKQQEDINNSKKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGE  562 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555555555555555666655555555555555555555555555444444444444444333

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

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

Probab=96.11  E-value=0.0015  Score=73.22  Aligned_cols=107  Identities=27%  Similarity=0.400  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHh--hHHHHHHHHHHHHHHHHHHHhHHHHHHH---HHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 011943          118 LQNECDLYKEKVQAT--LEETIQQLQRQNDLRMQKEATLEETIKQ---LRNQNDLHIQREGGLEMNIANLQSEKEFWLQK  192 (474)
Q Consensus       118 LqeEi~~lkqkLE~l--leEkikQLe~E~~~~lQkeA~lE~kIkd---Lq~~~~s~~QkEa~LEe~IkqLq~EI~~llqK  192 (474)
                      |+.++..++++|+.+  +..+++.|++++..+++..+.+|..++.   ++...+...+.-..++.++.....+++.|...
T Consensus       313 lE~~ve~YKkKLed~~~lk~qvk~Lee~N~~l~e~~~~LEeel~~~~~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e  392 (713)
T PF05622_consen  313 LENEVEKYKKKLEDLEDLKRQVKELEEDNAVLLETKAMLEEELKKARALKSQLEEYKKQIQELEQKLSEESRRADKLEFE  392 (713)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444332  2334455666666666666666666655   33344444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q 011943          193 EAALEQKISQLRDESAALNMKRASLEERLKLL  224 (474)
Q Consensus       193 Ea~LeeeL~~L~~e~~~L~qKQ~~LEERisQF  224 (474)
                      -..+.+++..+..++..|......|++....|
T Consensus       393 ~~~L~ek~~~l~~eke~l~~e~~~L~e~~eeL  424 (713)
T PF05622_consen  393 NKQLEEKLEALEEEKERLQEERDSLRETNEEL  424 (713)
T ss_dssp             --------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44555555555555555554444455444333

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.

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

Probab=96.11  E-value=1.8  Score=51.22  Aligned_cols=240  Identities=17%  Similarity=0.214  Sum_probs=128.8

Q ss_pred             HHHHH--HhhhhhhhhhhhHhh------HHHHHHHHHHHHHHHHHHHHHhh------HHHHHHHHHHHHHHHHHHHhHHH
Q 011943           91 EETVK--HLRNERESHIQKEAT------LEGTVQQLQNECDLYKEKVQATL------EETIQQLQRQNDLRMQKEATLEE  156 (474)
Q Consensus        91 eeti~--~l~~e~d~~~~~e~~------~Ee~IkqLqeEi~~lkqkLE~ll------eEkikQLe~E~~~~lQkeA~lE~  156 (474)
                      +++-+  .|+++... .|++-.      .+..|..+.+++..++..+..+.      ...|.-...+...+++..+.+.-
T Consensus       198 ~eaeky~~lkde~~~-~q~e~~L~qLfhvE~~i~k~~~els~~~~ei~~~~~~~d~~e~ei~~~k~e~~ki~re~~~~Dk  276 (1141)
T KOG0018|consen  198 EEAEKYQRLKDEKGK-AQKEQFLWELFHVEACIEKANDELSRLNAEIPKLKERMDKKEREIRVRKKERGKIRRELQKVDK  276 (1141)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhHhhhhHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555  45555544 222222      24444444444444444332221      12223344455677777788887


Q ss_pred             HHHHHHhhhhH------HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh------
Q 011943          157 TIKQLRNQNDL------HIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL------  224 (474)
Q Consensus       157 kIkdLq~~~~s------~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF------  224 (474)
                      .|++.......      -.++-+....+|...+..+......-......|..++...-.+..+..-+++++..-      
T Consensus       277 ~i~~ke~~l~erp~li~~ke~~~~~k~rl~~~~k~i~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei~~~~q~rg~  356 (1141)
T KOG0018|consen  277 KISEKEEKLAERPELIKVKENASHLKKRLEEIEKDIETAKKDYRALKETIERLEKELKAVEGAKEEFEKEIEERSQERGS  356 (1141)
T ss_pred             HHHHHHHHHhhhhHHhhcchhhccchhHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            77777776555      122233333445555555555444444444445544444444444333333333222      


Q ss_pred             -----------------Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          225 -----------------EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       225 -----------------KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqt  286 (474)
                                       ++.+..  ..|+ .++....+-+.....+..-...++++++.+...+..+..+...|-..+.+
T Consensus       357 ~lnl~d~~~~ey~rlk~ea~~~~--~~el~~ln~~~r~~~~~ld~~~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s  434 (1141)
T KOG0018|consen  357 ELNLKDDQVEEYERLKEEACKEA--LEELEVLNRNMRSDQDTLDHELERRAELEARIKQLKESVERLDKRRNKLAAKITS  434 (1141)
T ss_pred             cCCcchHHHHHHHHHHHHHhhhh--HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                             222222  4555 66666666666666666666777777777766666666666666555555


Q ss_pred             hhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhhhhhhhh
Q 011943          287 DESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAA  339 (474)
Q Consensus       287 le~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l~~~~~~~  339 (474)
                      +      ......+......+...+-.+-.+.+.+.++..+.-.+|...++.+
T Consensus       435 ~------~~~~~e~~~d~~~l~~~~~~~~~~~~e~n~eL~~~~~ql~das~dr  481 (1141)
T KOG0018|consen  435 L------SRSYEELKHDLDSLESLVSSAEEEPYELNEELVEVLDQLLDASADR  481 (1141)
T ss_pred             H------HHHHHHHhhcHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHhhhhhh
Confidence            5      5556666666677777777777777777776666655554444443

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

Probab=96.02  E-value=4.8  Score=47.69  Aligned_cols=18  Identities=11%  Similarity=0.263  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 011943          112 EGTVQQLQNECDLYKEKV  129 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkL  129 (474)
                      -..+..|..+++...+++
T Consensus       707 ~~kf~~l~~ql~l~~~~l  724 (1174)
T KOG0933|consen  707 SQKFRDLKQQLELKLHEL  724 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344555666666555554

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

Probab=96.01  E-value=4.8  Score=47.66  Aligned_cols=48  Identities=29%  Similarity=0.315  Sum_probs=38.4

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQL  284 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~i  284 (474)
                      .+++.+........-+..+...|+..+-.++++|..|..+|..|...-
T Consensus       513 elkeQ~kt~~~qye~~~~k~eeLe~~l~~lE~ENa~LlkqI~~Lk~t~  560 (1195)
T KOG4643|consen  513 ELKEQYKTCDIQYELLSNKLEELEELLGNLEEENAHLLKQIQSLKTTS  560 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHh
Confidence            677777777777777788888888888888888888888888887753

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

Probab=95.92  E-value=4.4  Score=46.41  Aligned_cols=98  Identities=22%  Similarity=0.197  Sum_probs=51.6

Q ss_pred             hhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH-HHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHH
Q 011943          104 HIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQ-KEATLEETIKQLRNQNDLHIQREGGLEMNIANL  182 (474)
Q Consensus       104 ~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQ-keA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqL  182 (474)
                      -.|+=+.+|+.++-+-.+-+.+++.++.+..+-       -..+.+ ..+..-+.|+.|..+.+-.-.+......-|+.|
T Consensus       407 ~~QRva~lEkKvqa~~kERDalr~e~kslk~el-------a~~l~~DeLaEkdE~I~~lm~EGEkLSK~ql~qs~iIkKL  479 (961)
T KOG4673|consen  407 YHQRVATLEKKVQALTKERDALRREQKSLKKEL-------AAALLKDELAEKDEIINQLMAEGEKLSKKQLAQSAIIKKL  479 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH-------HHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            378888888888888888888777765322221       011111 234444555555555555444444444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          183 QSEKEFWLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       183 q~EI~~llqKEa~LeeeL~~L~~e~~  208 (474)
                      +..+...-.-++...+.|..|+.+..
T Consensus       480 RAk~ke~etl~~K~ge~i~~L~sE~~  505 (961)
T KOG4673|consen  480 RAKIKEAETLEEKKGELITKLQSEEN  505 (961)
T ss_pred             HHHhhhhhHHHHHhhhHHHHHHHHHH
Confidence            55544433333333444444444443

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=95.89  E-value=2.3  Score=43.54  Aligned_cols=121  Identities=18%  Similarity=0.226  Sum_probs=70.9

Q ss_pred             HHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchH
Q 011943          160 QLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSK  239 (474)
Q Consensus       160 dLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLk  239 (474)
                      +|.+=+.....-++.|+.+|.+++..+-.+......|.-++..+..+.                 ..-|-.+-+++-.|.
T Consensus        35 El~EFQegSrE~EaelesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~-----------------e~q~~q~y~q~s~Le   97 (333)
T KOG1853|consen   35 ELNEFQEGSREIEAELESQLDQLETRNRDLETRNQRLTTEQERNKEKQ-----------------EDQRVQFYQQESQLE   97 (333)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHH
Confidence            333334456667777777777776666555444444443333332222                 122333444555777


Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhhhhhhhhhh
Q 011943          240 ETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS-SDESKKHATSEQ  297 (474)
Q Consensus       240 e~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq-tle~~~~~~~E~  297 (474)
                      ..++.......+|++=|-+|+..-.-|+..-..-.-.+..+..++. .+|-+++|.++.
T Consensus        98 ddlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESEL  156 (333)
T KOG1853|consen   98 DDLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESEL  156 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence            7777777777777777777777777666665555556667777776 455555554433

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

Probab=95.87  E-value=3.3  Score=44.62  Aligned_cols=160  Identities=16%  Similarity=0.168  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          121 ECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKI  200 (474)
Q Consensus       121 Ei~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL  200 (474)
                      |-+....+++..-.|+ +..+.+.+.+-|+.++..-.++.+...-....++-..+.++-.+|..+.+++...-..|....
T Consensus       103 er~~~~~El~~~r~e~-~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~~qr~ql~aq~qsl~a~~k~LQ~s~  181 (499)
T COG4372         103 EREAARSELQKARQER-EAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASA  181 (499)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444555556666 666666666666666666666666665555555555566666666666666666666666666


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh--chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          201 SQLRDESAALNMKRASLEERLKLLEADKDSWTQMES--VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVS  278 (474)
Q Consensus       201 ~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI--sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIs  278 (474)
                      .+|..+...|+......|.+-..+      -...+-  .+.+.+.+.......+...+..+...++++..+|-.--++|-
T Consensus       182 ~Qlk~~~~~L~~r~~~ieQ~~~~l------a~r~~a~q~r~~ela~r~aa~Qq~~q~i~qrd~~i~q~~q~iaar~e~I~  255 (499)
T COG4372         182 TQLKSQVLDLKLRSAQIEQEAQNL------ATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIR  255 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            666666666666555333333333      222222  455555555555555555555555555555555555555555


Q ss_pred             HHHhhhhhh
Q 011943          279 SLRSQLSSD  287 (474)
Q Consensus       279 eL~~~iqtl  287 (474)
                      ....+++.+
T Consensus       256 ~re~~lq~l  264 (499)
T COG4372         256 ERERQLQRL  264 (499)
T ss_pred             HHHHHHHHH
Confidence            555555544

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=95.86  E-value=2.1  Score=42.20  Aligned_cols=134  Identities=22%  Similarity=0.286  Sum_probs=83.2

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          130 QATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAA  209 (474)
Q Consensus       130 E~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~  209 (474)
                      .......|..+..+++.+..-.+++|-...+|...              -..++..+.-+.+-|..|+..+.........
T Consensus        64 ~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~r--------------yek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~  129 (207)
T PF05010_consen   64 KELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKR--------------YEKQKEVIEGYKKNEETLKKCIEEYEERLKK  129 (207)
T ss_pred             HHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHH--------------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            33445556778888888888888888887766655              3344444444555555555444444333322


Q ss_pred             HHHhhhhHHHHHHHhHhhh-h--hhhhhhh-----chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          210 LNMKRASLEERLKLLEADK-D--SWTQMES-----VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLR  281 (474)
Q Consensus       210 L~qKQ~~LEERisQFKaER-D--sWLkkEI-----sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~  281 (474)
                      +       +.|+..|++-= .  .-...||     .....+..++..+...+.++..|++++.....+|+.|..--++|.
T Consensus       130 ~-------eqry~aLK~hAeekL~~ANeei~~v~~~~~~e~~aLqa~lkk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI  202 (207)
T PF05010_consen  130 E-------EQRYQALKAHAEEKLEKANEEIAQVRSKHQAELLALQASLKKEEMKVQSLEESLEQKTKENEELTKICDELI  202 (207)
T ss_pred             H-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2       22444441100 0  0122333     445567788888889999999999999999999999987777775


Q ss_pred             hhh
Q 011943          282 SQL  284 (474)
Q Consensus       282 ~~i  284 (474)
                      ...
T Consensus       203 ~k~  205 (207)
T PF05010_consen  203 SKM  205 (207)
T ss_pred             HHh
Confidence            543

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.81  E-value=2.8  Score=43.43  Aligned_cols=109  Identities=24%  Similarity=0.311  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHH
Q 011943          175 LEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLR  253 (474)
Q Consensus       175 LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq  253 (474)
                      |...+..|+.+...+.+.++.+..-+-.+......|..+-.    .+.+.+.+-+..=..|. .+++.|.....++....
T Consensus       149 L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~----~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~  224 (312)
T smart00787      149 LDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELR----QLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKV  224 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555555555555444444433333    11111222222223444 56666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          254 MQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       254 ~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .++..++..+..+...|+....+...+..+|++.
T Consensus       225 ~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~a  258 (312)
T smart00787      225 KKLEELEEELQELESKIEDLTNKKSELNTEIAEA  258 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666655555555555544

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

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

Probab=95.77  E-value=0.07  Score=50.87  Aligned_cols=72  Identities=22%  Similarity=0.271  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 011943          247 VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEK  324 (474)
Q Consensus       247 ~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ek  324 (474)
                      ..+......+..|+..+..|...+..|...+.+....++.+      ..|+..|+-++..+......|=.||..||++
T Consensus       109 ~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l------~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~R  180 (194)
T PF08614_consen  109 KELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEIL------QDELQALQLQLNMLEEKLRKLEEENRELVER  180 (194)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333444444444444444444444444      6666677778888888888888888888874

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.

>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=95.76  E-value=1.3  Score=46.35  Aligned_cols=33  Identities=30%  Similarity=0.384  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          248 DITQLRMQVVELEESRNNLLQENRQLKENVSSL  280 (474)
Q Consensus       248 ~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL  280 (474)
                      ++.+|-++-.-|.+.+..+.+|...++..|+..
T Consensus       190 DIDaLi~ENRyL~erl~q~qeE~~l~k~~i~KY  222 (319)
T PF09789_consen  190 DIDALIMENRYLKERLKQLQEEKELLKQTINKY  222 (319)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555554444433

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

Probab=95.72  E-value=4.8  Score=45.38  Aligned_cols=79  Identities=18%  Similarity=0.192  Sum_probs=38.4

Q ss_pred             hhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHH
Q 011943          104 HIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ  183 (474)
Q Consensus       104 ~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq  183 (474)
                      -++-.-..+-+|+.|.+.++.+.+.+.......+.-.+....      -..-.+-+.|.+.......+-..++.+|..++
T Consensus       136 el~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~e~~~~------q~~~e~e~~L~~~~~~~~~q~~~le~ki~~lq  209 (629)
T KOG0963|consen  136 ELADLKTQQVTVRNLKERLRKLEQLLEIFIENAANETEEKLE------QEWAEREAGLKDEEQNLQEQLEELEKKISSLQ  209 (629)
T ss_pred             HHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555566677777777777777665544422111111111      11112333444444444444445555555555


Q ss_pred             HHHHH
Q 011943          184 SEKEF  188 (474)
Q Consensus       184 ~EI~~  188 (474)
                      .-|..
T Consensus       210 ~a~~~  214 (629)
T KOG0963|consen  210 SAIED  214 (629)
T ss_pred             HHHHh
Confidence            55554

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.69  E-value=4.7  Score=45.10  Aligned_cols=72  Identities=15%  Similarity=0.254  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH
Q 011943          113 GTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF  188 (474)
Q Consensus       113 e~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~  188 (474)
                      +.+..|+.++..+..+.+.+..+ +.+++.+.+.+-+++..++..+..   ..+...+.+..++.++..++.+...
T Consensus       209 ~~~~~le~el~~l~~~~e~l~~~-i~~l~~ele~a~~~l~~l~~~~~~---~GG~~~~~r~~Le~ei~~le~e~~e  280 (650)
T TIGR03185       209 SEIEALEAELKEQSEKYEDLAQE-IAHLRNELEEAQRSLESLEKKFRS---EGGDLFEEREQLERQLKEIEAARKA  280 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH---hcchHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555544443332222 244444444444444433332222   3344444455555555555555444

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

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

Probab=95.59  E-value=1.3  Score=40.85  Aligned_cols=39  Identities=21%  Similarity=0.329  Sum_probs=22.7

Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          240 ETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVS  278 (474)
Q Consensus       240 e~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIs  278 (474)
                      ..+.........+..+|..|+.....|+..+..+..+..
T Consensus       101 ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen  101 EKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            334444445555566666666666666666666655544

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 [].

>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=95.58  E-value=7.1  Score=46.35  Aligned_cols=26  Identities=19%  Similarity=0.160  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          304 IEAAGALIDKLITENIELVEKVNDLS  329 (474)
Q Consensus       304 iEal~d~RK~LwrEnakL~ekvneL~  329 (474)
                      +..+.-....+-++.+....+|+.|-
T Consensus       908 ~kkle~e~~~~~~e~~~~~k~v~~l~  933 (1174)
T KOG0933|consen  908 RKKLEHEVTKLESEKANARKEVEKLL  933 (1174)
T ss_pred             HHHHHhHHHHhhhhHHHHHHHHHHHH
Confidence            33333333333444444444444443

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

Probab=95.57  E-value=5.8  Score=45.28  Aligned_cols=160  Identities=19%  Similarity=0.195  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH---
Q 011943          112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF---  188 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~---  188 (474)
                      ...+..+++.++.....++-.++.-+.+.+.-.+-.++-...++.++.++.+......+.-..+..+....+..-.+   
T Consensus       107 ~~~l~~~q~a~~~~e~~lq~q~e~~~n~~q~~~~k~~el~~e~~~k~ae~~~lr~k~dss~s~~q~e~~~~~~~~~~~~s  186 (716)
T KOG4593|consen  107 LTRLRQLQEALKGQEEKLQEQLERNRNQCQANLKKELELLREKEDKLAELGTLRNKLDSSLSELQWEVMLQEMRAKRLHS  186 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456666666666666666666665677777777777777777777777666555555444444443333333222   


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 -WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLL  267 (474)
Q Consensus       189 -llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~  267 (474)
                       +...+..+.....++..+......+++.|++|....+.  .+-.-+..+....+..++.....-..+.+.++.+...+-
T Consensus       187 ~l~~~eke~~~~~~ql~~~~q~~~~~~~~l~e~~~~~qq--~a~~~~ql~~~~ele~i~~~~~dqlqel~~l~~a~~q~~  264 (716)
T KOG4593|consen  187 ELQNEEKELDRQHKQLQEENQKIQELQASLEERADHEQQ--NAELEQQLSLSEELEAINKNMKDQLQELEELERALSQLR  264 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             55667778888888888888888888877777665522  111112223344445555555544444445555555555


Q ss_pred             HHHHHH
Q 011943          268 QENRQL  273 (474)
Q Consensus       268 eEiq~L  273 (474)
                      ++...+
T Consensus       265 ee~~~~  270 (716)
T KOG4593|consen  265 EELATL  270 (716)
T ss_pred             HHHHHH
Confidence            554433

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

Probab=95.54  E-value=6  Score=45.30  Aligned_cols=177  Identities=14%  Similarity=0.181  Sum_probs=98.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHH-----
Q 011943          110 TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQS-----  184 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~-----  184 (474)
                      ++.+.+.-.+++......---....-+|+++......+-+++....+-+.++.....++..-+...-.-+.+|..     
T Consensus       405 l~q~l~~~~k~e~~e~~k~~~d~~~r~~~~~~~~~e~Lqk~~~~~k~ll~e~~t~gsA~ed~Qeqn~kL~~el~ekdd~n  484 (698)
T KOG0978|consen  405 LLQRLKALDKEERSEIRKQALDDAERQIRQVEELSEELQKKEKNFKCLLSEMETIGSAFEDMQEQNQKLLQELREKDDKN  484 (698)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            333344444444444442222333444455665666666666666666666666555555433222222222211     


Q ss_pred             ------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHH
Q 011943          185 ------------EKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQ  251 (474)
Q Consensus       185 ------------EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~s  251 (474)
                                  .+..+.++...|...+.++.+..+.+.++-+.|||+..-+++-... +.+|+ .++..+...+.....
T Consensus       485 fklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~-l~~el~~~~~~le~~kk~~~e  563 (698)
T KOG0978|consen  485 FKLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESK-LIKELTTLTQSLEMLKKKAQE  563 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhh-hHHHHHHHHHHHHHHHHHHHH
Confidence                        1111667777777778888888888878888777777777543332 33445 666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          252 LRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       252 Lq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      +......|+...+.......++..++.+....+..+
T Consensus       564 ~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~  599 (698)
T KOG0978|consen  564 AKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIE  599 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666555555433

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

Probab=95.47  E-value=0.0038  Score=71.68  Aligned_cols=101  Identities=22%  Similarity=0.342  Sum_probs=0.0

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--------h-hhhhhhhhhhhhhHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS--------D-ESKKHATSEQKDFSTQIEAA  307 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqt--------l-e~~~~~~~E~~dLksQiEal  307 (474)
                      .|...+..+..++..|..++..-.+....|...+..+...+..|...+.+        + +.++.+...+.++..+++++
T Consensus       261 ~L~~~l~~le~e~~~L~eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~~  340 (859)
T PF01576_consen  261 ALEKQLRQLEHELEQLREQLEEEEEAKSELERQLSKLNAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEEA  340 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555556666666666555555555555555555555555555442        3 23556666777777777777


Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhHhhhhhhh
Q 011943          308 GALIDKLITENIELVEKVNDLSVKLDRQSV  337 (474)
Q Consensus       308 ~d~RK~LwrEnakL~ekvneL~~~l~~~~~  337 (474)
                      ......|=+.-.+|...+.+|.+.|+..+.
T Consensus       341 ~~~~~~LeK~k~rL~~EleDl~~eLe~~~~  370 (859)
T PF01576_consen  341 NAKVSSLEKTKKRLQGELEDLTSELEKAQA  370 (859)
T ss_dssp             ------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777777777654443

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>PRK01156 chromosome segregation protein; Provisional

Probab=95.45  E-value=6.7  Score=45.20  Aligned_cols=26  Identities=27%  Similarity=0.491  Sum_probs=13.2

Q ss_pred             HHHHHHHHHH--------HHHHHHHHHHHHhhhh
Q 011943           75 EAERQHLLQR--------EAMAILEETVKHLRNE  100 (474)
Q Consensus        75 e~~~~~~~q~--------e~~~~~eeti~~l~~e  100 (474)
                      ..+|..||-+        .+|+-+.++++.++.+
T Consensus       148 ~~~r~~~ld~~~~~~~~~~~~~~~~~~~~~~~~e  181 (895)
T PRK01156        148 PAQRKKILDEILEINSLERNYDKLKDVIDMLRAE  181 (895)
T ss_pred             HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHH
Confidence            3466666643        2344445555555544

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=95.40  E-value=6.4  Score=44.70  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=17.8

Q ss_pred             HHHHHHHHhhhhhhhhh-hhHhhHH
Q 011943           89 ILEETVKHLRNERESHI-QKEATLE  112 (474)
Q Consensus        89 ~~eeti~~l~~e~d~~~-~~e~~~E  112 (474)
                      .++|.+.+|+..+++.+ |--++.+
T Consensus       108 ~yQerLaRLe~dkesL~LQvsvLte  132 (861)
T KOG1899|consen  108 EYQERLARLEMDKESLQLQVSVLTE  132 (861)
T ss_pred             HHHHHHHHHhcchhhheehHHHHHH
Confidence            57899999999999864 4444433

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

Probab=95.39  E-value=6.8  Score=44.93  Aligned_cols=24  Identities=42%  Similarity=0.583  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943           78 RQHLLQREAMAILEETVKHLRNERES  103 (474)
Q Consensus        78 ~~~~~q~e~~~~~eeti~~l~~e~d~  103 (474)
                      +.-|-||=|  .+|.-+.-+-.|.|.
T Consensus       404 ~~e~~QRva--~lEkKvqa~~kERDa  427 (961)
T KOG4673|consen  404 REEYHQRVA--TLEKKVQALTKERDA  427 (961)
T ss_pred             HHHHHHHHH--HHHHHHHHHHHhHHH
Confidence            344556655  555555545445443

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

Probab=95.37  E-value=5.1  Score=43.40  Aligned_cols=45  Identities=16%  Similarity=0.203  Sum_probs=30.0

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVS  278 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIs  278 (474)
                      +++ .++..|...+.+...+..+....+..+.-+..|.+++..++.
T Consensus       171 ~~l~~~~~~iaaeq~~l~~~~~eq~~q~~kl~~~~~E~kk~~~~l~  216 (420)
T COG4942         171 KQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLN  216 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555 666677777777776666666666666666666666666555

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.31  E-value=1.5  Score=45.47  Aligned_cols=114  Identities=20%  Similarity=0.256  Sum_probs=48.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHH----hhhhHHHHHHHHHHH
Q 011943          110 TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQ----REGGLEMNIANLQSE  185 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Q----kEa~LEe~IkqLq~E  185 (474)
                      +++.....|...+..++...+. +...+..+..=...+..+.+.+..++..|+....--..    --..+.++|+.+..+
T Consensus       141 llegLk~~L~~~~~~l~~D~~~-L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~e  219 (312)
T smart00787      141 LLEGLKEGLDENLEGLKEDYKL-LMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQE  219 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555333 22333555555555555555555555555443322111    111122333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q 011943          186 KEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL  224 (474)
Q Consensus       186 I~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF  224 (474)
                      +....++-..++.++..+.+.......+-..+.+.|+..
T Consensus       220 i~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~a  258 (312)
T smart00787      220 IMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEA  258 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444433333333333

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

>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=95.29  E-value=7.7  Score=45.01  Aligned_cols=97  Identities=16%  Similarity=0.144  Sum_probs=67.1

Q ss_pred             HHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          210 LNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDE  288 (474)
Q Consensus       210 L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle  288 (474)
                      |+..+..|+..-+++.   |.  +.=| .|+..+.+......-|+.+|..|...+..-...+.+...++..++.....+ 
T Consensus       303 ~~~~qt~l~~~~~~~~---d~--r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~-  376 (775)
T PF10174_consen  303 LEALQTRLETLEEQDS---DM--RQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRL-  376 (775)
T ss_pred             HHHHHHHHHHHHhhHH---HH--HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            3444554444444442   22  4556 777888888888888888888888888777777777777777777777766 


Q ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q 011943          289 SKKHATSEQKDFSTQIEAAGALIDKLITE  317 (474)
Q Consensus       289 ~~~~~~~E~~dLksQiEal~d~RK~LwrE  317 (474)
                           ..++.+|+..++........|.+.
T Consensus       377 -----~~Ei~~l~d~~d~~e~ki~~Lq~k  400 (775)
T PF10174_consen  377 -----QGEIEDLRDMLDKKERKINVLQKK  400 (775)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 667777777777777766666666

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 [].

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

Probab=95.27  E-value=4.1  Score=47.20  Aligned_cols=61  Identities=11%  Similarity=0.186  Sum_probs=30.8

Q ss_pred             Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          225 EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       225 KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      ..+|..-|+.|. .|+.++..+...+...+-.++..+..+..+.....-....++.|+.+|+
T Consensus       435 ~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarik  496 (1118)
T KOG1029|consen  435 LNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIK  496 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            344455556666 6666666666555555555555555555544443333333333333333

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

Probab=95.25  E-value=0.0049  Score=70.77  Aligned_cols=177  Identities=19%  Similarity=0.240  Sum_probs=0.0

Q ss_pred             HHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhhHHHHHHHhH
Q 011943          147 RMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQK-ISQLRDESAALNMKRASLEERLKLLE  225 (474)
Q Consensus       147 ~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~Leee-L~~L~~e~~~L~qKQ~~LEERisQFK  225 (474)
                      +......++..+..|++..+-.......++.+|..+..++..|..+....-.. +..+...+..|..+-.-+++.+...+
T Consensus       262 L~~~l~~le~e~~~L~eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~~~  341 (859)
T PF01576_consen  262 LEKQLRQLEHELEQLREQLEEEEEAKSELERQLSKLNAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEEAN  341 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555556666666555666666666667777777766665553332 44444444444444333344444443


Q ss_pred             hhhhhh------hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhh
Q 011943          226 ADKDSW------TQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQK  298 (474)
Q Consensus       226 aERDsW------LkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~  298 (474)
                      ...+.|      |..|+ .+...+...+..+..|......+...+..|......+....+.++.....+      ..++.
T Consensus       342 ~~~~~LeK~k~rL~~EleDl~~eLe~~~~~~~~LeKKqr~fDk~l~e~k~~~~~~~~e~d~~q~e~r~~------~te~~  415 (859)
T PF01576_consen  342 AKVSSLEKTKKRLQGELEDLTSELEKAQAAAAELEKKQRKFDKQLAEWKAKVEELQAERDAAQREAREL------ETELF  415 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHHH------HHHHH
Confidence            333333      33444 444444444443333333333333333333333333333333332222223      66777


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 011943          299 DFSTQIEAAGALIDKLITENIELVEKVNDLS  329 (474)
Q Consensus       299 dLksQiEal~d~RK~LwrEnakL~ekvneL~  329 (474)
                      .|+.+++++.+....|-+++..|...+.+|.
T Consensus       416 ~Lk~~lee~~e~~e~lere~k~L~~El~dl~  446 (859)
T PF01576_consen  416 KLKNELEELQEQLEELERENKQLQDELEDLT  446 (859)
T ss_dssp             -------------------------------
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHhhccch
Confidence            7777777777777777777777777666663

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>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=95.24  E-value=2  Score=40.04  Aligned_cols=102  Identities=24%  Similarity=0.307  Sum_probs=78.0

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHH
Q 011943          171 REGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDI  249 (474)
Q Consensus       171 kEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~  249 (474)
                      +.-....+|+..+++.+.+..+...|+..|..++..+..+..            .+|.   -+.|| +|+..++.+...+
T Consensus         4 K~l~v~~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~------------daEn---~k~eie~L~~el~~lt~el   68 (140)
T PF10473_consen    4 KFLHVEEKLKESESEKDSLEDHVESLERELEMSQENKECLIL------------DAEN---SKAEIETLEEELEELTSEL   68 (140)
T ss_pred             HHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHH------------HHHH---HHHHHHHHHHHHHHHHHHH
Confidence            344567788999999999999999999988888776653311            1111   24677 8888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          250 TQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       250 ~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ..|..+...+.+....|....+..+.+|++|.....++
T Consensus        69 ~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~  106 (140)
T PF10473_consen   69 NQLELELDTLRSEKENLDKELQKKQEKVSELESLNSSL  106 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            88888888888888888888888888888887777655

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

>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=95.16  E-value=2.7  Score=39.10  Aligned_cols=105  Identities=20%  Similarity=0.224  Sum_probs=44.4

Q ss_pred             HHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhc
Q 011943          158 IKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESV  237 (474)
Q Consensus       158 IkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIs  237 (474)
                      ++..+...++....-..++..|..++.....+.......+..+.+|..+...+..+-..|+..+.-+..+++.|.+.=-.
T Consensus        12 LK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~   91 (140)
T PF10473_consen   12 LKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQK   91 (140)
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333334333334444444444444444444444444443344444444444443322114


Q ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHH
Q 011943          238 SKETIAGLSVDITQLRMQVVELEES  262 (474)
Q Consensus       238 Lke~Issl~~~~~sLq~QV~~LEes  262 (474)
                      .+..|+.+..-+.++..-+..++..
T Consensus        92 ~q~kv~eLE~~~~~~~~~l~~~E~e  116 (140)
T PF10473_consen   92 KQEKVSELESLNSSLENLLQEKEQE  116 (140)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            4445555555555555544444444

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

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

Probab=95.16  E-value=3.5  Score=47.32  Aligned_cols=86  Identities=23%  Similarity=0.241  Sum_probs=55.8

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHH
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK  186 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI  186 (474)
                      +|+-+-..|..|+.++..+++.+.-...|. ..|...+..+.+....+|...+.|+++..-...++..+-.....|+.|+
T Consensus        28 ~E~~~~~~i~~l~~elk~~~~~~~~~~~e~-~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~K~rE~rll~dyselEeEN  106 (717)
T PF09730_consen   28 KEAYLQQRILELENELKQLRQELSNVQAEN-ERLSQLNQELRKECEDLELERKRLREEIKEYKFREARLLQDYSELEEEN  106 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            566677777888888888888776666666 6666666666666666777666666665555555555555555555554


Q ss_pred             HHHHHHH
Q 011943          187 EFWLQKE  193 (474)
Q Consensus       187 ~~llqKE  193 (474)
                      -++.+..
T Consensus       107 islQKqv  113 (717)
T PF09730_consen  107 ISLQKQV  113 (717)
T ss_pred             HHHHHHH
Confidence            4444433

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

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

Probab=95.13  E-value=0.3  Score=50.37  Aligned_cols=51  Identities=33%  Similarity=0.386  Sum_probs=34.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q 011943          174 GLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL  224 (474)
Q Consensus       174 ~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF  224 (474)
                      .....+..++.++..+.++|..+.++|..|+.+...+.+-...|+.....+
T Consensus        40 ~~~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l   90 (314)
T PF04111_consen   40 DSEEDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEEL   90 (314)
T ss_dssp             --HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566777778888888888888888888888877766666666665555

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.

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

Probab=95.13  E-value=0.16  Score=48.37  Aligned_cols=33  Identities=27%  Similarity=0.280  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          178 NIANLQSEKEFWLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       178 ~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      .+..|++|+..+.=.-..++.++..|+.++..|
T Consensus       145 ~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~L  177 (194)
T PF08614_consen  145 ANEILQDELQALQLQLNMLEEKLRKLEEENREL  177 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555444

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.

>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=94.88  E-value=2.8  Score=37.81  Aligned_cols=31  Identities=29%  Similarity=0.441  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          249 ITQLRMQVVELEESRNNLLQENRQLKENVSS  279 (474)
Q Consensus       249 ~~sLq~QV~~LEesl~sL~eEiq~LkeqIse  279 (474)
                      -..|..++..++.++..|..+|.-|-.+|..
T Consensus       100 k~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen  100 KEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3344555556666666666666666555543

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

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

Probab=94.86  E-value=7.7  Score=42.68  Aligned_cols=18  Identities=28%  Similarity=0.261  Sum_probs=10.7

Q ss_pred             CCccccchHHHHHHHHHH
Q 011943           66 NGAESANLAEAERQHLLQ   83 (474)
Q Consensus        66 ~~~~~~~~~e~~~~~~~q   83 (474)
                      .-++.-+..|.++...|.
T Consensus        45 ~~k~~l~~~E~~k~~~l~   62 (522)
T PF05701_consen   45 KLKEQLEAAEREKAQALS   62 (522)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334555666777666654

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

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

Probab=94.78  E-value=7.4  Score=42.17  Aligned_cols=77  Identities=18%  Similarity=0.220  Sum_probs=48.4

Q ss_pred             hhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHH
Q 011943           97 LRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLE  176 (474)
Q Consensus        97 l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LE  176 (474)
                      +..+....-+.-.-|++.|+.++.+|..+...|        .+...+.+..-+.++.++-.|..|+...   .+++..|.
T Consensus        50 ~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql--------~~s~~~l~~~~~~I~~~~~~l~~l~~q~---r~qr~~La  118 (420)
T COG4942          50 LEKKIREQQDQRAKLEKQLKSLETEIASLEAQL--------IETADDLKKLRKQIADLNARLNALEVQE---REQRRRLA  118 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHhHHHHHHhhHHHHHHHHHHHHHHH---HHHHHHHH
Confidence            333333344445556666777777776666664        6666777777777777777777777765   45555566


Q ss_pred             HHHHHHHH
Q 011943          177 MNIANLQS  184 (474)
Q Consensus       177 e~IkqLq~  184 (474)
                      ..|.-++.
T Consensus       119 ~~L~A~~r  126 (420)
T COG4942         119 EQLAALQR  126 (420)
T ss_pred             HHHHHHHh
Confidence            66555544

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

Probab=94.74  E-value=9.7  Score=45.20  Aligned_cols=46  Identities=9%  Similarity=0.195  Sum_probs=25.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 011943          244 GLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES  289 (474)
Q Consensus       244 sl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~  289 (474)
                      ........+..+...++....-....+...++.|..++..+++.+.
T Consensus       315 ~~~~~v~~~~~~le~lk~~~~~rq~~i~~~~k~i~~~q~el~~~~~  360 (1072)
T KOG0979|consen  315 EIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDAQAELQETED  360 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Confidence            3333444444444455555555666666666667777777765433

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.70  E-value=5.8  Score=40.57  Aligned_cols=67  Identities=18%  Similarity=0.185  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          137 IQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL  203 (474)
Q Consensus       137 ikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L  203 (474)
                      |..-+...+..-+.+..++-+|..|....+....+...+.+++.+++.+|..+.++-..+++.|...
T Consensus        33 i~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r   99 (265)
T COG3883          33 IQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVER   99 (265)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556666677777777777777777777777777777777777777777777777777777777654

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

Probab=94.69  E-value=0.0087  Score=67.16  Aligned_cols=66  Identities=20%  Similarity=0.269  Sum_probs=0.0

Q ss_pred             hhHHHHHHHhHhhhhhhhh--hh----h----chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          215 ASLEERLKLLEADKDSWTQ--ME----S----VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSL  280 (474)
Q Consensus       215 ~~LEERisQFKaERDsWLk--kE----I----sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL  280 (474)
                      +.|+=+...|+.++.+|..  +.    +    .+-..|..++.....|..+...+..++..+...++.|...+..+
T Consensus       308 ~~lq~e~~~Le~el~sW~sl~~~~~~~~~sPe~l~~~l~~lq~~~~~L~ek~g~~~~~~~~l~~~~~~Le~e~~~l  383 (722)
T PF05557_consen  308 AELQLENEKLEDELNSWESLLQDIGLEFDSPEDLARALVQLQQENASLTEKLGSLQSELRELEEEIQELEQEKEQL  383 (722)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            3344466777888999932  11    1    23334444444444444444444444444444444444433333

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

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

Probab=94.58  E-value=3  Score=47.80  Aligned_cols=25  Identities=12%  Similarity=0.139  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          256 VVELEESRNNLLQENRQLKENVSSL  280 (474)
Q Consensus       256 V~~LEesl~sL~eEiq~LkeqIseL  280 (474)
                      ....++-+...-++|..+..+|+.+
T Consensus       687 ~~~I~~iL~~~~~~I~~~v~~ik~i  711 (717)
T PF10168_consen  687 KRTIKEILKQQGEEIDELVKQIKNI  711 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444443

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

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain

Probab=94.54  E-value=1.9  Score=42.09  Aligned_cols=90  Identities=20%  Similarity=0.219  Sum_probs=54.2

Q ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 011943          242 IAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIEL  321 (474)
Q Consensus       242 Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL  321 (474)
                      |..++..|..|+.+=++|..-+-.|.-.-++-+.=-.+|+.= .-. .-.....++..+..++-++....+.|.++|..|
T Consensus        57 IR~LKe~NqkLqedNqELRdLCCFLDddRqKgrklarEWQrF-Gry-ta~vmr~eV~~Y~~KL~eLE~kq~~L~rEN~eL  134 (195)
T PF10226_consen   57 IRGLKEVNQKLQEDNQELRDLCCFLDDDRQKGRKLAREWQRF-GRY-TASVMRQEVAQYQQKLKELEDKQEELIRENLEL  134 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcccchhHHHhHHHhHHHHHh-hhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            344445555555555555555555544433333211123210 000 011225678888888999999999999999999


Q ss_pred             HhhhhhhhHhhhhhhh
Q 011943          322 VEKVNDLSVKLDRQSV  337 (474)
Q Consensus       322 ~ekvneL~~~l~~~~~  337 (474)
                      +|    ||+-||....
T Consensus       135 KE----lcl~LDeer~  146 (195)
T PF10226_consen  135 KE----LCLYLDEERP  146 (195)
T ss_pred             HH----HHHHHhcccc
Confidence            95    9999998883

Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.

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

Probab=94.48  E-value=0.76  Score=47.42  Aligned_cols=96  Identities=16%  Similarity=0.313  Sum_probs=63.5

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHH
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEK  186 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI  186 (474)
                      .+......+.+++.++..++++ +..+...++.|+.++..+.+....++...+.|.......-.....+.-++-+++.+.
T Consensus        37 ~~~~~~~~~~~~~~el~~le~E-e~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~  115 (314)
T PF04111_consen   37 EESDSEEDIEELEEELEKLEQE-EEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEER  115 (314)
T ss_dssp             -----HH--HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcCCcchHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4344566677888888888887 455556668888888888888888888888887776666666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 011943          187 EFWLQKEAALEQKISQL  203 (474)
Q Consensus       187 ~~llqKEa~LeeeL~~L  203 (474)
                      +++..+-.-+..+|..|
T Consensus       116 ~sl~~q~~~~~~~L~~L  132 (314)
T PF04111_consen  116 DSLKNQYEYASNQLDRL  132 (314)
T ss_dssp             HHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666555555555555

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.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=94.44  E-value=0.24  Score=42.05  Aligned_cols=54  Identities=22%  Similarity=0.246  Sum_probs=46.7

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ..| -|+..|..++..+..|..++..+......|..+|++|+..-..|+.++..+
T Consensus        18 dtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~L   72 (79)
T PRK15422         18 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445 677778888888889999999999999999999999999999999998876

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

Probab=94.35  E-value=9.2  Score=41.36  Aligned_cols=168  Identities=10%  Similarity=0.106  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          118 LQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALE  197 (474)
Q Consensus       118 LqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~Le  197 (474)
                      +...|..++-+|+....++ .+.+.+++..-+.....-.+-+..+.+.....++..+....+.++......+..+-..+-
T Consensus        79 i~~qlr~~rtel~~a~~~k-~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~  157 (499)
T COG4372          79 IRPQLRALRTELGTAQGEK-RAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLA  157 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555556656666 777777777766666666666667777777777777777778888887777888888888


Q ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHhHhhh-hhhhhhh-h-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          198 QKISQLRDESAALNMKRASLEERLKLLEADK-DSWTQME-S-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLK  274 (474)
Q Consensus       198 eeL~~L~~e~~~L~qKQ~~LEERisQFKaER-DsWLkkE-I-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~Lk  274 (474)
                      .+-.+|....++|+.-+.-|.--.+|++.++ |..+..+ | --...+....+...++.++...+....-.+..+|+++-
T Consensus       158 ~qr~ql~aq~qsl~a~~k~LQ~s~~Qlk~~~~~L~~r~~~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq~~q~i~qrd  237 (499)
T COG4372         158 EQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQIEQEAQNLATRANAAQARTEELARRAAAAQQTAQAIQQRD  237 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888887777777778885443 3323222 2 22334455566666677777777777777777777777


Q ss_pred             HHHHHHHhhhhh
Q 011943          275 ENVSSLRSQLSS  286 (474)
Q Consensus       275 eqIseL~~~iqt  286 (474)
                      .+|+.+..++..
T Consensus       238 ~~i~q~~q~iaa  249 (499)
T COG4372         238 AQISQKAQQIAA  249 (499)
T ss_pred             HHHHHHHHHHHh
Confidence            777666666553

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.35  E-value=0.27  Score=41.13  Aligned_cols=51  Identities=25%  Similarity=0.294  Sum_probs=44.7

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      -|...|..++..+.+|+.++..+...+..|..++++|+..-..|+.++.++
T Consensus        22 LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsL   72 (79)
T COG3074          22 LLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRAL   72 (79)
T ss_pred             HHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456667777788899999999999999999999999999999999998876

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=94.21  E-value=8.2  Score=40.26  Aligned_cols=126  Identities=17%  Similarity=0.238  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          194 AALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQL  273 (474)
Q Consensus       194 a~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~L  273 (474)
                      ..|.++++.|+.++..|...-..|-.....+... ...|-.  .-=..++.-+..+..|..++....++....-++|-+|
T Consensus       163 e~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~Eek-EqqLv~--dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~L  239 (306)
T PF04849_consen  163 EALQEKLKSLEEENEQLRSEASQLKTETDTYEEK-EQQLVL--DCVKQLSEANQQIASLSEELARKTEENRRQQEEITSL  239 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHH-HHHHHH--HHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666666665544333222222222110 111111  2234566777777888888888888888888888888


Q ss_pred             HHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          274 KENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       274 keqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      ..+|-.++.+.+.+      ..+.++|...+.+..+---.|-.+-..|.+|--|.
T Consensus       240 lsqivdlQ~r~k~~------~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~  288 (306)
T PF04849_consen  240 LSQIVDLQQRCKQL------AAENEELQQHLQASKESQRQLQAELQELQDKYAEC  288 (306)
T ss_pred             HHHHHHHHHHHHHH------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888877      78899999998888888888888888888765554

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

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

Probab=93.77  E-value=14  Score=41.52  Aligned_cols=24  Identities=25%  Similarity=0.462  Sum_probs=17.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHh
Q 011943          109 ATLEGTVQQLQNECDLYKEKVQAT  132 (474)
Q Consensus       109 ~~~Ee~IkqLqeEi~~lkqkLE~l  132 (474)
                      -.|+..|..|+.+.+.+.++|+.+
T Consensus        46 ~~Lkqq~eEleaeyd~~R~Eldqt   69 (772)
T KOG0999|consen   46 EDLKQQLEELEAEYDLARTELDQT   69 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346777888888888888887553

>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=93.63  E-value=11  Score=39.61  Aligned_cols=18  Identities=44%  Similarity=0.562  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHhhhhhhh
Q 011943          312 DKLITENIELVEKVNDLS  329 (474)
Q Consensus       312 K~LwrEnakL~ekvneL~  329 (474)
                      ..|.-||-.|.|+++.+.
T Consensus       192 DaLi~ENRyL~erl~q~q  209 (319)
T PF09789_consen  192 DALIMENRYLKERLKQLQ  209 (319)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344445555555444444

>PF15294 Leu_zip: Leucine zipper

Probab=93.37  E-value=7.7  Score=39.97  Aligned_cols=82  Identities=28%  Similarity=0.388  Sum_probs=64.4

Q ss_pred             hhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhh---------H
Q 011943           97 LRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQND---------L  167 (474)
Q Consensus        97 l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~---------s  167 (474)
                      |.-.++....  .++-+.|..|+.|+..++-.+        ..++.....++...+.++-.|++|+...+         .
T Consensus       118 L~pl~e~g~~--~ll~kEi~rLq~EN~kLk~rl--------~~le~~at~~l~Ek~kl~~~L~~lq~~~~~~~~k~~~~~  187 (278)
T PF15294_consen  118 LEPLNESGGS--ELLNKEIDRLQEENEKLKERL--------KSLEKQATSALDEKSKLEAQLKELQDEQGDQKGKKDLSF  187 (278)
T ss_pred             cccccccchH--HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccc
Confidence            6667776433  788899999999999888775        77888999999999999999999999333         3


Q ss_pred             HHHhhhhHHHHHHHHHHHHHH
Q 011943          168 HIQREGGLEMNIANLQSEKEF  188 (474)
Q Consensus       168 ~~QkEa~LEe~IkqLq~EI~~  188 (474)
                      ..|.-..|+.++..++.+...
T Consensus       188 ~~q~l~dLE~k~a~lK~e~ek  208 (278)
T PF15294_consen  188 KAQDLSDLENKMAALKSELEK  208 (278)
T ss_pred             cccchhhHHHHHHHHHHHHHH
Confidence            344445578888888777666

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

Probab=93.35  E-value=11  Score=38.70  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=11.3

Q ss_pred             hhhhhHhhhhhhhhhccccccc
Q 011943          325 VNDLSVKLDRQSVAAGLSSAIG  346 (474)
Q Consensus       325 vneL~~~l~~~~~~~~~ss~~~  346 (474)
                      +..+...++....-++.++-+.
T Consensus       262 l~~~~~~l~~~~i~AP~dG~V~  283 (423)
T TIGR01843       262 LNKARDRLQRLIIRSPVDGTVQ  283 (423)
T ss_pred             HHHHHHHHhhcEEECCCCcEEE
Confidence            3344334444445566666553

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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=93.29  E-value=2.4  Score=46.15  Aligned_cols=38  Identities=16%  Similarity=0.024  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          248 DITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       248 ~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      -...|.+....+++.+.+.++.|+.|++|+.++==.+.
T Consensus       415 w~~kl~~~~e~~~~~~~s~d~~I~dLqEQlrDlmf~le  452 (493)
T KOG0804|consen  415 WRGKLKELEEREKEALGSKDEKITDLQEQLRDLMFFLE  452 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHheehh
Confidence            33445555666666666777777777777776643333

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

Probab=93.28  E-value=23  Score=42.29  Aligned_cols=84  Identities=17%  Similarity=0.240  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHH-----HHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 011943           77 ERQHLLQREAM-----AILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKE  151 (474)
Q Consensus        77 ~~~~~~q~e~~-----~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQke  151 (474)
                      ....+++.+.+     -+.+|+|..|+.+.+..--....+++.++.+..++.....++..+..++ .++..+...+.+.+
T Consensus       616 k~~~f~~~~~~l~~~~~~~ee~~~~~~~~~~~~~~~~r~lee~~~k~~k~le~~~~~~~~~~~er-~~~~~~~~~~~~r~  694 (1072)
T KOG0979|consen  616 KSRNFFSVSPVLEELDNRIEEEIQKLKAEIDIRSSTLRELEEKKQKERKELEEEQKKLKLLKRER-TKLNSELKSYQQRK  694 (1072)
T ss_pred             hhhhhhccchHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhHHHHHHHHH
Confidence            34455555551     2445667777777777777777788888888888888888888888888 88888888888888


Q ss_pred             HhHHHHHHHH
Q 011943          152 ATLEETIKQL  161 (474)
Q Consensus       152 A~lE~kIkdL  161 (474)
                      +.+|-.+.+|
T Consensus       695 ~~ie~~~~~l  704 (1072)
T KOG0979|consen  695 ERIENLVVDL  704 (1072)
T ss_pred             HHHHHHHHHH
Confidence            8888765544

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=93.25  E-value=22  Score=42.91  Aligned_cols=43  Identities=9%  Similarity=-0.007  Sum_probs=23.6

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSS  279 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIse  279 (474)
                      .++..+.+...-..-++.+...+...+..++.+++.|++.++.
T Consensus       191 ~l~~~l~s~~~~~~L~~~q~dl~~~~~~~l~~~~~~Lq~~in~  233 (1109)
T PRK10929        191 ELELAQLSANNRQELARLRSELAKKRSQQLDAYLQALRNQLNS  233 (1109)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444555555666666666666666666664

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

Probab=93.20  E-value=13  Score=39.91  Aligned_cols=26  Identities=4%  Similarity=0.227  Sum_probs=14.9

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHh
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQAT  132 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~l  132 (474)
                      .-..++..+.+++.++.....++...
T Consensus       162 ~~~fl~~ql~~~~~~L~~ae~~l~~f  187 (498)
T TIGR03007       162 AQRFIDEQIKTYEKKLEAAENRLKAF  187 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666666655443

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.

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

Probab=93.13  E-value=0.097  Score=58.97  Aligned_cols=32  Identities=22%  Similarity=0.253  Sum_probs=17.3

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          296 EQKDFSTQIEAAGALIDKLITENIELVEKVND  327 (474)
Q Consensus       296 E~~dLksQiEal~d~RK~LwrEnakL~ekvne  327 (474)
                      .+..|+.++..+......|-++...|..++-.
T Consensus       504 ~~~~L~~~~~~Le~e~~~L~~~~~~Le~~l~~  535 (722)
T PF05557_consen  504 ELNELQKEIEELERENERLRQELEELESELEK  535 (722)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555566655555555555555544443

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=93.06  E-value=12  Score=38.65  Aligned_cols=120  Identities=20%  Similarity=0.230  Sum_probs=69.3

Q ss_pred             HHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHH
Q 011943           89 ILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLH  168 (474)
Q Consensus        89 ~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~  168 (474)
                      .+.--..+++.|..-.+..-.-||..|+.|+..+..++-.-.....+. ..-+.+.      .+.+..+|.+++...+-+
T Consensus        54 ~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~ee-e~kR~el------~~kFq~~L~dIq~~~ee~  126 (309)
T PF09728_consen   54 QLQKEKDQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREE-EEKRKEL------SEKFQATLKDIQAQMEEQ  126 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH------HHHHHHHHHHHHHHHHhc
Confidence            333344556777777788888999999999999998887643332222 2222222      234455566655555544


Q ss_pred             HHhhhhHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          169 IQREGGLEMNIAN----LQSEKEFWLQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       169 ~QkEa~LEe~Ikq----Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                      ......+-+.-..    |+.-++.+-.+|..+...+....-+...+.+|-.
T Consensus       127 ~~~~~k~~~eN~~L~eKlK~l~eQye~rE~~~~~~~k~keLE~Ql~~AKl~  177 (309)
T PF09728_consen  127 SERNIKLREENEELREKLKSLIEQYELREEHFEKLLKQKELEVQLAEAKLE  177 (309)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            4444333333222    3333444556666777777776666666655544

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

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

Probab=93.04  E-value=8.6  Score=44.61  Aligned_cols=189  Identities=20%  Similarity=0.223  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASL  217 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~L  217 (474)
                      .++=..+.+.+...+.++..|.+|....+--......|.. +..-.++|.............+....   ..-......|
T Consensus       519 ekeVh~C~DLLsgkadLE~fieE~s~tLdwIls~~~SLqD-v~s~~sEIK~~f~~~ss~e~E~~~~d---ea~~~~~~el  594 (769)
T PF05911_consen  519 EKEVHVCQDLLSGKADLERFIEEFSLTLDWILSNCFSLQD-VSSMRSEIKKNFDGDSSSEAEINSED---EADTSEKKEL  594 (769)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHccchHHH-HHHHHHHHHHhhhhcccccccccchH---HHHHHHHHHH
Confidence            4556778888889999999999999998888888877766 33333333332222111111111110   1122223344


Q ss_pred             HHHHHHhHhhhhhh------hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 011943          218 EERLKLLEADKDSW------TQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESK  290 (474)
Q Consensus       218 EERisQFKaERDsW------LkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~  290 (474)
                      ++++..++.++..+      ....+ .++..+...+..+..|+.+...++++....+.+++..++....+..++..+   
T Consensus       595 ~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~---  671 (769)
T PF05911_consen  595 EEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESYESLETRLKDL---  671 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH---
Confidence            45555555444433      12344 556666666666666666666666666666666666666666666666655   


Q ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhhhhh
Q 011943          291 KHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQS  336 (474)
Q Consensus       291 ~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l~~~~  336 (474)
                         ..++..|..++..|...-..=..--..+--|-.+|+-+|....
T Consensus       672 ---e~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~  714 (769)
T PF05911_consen  672 ---EAEAEELQSKISSLEEELEKERALSEELEAKCRELEEELERMK  714 (769)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhh
Confidence               4556666666665555544433334444445556665554433

The function of this family is unknown.

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=92.99  E-value=9  Score=36.83  Aligned_cols=100  Identities=14%  Similarity=0.223  Sum_probs=62.1

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhh-----HHHHhhhhHHHHHHH
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQND-----LHIQREGGLEMNIAN  181 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~-----s~~QkEa~LEe~Ikq  181 (474)
                      .+.+++..|+++++.+...+..+-...... .+++.+.+.+....+..+.....-=....     ...++...++..+..
T Consensus        24 P~~~l~q~ird~e~~l~~a~~~~a~~~a~~-~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~~~~  102 (221)
T PF04012_consen   24 PEKMLEQAIRDMEEQLRKARQALARVMANQ-KRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQAER  102 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence            348999999999999999999987777777 77777777777777777776655422221     122333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          182 LQSEKEFWLQKEAALEQKISQLRDES  207 (474)
Q Consensus       182 Lq~EI~~llqKEa~LeeeL~~L~~e~  207 (474)
                      |+..++........|+..|..+..+.
T Consensus       103 l~~~~~~~~~~~~~l~~~l~~l~~kl  128 (221)
T PF04012_consen  103 LEQQLDQAEAQVEKLKEQLEELEAKL  128 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55444444444444444444443333

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

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

Probab=92.92  E-value=7.3  Score=41.68  Aligned_cols=174  Identities=22%  Similarity=0.236  Sum_probs=96.8

Q ss_pred             HHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHh
Q 011943           92 ETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQR  171 (474)
Q Consensus        92 eti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Qk  171 (474)
                      .-|+.|..+.+.|+|--+-=......|+.+-..+++.++--.+++ +..              |..-++|    ++....
T Consensus       118 Kli~dLE~dRe~haqdaaeGDDlt~~LEKEReqL~QQiEFe~~e~-kK~--------------E~~k~Kl----~~qLee  178 (561)
T KOG1103|consen  118 KLIKDLEADREAHAQDAAEGDDLTAHLEKEREQLQQQIEFEIEEK-KKA--------------EIAKDKL----EMQLEE  178 (561)
T ss_pred             HHHHHHHHHHHHHhhhhhccchHHHHHHHHHHHHHHHHHHHHHHH-HHH--------------HHHHHHH----HHHHHH
Confidence            347778888888888777666666666666666666665544444 222              1111111    111122


Q ss_pred             hhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHH
Q 011943          172 EGGLEMNIAN-LQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDIT  250 (474)
Q Consensus       172 Ea~LEe~Ikq-Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~  250 (474)
                      +-..+++|.. |--|-...+.+.++...+-.++--++..-...-..+++   .+-+||.--|+.|.-....|+....+..
T Consensus       179 Ek~RHeqis~mLilEcKka~~KaaEegqKA~ei~Lklekdksr~~k~ee---e~aaERerglqteaqvek~i~EfdiEre  255 (561)
T KOG1103|consen  179 EKKRHEQISLMLILECKKALLKAAEEGQKAEEIMLKLEKDKSRTKKGEE---EAAAERERGLQTEAQVEKLIEEFDIERE  255 (561)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHhhccCccccCCChH---HHHHHHhhccchHHHHHHHHHHHHHHHH
Confidence            2222222221 11111112222233222222221111000000000111   1246777778888888888888888889


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          251 QLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       251 sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      -|+.+...++.+-.-+.+++.+|++.+..++-.++-+
T Consensus       256 ~LRAel~ree~r~K~lKeEmeSLkeiVkdlEA~hQh~  292 (561)
T KOG1103|consen  256 FLRAELEREEKRQKMLKEEMESLKEIVKDLEADHQHL  292 (561)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc
Confidence            9999999999999999999999999999888777744

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

Probab=92.75  E-value=18  Score=39.80  Aligned_cols=36  Identities=14%  Similarity=0.206  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHH
Q 011943          141 QRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLE  176 (474)
Q Consensus       141 e~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LE  176 (474)
                      +.++..|-......+.++..|+........-+..|.
T Consensus       210 ~~~~~~~~~~leeae~~l~~L~~e~~~~k~Le~kL~  245 (522)
T PF05701_consen  210 EQDAEEWEKELEEAEEELEELKEELEAAKDLESKLA  245 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555666677777777777755555555444

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

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

Probab=92.71  E-value=13  Score=42.80  Aligned_cols=29  Identities=21%  Similarity=0.431  Sum_probs=12.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 011943          133 LEETIQQLQRQNDLRMQKEATLEETIKQL  161 (474)
Q Consensus       133 leEkikQLe~E~~~~lQkeA~lE~kIkdL  161 (474)
                      ++.+++.|..+....++....++.+++.|
T Consensus       563 i~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l  591 (717)
T PF10168_consen  563 IQRRVKLLKQQKEQQLKELQELQEERKSL  591 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444

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

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=92.64  E-value=8.9  Score=35.93  Aligned_cols=106  Identities=18%  Similarity=0.163  Sum_probs=74.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHH
Q 011943          110 TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFW  189 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~l  189 (474)
                      .+.-++..++..+.....-=+.+-.-.+.||+-++..+..++..-...+..|+.......+.-...-+++.-+..++..+
T Consensus        17 ~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l   96 (177)
T PF13870_consen   17 TLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERL   96 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555544433555566779999999999999999999999999999998888888877777777777776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          190 LQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       190 lqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                      ...-......+..+..+.........
T Consensus        97 ~~~l~~~~~~~~~~r~~l~~~k~~r~  122 (177)
T PF13870_consen   97 KQELKDREEELAKLREELYRVKKERD  122 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666555544433333

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

Probab=92.48  E-value=5.6  Score=36.25  Aligned_cols=53  Identities=19%  Similarity=0.281  Sum_probs=24.3

Q ss_pred             HHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          151 EATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL  203 (474)
Q Consensus       151 eA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L  203 (474)
                      ...+..++..+...+......-..|.+++..++.++..+..++..+..++..+
T Consensus        54 ~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~  106 (151)
T PF11559_consen   54 REDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSL  106 (151)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444444444

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.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=92.40  E-value=23  Score=40.15  Aligned_cols=30  Identities=20%  Similarity=0.183  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDL  167 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s  167 (474)
                      .-|+.+...+-++....|..+..|+.++..
T Consensus       197 ~~L~~ql~~l~~~l~~aE~~l~~fk~~~~l  226 (754)
T TIGR01005       197 DFLAPEIADLSKQSRDAEAEVAAYRAQSDL  226 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            556666666777777777777777776554

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.

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

Probab=92.37  E-value=28  Score=41.05  Aligned_cols=128  Identities=20%  Similarity=0.163  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhh--hhhhh-chHHHHhhhHHHHHHHHHHH
Q 011943          180 ANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSW--TQMES-VSKETIAGLSVDITQLRMQV  256 (474)
Q Consensus       180 kqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsW--LkkEI-sLke~Issl~~~~~sLq~QV  256 (474)
                      ...+..+-.|.++-+.+++++.++..+-..|..|-+   .+..|+...+-+-  +.+++ .|...|..+......+...-
T Consensus       413 ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~---di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~~K~  489 (980)
T KOG0980|consen  413 EEAENKALAAENRYEKLKEKYTELRQEHADLLRKYD---DIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAETKT  489 (980)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            444445555888888888888888888887877776   3333442222221  22223 44444444444444433333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          257 VELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       257 ~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      .....-++++..|...|..++..++..+..+      .+.......+++.+...+..+..
T Consensus       490 e~~~~~le~l~~El~~l~~e~~~lq~~~~~~------~qs~~~~~~~l~~~l~~KD~~~~  543 (980)
T KOG0980|consen  490 ESQAKALESLRQELALLLIELEELQRTLSNL------AQSHNNQLAQLEDLLKQKDRLAA  543 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH------HHHHHHHHHHHHHHHHhhHHHHH
Confidence            4444444555555555555555555555444      44444444455555544444443

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

Probab=92.37  E-value=5.4  Score=45.83  Aligned_cols=49  Identities=16%  Similarity=0.255  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHH
Q 011943          254 MQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAG  308 (474)
Q Consensus       254 ~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~  308 (474)
                      .+.+..-++.+.|.++..+++.++..+.-.-..+      ...+.+|+.++++++
T Consensus       209 kermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl------~~d~E~Lr~e~~qL~  257 (916)
T KOG0249|consen  209 KERMAALEDKNRLEQELESVKKQLEEMRHDKDKL------RTDIEDLRGELDQLR  257 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------hhhHHHHHHHHHHHH
Confidence            3344444555556666666666665554444444      777888888888888

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

Probab=92.29  E-value=22  Score=39.52  Aligned_cols=132  Identities=14%  Similarity=0.196  Sum_probs=86.1

Q ss_pred             HHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh--Hhhhhhh
Q 011943          154 LEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLL--EADKDSW  231 (474)
Q Consensus       154 lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF--KaERDsW  231 (474)
                      +-..|+.|+.+-.....-...++.-.+.++.....|......|...+...+.+..+|..+..+|--.+..-  --+-=..
T Consensus       293 ~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~  372 (622)
T COG5185         293 ISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFEL  372 (622)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHH
Confidence            34455555555555555566666677777777777888888888888888888877777777665554433  1111122


Q ss_pred             hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          232 TQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       232 LkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      +..|- .|.+.+..++-+...|...|...+-...+.-.+...+..+.++|..+|.
T Consensus       373 mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~slek~~~~~~sl~~~i~  427 (622)
T COG5185         373 MNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNIT  427 (622)
T ss_pred             HHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            33444 6778888888888888888887766666666665555555555555444

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

Probab=92.26  E-value=34  Score=41.73  Aligned_cols=72  Identities=18%  Similarity=0.176  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH
Q 011943          116 QQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF  188 (474)
Q Consensus       116 kqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~  188 (474)
                      ..+.+.+....+. ....++.|++...+....-+.+++++....--+....+..|+-.+|+..+..|+..+..
T Consensus      1566 e~V~eaL~~Ad~A-q~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~q 1637 (1758)
T KOG0994|consen 1566 EDVVEALEEADVA-QGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQ 1637 (1758)
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344444444444 34456677777777777777777777777777777777777777777777777776665

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

Probab=91.96  E-value=34  Score=41.12  Aligned_cols=109  Identities=13%  Similarity=0.153  Sum_probs=62.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 011943           73 LAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEA  152 (474)
Q Consensus        73 ~~e~~~~~~~q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA  152 (474)
                      -+|-+-+.|-++--  -|.+-|+.|.. .-+   ...--+-.|.-|+..|..+...++.+. -.+.+++.+..-+.-...
T Consensus       649 wdek~~~~L~~~k~--rl~eel~ei~~-~~~---e~~~v~~~i~~le~~~~~~~~~~~~~k-~~l~~~~~El~~~~~~i~  721 (1141)
T KOG0018|consen  649 WDEKEVDQLKEKKE--RLLEELKEIQK-RRK---EVSSVESKIHGLEMRLKYSKLDLEQLK-RSLEQNELELQRTESEID  721 (1141)
T ss_pred             cCHHHHHHHHHHHH--HHHHHHHHHHH-hhh---hHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            45666666655544  56777777766 333   334445566777777777777766655 344555555554444444


Q ss_pred             hHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH
Q 011943          153 TLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF  188 (474)
Q Consensus       153 ~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~  188 (474)
                      .+--+|-.+....+........|+++++.+++.|=.
T Consensus       722 ~~~p~i~~i~r~l~~~e~~~~~L~~~~n~ved~if~  757 (1141)
T KOG0018|consen  722 EFGPEISEIKRKLQNREGEMKELEERMNKVEDRIFK  757 (1141)
T ss_pred             hhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555555566666666655533

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

Probab=91.93  E-value=29  Score=40.27  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=39.8

Q ss_pred             HHHHHHHHhhhhhhhhhhhHhh---HHHHHHHHHHHHHHHHH---HHHHhhHHHHHHHHHHHHHHHHH---HHhHHHHHH
Q 011943           89 ILEETVKHLRNERESHIQKEAT---LEGTVQQLQNECDLYKE---KVQATLEETIQQLQRQNDLRMQK---EATLEETIK  159 (474)
Q Consensus        89 ~~eeti~~l~~e~d~~~~~e~~---~Ee~IkqLqeEi~~lkq---kLE~lleEkikQLe~E~~~~lQk---eA~lE~kIk  159 (474)
                      +|.|+|.+|++|.|..+-.-..   |.....-|+.|+...+-   -+--.+.+++.+|..+.+.-+..   ...+..++.
T Consensus       459 ~L~e~IeKLk~E~d~e~S~A~~~~gLk~kL~~Lr~E~sKa~~~~~~~~~~L~eK~~kLk~Efnkkl~ea~n~p~lk~Kle  538 (762)
T PLN03229        459 ALNEMIEKLKKEIDLEYTEAVIAMGLQERLENLREEFSKANSQDQLMHPVLMEKIEKLKDEFNKRLSRAPNYLSLKYKLD  538 (762)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHhhhcccccHHHHHHHH
Confidence            6888899999888876543322   33344444444433210   01112455666777776665554   223444444


Q ss_pred             HHHhhh
Q 011943          160 QLRNQN  165 (474)
Q Consensus       160 dLq~~~  165 (474)
                      -|+...
T Consensus       539 ~Lk~~~  544 (762)
T PLN03229        539 MLNEFS  544 (762)
T ss_pred             HHHHHH
Confidence            444443

>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=91.80  E-value=7.4  Score=35.33  Aligned_cols=44  Identities=23%  Similarity=0.347  Sum_probs=21.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          244 GLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       244 sl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .....+..|+.++..|+.+...+.+=.=.--+.+.+|+..+..+
T Consensus        65 ~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~Dl  108 (120)
T PF12325_consen   65 ALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDL  108 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHH
Confidence            33344445555555555555554444444444444444444433

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 [].

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=91.73  E-value=18  Score=37.34  Aligned_cols=82  Identities=15%  Similarity=0.215  Sum_probs=39.8

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          127 EKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDE  206 (474)
Q Consensus       127 qkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e  206 (474)
                      +++++.++..+.|++..++++.-..-.+-.....++++++   ...+..-.++.+|+.+...+...-.++.+-|++|+..
T Consensus        44 rE~EaelesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e---~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQa  120 (333)
T KOG1853|consen   44 REIEAELESQLDQLETRNRDLETRNQRLTTEQERNKEKQE---DQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQA  120 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334444444455555555444333333333333333322   1223344455556666666555556666666666666


Q ss_pred             HHHHH
Q 011943          207 SAALN  211 (474)
Q Consensus       207 ~~~L~  211 (474)
                      ++.|.
T Consensus       121 NDdLE  125 (333)
T KOG1853|consen  121 NDDLE  125 (333)
T ss_pred             ccHHH
Confidence            66553

>PRK11281 hypothetical protein; Provisional

Probab=91.62  E-value=39  Score=41.01  Aligned_cols=48  Identities=15%  Similarity=0.161  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHh
Q 011943           84 REAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQAT  132 (474)
Q Consensus        84 ~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~l  132 (474)
                      +.+.+.++.|+..|. +.+.+-++-..+.+.+.+...++....+.++.+
T Consensus        59 k~~~~~l~~tL~~L~-qi~~~~~~~~~L~k~l~~Ap~~l~~a~~~Le~L  106 (1113)
T PRK11281         59 KLVQQDLEQTLALLD-KIDRQKEETEQLKQQLAQAPAKLRQAQAELEAL  106 (1113)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            444556677766654 344455555566677777777777776666543

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

Probab=91.50  E-value=3.3  Score=34.46  Aligned_cols=67  Identities=19%  Similarity=0.310  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          135 ETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKIS  201 (474)
Q Consensus       135 EkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~  201 (474)
                      +-+.+|+.....++-.++.++.++.+|+.++....+....|..+..+|+.+...|..+-..+=.+|+
T Consensus         4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~kl~   70 (72)
T PF06005_consen    4 ELLEQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLGKLE   70 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4467788888888888899999999999888888877777777777777777666665555444443

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

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

Probab=91.38  E-value=27  Score=38.80  Aligned_cols=83  Identities=14%  Similarity=0.215  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWL  190 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~ll  190 (474)
                      +++.|.++++++......|+.+-.+.          .-.....+...|..|-+..+.-...+...+..+..+..-+....
T Consensus       250 i~~~i~~i~~~l~~~~~~L~~l~l~~----------~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~  319 (560)
T PF06160_consen  250 IEEEIEQIEEQLEEALALLKNLELDE----------VEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAK  319 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            44555555555555555543333222          22333344455555555555555555555555555555444444


Q ss_pred             HHHHHHHHHHHHH
Q 011943          191 QKEAALEQKISQL  203 (474)
Q Consensus       191 qKEa~LeeeL~~L  203 (474)
                      ..-..+..++..+
T Consensus       320 ~~~~~l~~e~~~v  332 (560)
T PF06160_consen  320 EQNKELKEELERV  332 (560)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444444

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

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=91.35  E-value=29  Score=39.03  Aligned_cols=23  Identities=9%  Similarity=-0.009  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 011943          179 IANLQSEKEFWLQKEAALEQKIS  201 (474)
Q Consensus       179 IkqLq~EI~~llqKEa~LeeeL~  201 (474)
                      ..+|+.++..+..+-...+.++.
T Consensus       264 r~~Le~ei~~le~e~~e~~~~l~  286 (650)
T TIGR03185       264 REQLERQLKEIEAARKANRAQLR  286 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444443

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

>COG4717 Uncharacterized conserved protein [Function unknown]

Probab=91.35  E-value=36  Score=40.21  Aligned_cols=231  Identities=20%  Similarity=0.190  Sum_probs=114.4

Q ss_pred             HHHHHH-HHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHH--HHHhhHHHHHHHHHHHHHHHHHHHhH
Q 011943           78 RQHLLQ-REAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK--VQATLEETIQQLQRQNDLRMQKEATL  154 (474)
Q Consensus        78 ~~~~~q-~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqk--LE~lleEkikQLe~E~~~~lQkeA~l  154 (474)
                      ||+|.| |-+|++++.-+..|...   .-+-|+--..-+.++++=++++=-+  +.--....|-.+=.+....+|+++.+
T Consensus       556 rq~~~~~r~~ld~leaa~e~lE~r---~~~~e~~~~e~~se~e~~l~~l~l~~el~~~~~~d~ls~mkd~~~~~q~~~EL  632 (984)
T COG4717         556 RQHWQQLRKALDQLEAAYEALEGR---FAAAEAAMAEWQSEWEEALDELGLSRELSPEQQLDILSTMKDLKKLMQKKAEL  632 (984)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhhhhHHHHHHHHHHHhccCCccCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            667764 78899999888887654   2222333333333333333332111  11111222233344566667777777


Q ss_pred             HHHHHHHHhhhhHHHHhhhhHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHh
Q 011943          155 EETIKQLRNQNDLHIQREGGLEMNIAN-----------------LQSEKEFWLQKEAALEQKIS----QLRDESAALNMK  213 (474)
Q Consensus       155 E~kIkdLq~~~~s~~QkEa~LEe~Ikq-----------------Lq~EI~~llqKEa~LeeeL~----~L~~e~~~L~qK  213 (474)
                      ...+..|.....+...+-+.+-.-+..                 ....++.|...-..+....+    .|.++...+   
T Consensus       633 ~~q~~~L~ee~~af~~~v~~l~~~~e~~~~~ls~~~~~~r~~~~~e~~~Ee~r~~le~~~~~t~El~~~L~ae~~~~---  709 (984)
T COG4717         633 THQVARLREEQAAFEERVEGLLAVLEAQFIDLSTLFCVQRLRVAAELQKEEARLALEGNIERTKELNDELRAELELH---  709 (984)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhcccchhHHHHHHHHHHHHHHHhhHHHHHHHhhhHHHHHHHHHHHHHHHHHH---
Confidence            777777776666655555544333321                 11111112221111222222    333333322   


Q ss_pred             hhhHHHHHHHh-----Hhhhhhhhh--hhh-chHHHHhhhHHHHHHH--------------------HHHHHHHHHHHHH
Q 011943          214 RASLEERLKLL-----EADKDSWTQ--MES-VSKETIAGLSVDITQL--------------------RMQVVELEESRNN  265 (474)
Q Consensus       214 Q~~LEERisQF-----KaERDsWLk--kEI-sLke~Issl~~~~~sL--------------------q~QV~~LEesl~s  265 (474)
                          ..++..|     -.++|.+..  .+- .++...+.+......|                    ..+...+++.+..
T Consensus       710 ----~kei~dLfd~~~~~~ed~F~e~A~~~qq~~q~~srl~~~~aql~~v~~~~~eL~~~~~~~~~~e~E~~~lEe~~d~  785 (984)
T COG4717         710 ----RKEILDLFDCGTADTEDAFREAAREEQQLTQRESRLESLEAQLEGVAAEAYELSASLDQRELKEEELALLEEAIDA  785 (984)
T ss_pred             ----HHHHHHHHhhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhHHhhhhhhhhhhhhHHHHHHHHHHHH
Confidence                1233443     233343311  111 2222222222222222                    2566677788888


Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          266 LLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELV  322 (474)
Q Consensus       266 L~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~  322 (474)
                      +.+++..+..++..+..++..+|..    ..++.|+.+++-+-...+.--++=++|+
T Consensus       786 ~~ee~~el~a~v~~~~~qi~~lE~g----~~~a~lr~~~~slk~~l~e~ar~Wasl~  838 (984)
T COG4717         786 LDEEVEELHAQVAALSRQIAQLEGG----GTVAELRQRRESLKEDLEEKARKWASLR  838 (984)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcC----ChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8889899999999888888888442    3455666666655555555555544444

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

Probab=91.24  E-value=34  Score=39.73  Aligned_cols=78  Identities=26%  Similarity=0.322  Sum_probs=49.0

Q ss_pred             hHHHHHHHHHHHHHHHH----HHHHHhhHHHHHHHHHHHHHHHH---HHHhHHHHHHHHHhhhhHHHHhhh-----hHHH
Q 011943          110 TLEGTVQQLQNECDLYK----EKVQATLEETIQQLQRQNDLRMQ---KEATLEETIKQLRNQNDLHIQREG-----GLEM  177 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lk----qkLE~lleEkikQLe~E~~~~lQ---keA~lE~kIkdLq~~~~s~~QkEa-----~LEe  177 (474)
                      =|+..+..|+.+|-..+    +=++-.+.++|++|..+.+.-+-   +-..++.++.-|+.++.-.. ...     .|-+
T Consensus       433 ~Le~elekLk~eilKAk~s~~~~~~~~L~e~IeKLk~E~d~e~S~A~~~~gLk~kL~~Lr~E~sKa~-~~~~~~~~~L~e  511 (762)
T PLN03229        433 ELEGEVEKLKEQILKAKESSSKPSELALNEMIEKLKKEIDLEYTEAVIAMGLQERLENLREEFSKAN-SQDQLMHPVLME  511 (762)
T ss_pred             cHHHHHHHHHHHHHhcccccCCCCChHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcc-cccccccHHHHH
Confidence            36677777777776665    44555677888888888876543   34456667777775443321 000     1556


Q ss_pred             HHHHHHHHHHH
Q 011943          178 NIANLQSEKEF  188 (474)
Q Consensus       178 ~IkqLq~EI~~  188 (474)
                      ++..|+.|+..
T Consensus       512 K~~kLk~Efnk  522 (762)
T PLN03229        512 KIEKLKDEFNK  522 (762)
T ss_pred             HHHHHHHHHHH
Confidence            67777777777

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=91.02  E-value=14  Score=41.77  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=10.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHH
Q 011943          109 ATLEGTVQQLQNECDLYKEKVQA  131 (474)
Q Consensus       109 ~~~Ee~IkqLqeEi~~lkqkLE~  131 (474)
                      ..++..+..|+.++.....+++.
T Consensus       197 ~~L~~ql~~l~~~l~~aE~~l~~  219 (754)
T TIGR01005       197 DFLAPEIADLSKQSRDAEAEVAA  219 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555444444444433

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.

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=90.98  E-value=5.7  Score=39.66  Aligned_cols=61  Identities=20%  Similarity=0.226  Sum_probs=32.6

Q ss_pred             HHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          220 RLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSL  280 (474)
Q Consensus       220 RisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL  280 (474)
                      .+..+..+++.++..-...-+.|...+.++..|..-++.++.+.+.....++.+.+.+.-|
T Consensus        33 ~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~L   93 (230)
T PF10146_consen   33 CLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPL   93 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555555444455555555555666666666655555555555555554444433

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

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

Probab=90.91  E-value=30  Score=38.47  Aligned_cols=248  Identities=15%  Similarity=0.221  Sum_probs=123.8

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHH----------hhHHHHHHHHHHHHHHHHH----
Q 011943           85 EAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQA----------TLEETIQQLQRQNDLRMQK----  150 (474)
Q Consensus        85 e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~----------lleEkikQLe~E~~~~lQk----  150 (474)
                      +.++-.++.|+.+.++.+-.+..|.--...|.+|.+....+++.+-.          .++..+..++.++..+-.-    
T Consensus       108 ~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~G  187 (560)
T PF06160_consen  108 EQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSEFEELTENG  187 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence            33555666777777777777777777777777777776666666432          1223333333333222111    


Q ss_pred             --------HHhHHHHHHHHHhhhhHHHHh----hhhHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHH
Q 011943          151 --------EATLEETIKQLRNQNDLHIQR----EGGLEMNIANLQSEKEF------------WLQKEAALEQKISQLRDE  206 (474)
Q Consensus       151 --------eA~lE~kIkdLq~~~~s~~Qk----Ea~LEe~IkqLq~EI~~------------llqKEa~LeeeL~~L~~e  206 (474)
                              ...++..+..|+...+.--.-    ...+-.+|..|+..+..            ...+-..++.++..+...
T Consensus       188 D~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~~m~~~gy~l~~~~i~~~i~~i~~~l~~~~~~  267 (560)
T PF06160_consen  188 DYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYREMEEEGYYLEHLDIEEEIEQIEEQLEEALAL  267 (560)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence                    112222222222222211111    11223333444444433            333334444444444333


Q ss_pred             HHHHHHhh-----hhHHHHHHHh----Hhhhhh--hhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHH---HHHHHHH
Q 011943          207 SAALNMKR-----ASLEERLKLL----EADKDS--WTQMES-VSKETIAGLSVDITQLRMQVVELEESRN---NLLQENR  271 (474)
Q Consensus       207 ~~~L~qKQ-----~~LEERisQF----KaERDs--WLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~---sL~eEiq  271 (474)
                      ...|....     ..+.++|.+|    ..|-++  .+.+.. .+...|......+..|..++.++..+..   +......
T Consensus       268 L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~  347 (560)
T PF06160_consen  268 LKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVR  347 (560)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHH
Confidence            33322222     2344455555    222221  134444 6677777777777778777777776653   2233344


Q ss_pred             HHHHHHHHHHhhhhhh---------------hhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh
Q 011943          272 QLKENVSSLRSQLSSD---------------ESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKL  332 (474)
Q Consensus       272 ~LkeqIseL~~~iqtl---------------e~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l  332 (474)
                      .+..++..+..++..+               +.-..+...+..+..+..++......|..++..-.+++..|..+|
T Consensus       348 ~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l  423 (560)
T PF06160_consen  348 ELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKL  423 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444321               112333455666666677777777778888877777777776555

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

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

Probab=90.73  E-value=35  Score=38.86  Aligned_cols=43  Identities=19%  Similarity=0.277  Sum_probs=26.3

Q ss_pred             ccchhhhhccccccccccCccCCCC---------CcCCCchhHhHHHHhhcccc
Q 011943          421 EVQDLELQVVESYTDKVAAVPLTDA---------PLIGAPFRLVSFVAKYVSGA  465 (474)
Q Consensus       421 ~~~~~~~q~~~~~~d~~~~vp~~da---------p~igapfrlisfva~yvsga  465 (474)
                      +--|+++|.+..|++...  ||.-.         -..|+-||+..-.+||+.|-
T Consensus       541 ~~~d~e~~y~~~yee~l~--p~a~f~k~e~~~k~~~l~~~~~~~~s~~r~~l~n  592 (629)
T KOG0963|consen  541 ESSDVESQYSAAYEESIS--PFASFRKKERERKYKRLGSFERITLSLGRTLLFN  592 (629)
T ss_pred             CCcchhhhhhhHHHhhcC--HHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            445667777777666432  33221         23567778888888887763

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

Probab=90.67  E-value=39  Score=39.41  Aligned_cols=85  Identities=18%  Similarity=0.199  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh--Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLL--EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNN  265 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF--KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~s  265 (474)
                      +..+-..+..+|..+..++..|..   .|.+|-.-+  -.+.-+-.-.|+ .|..++.+...+|.+|+.++-.+.+++.-
T Consensus        90 le~~l~e~~~~l~~~~~e~~~l~~---~l~~~~~~i~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~kelei  166 (769)
T PF05911_consen   90 LEAKLAELSKRLAESAAENSALSK---ALQEKEKLIAELSEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLSKELEI  166 (769)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHH---HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555555554421   122232222  222333445677 88888999999999999999888888876


Q ss_pred             HHHHHHHHHHH
Q 011943          266 LLQENRQLKEN  276 (474)
Q Consensus       266 L~eEiq~Lkeq  276 (474)
                      ...|-.--+..
T Consensus       167 r~~E~~~~~~~  177 (769)
T PF05911_consen  167 RNEEREYSRRA  177 (769)
T ss_pred             HHHHHHHhHHH
Confidence            66554433333

The function of this family is unknown.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=90.67  E-value=9.6  Score=41.76  Aligned_cols=19  Identities=26%  Similarity=0.230  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHhHHH
Q 011943          138 QQLQRQNDLRMQKEATLEE  156 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~  156 (474)
                      .||+..+..+.+....++-
T Consensus       328 sqleSqr~y~e~~~~e~~q  346 (493)
T KOG0804|consen  328 SQLESQRKYYEQIMSEYEQ  346 (493)
T ss_pred             hhhhHHHHHHHHHHHHHHH
Confidence            5677777777766555554

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

Probab=90.63  E-value=2.1  Score=35.61  Aligned_cols=33  Identities=21%  Similarity=0.289  Sum_probs=15.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          245 LSVDITQLRMQVVELEESRNNLLQENRQLKENV  277 (474)
Q Consensus       245 l~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqI  277 (474)
                      +...+..|..+...|+...+.|...+..|..++
T Consensus        37 L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~kl   69 (72)
T PF06005_consen   37 LKEENEELKEENEQLKQERNAWQERLRSLLGKL   69 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            334444444444444455555555555554443

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

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

Probab=90.57  E-value=40  Score=39.38  Aligned_cols=21  Identities=19%  Similarity=0.302  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQA  131 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~  131 (474)
                      +...+..+...+..+....+.
T Consensus       230 l~~e~e~l~~~~~el~~~~~~  250 (908)
T COG0419         230 LEQEIEALEERLAELEEEKER  250 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555444433

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

Probab=90.53  E-value=19  Score=35.56  Aligned_cols=224  Identities=14%  Similarity=0.189  Sum_probs=122.1

Q ss_pred             HHHHHHHHHHhhhhhhhh-hhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhh
Q 011943           87 MAILEETVKHLRNERESH-IQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQN  165 (474)
Q Consensus        87 ~~~~eeti~~l~~e~d~~-~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~  165 (474)
                      ++.+.+++..|.....-. -++....+..++.+.+.+..+...|+.-...+     .+....+|.  .++..|..+.+..
T Consensus         7 L~~i~e~~~~f~~~le~e~~~Rr~~ee~r~~~i~e~i~~Le~~l~~E~k~R-----~E~~~~lq~--~~e~~i~~~~~~v   79 (247)
T PF06705_consen    7 LASINERFSGFESDLENEKRQRREQEEQRFQDIKEQIQKLEKALEAEVKRR-----VESNKKLQS--KFEEQINNMQERV   79 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH--HHHHHHHHHHHHH
Confidence            445666666665554333 34555666677777777777776655433333     222222222  4555555555554


Q ss_pred             hHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhhHHHHHHHh----HhhhhhhhhhhhchHH
Q 011943          166 DLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESA-ALNMKRASLEERLKLL----EADKDSWTQMESVSKE  240 (474)
Q Consensus       166 ~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~-~L~qKQ~~LEERisQF----KaERDsWLkkEIsLke  240 (474)
                      ...      +.....+++.-++.+..+-..+...|..-...+. .+.....+|...+..|    ..||..|..+|-.+-.
T Consensus        80 ~~~------~~~~~~~~~~~l~~L~~ri~~L~~~i~ee~~~r~~~ie~~~~~l~~~l~~l~~~~~~Er~~R~erE~~i~k  153 (247)
T PF06705_consen   80 ENQ------ISEKQEQLQSRLDSLNDRIEALEEEIQEEKEERPQDIEELNQELVRELNELQEAFENERNEREEREENILK  153 (247)
T ss_pred             HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            332      2223333333344444444444443333333332 2333344455566655    8899999999985555


Q ss_pred             HHhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 011943          241 TIAGLS-VDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENI  319 (474)
Q Consensus       241 ~Issl~-~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEna  319 (474)
                      .+.... .....+..+....+..+..+..++..+..........++.+     ...|++.++.-+......|   -..+.
T Consensus       154 rl~e~~~~l~~~i~~Ek~~Re~~~~~l~~~le~~~~~~~~~~e~f~~~-----v~~Ei~~lk~~l~~e~~~R---~~~Dd  225 (247)
T PF06705_consen  154 RLEEEENRLQEKIEKEKNTRESKLSELRSELEEVKRRREKGDEQFQNF-----VLEEIAALKNALALESQER---EQSDD  225 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH-----HHHHHHHHHHHHHHHHHHH---Hhhhh
Confidence            554333 33345556666667777777777777776666666666653     1345555554444444444   45677


Q ss_pred             HHHhhhhhhhHh
Q 011943          320 ELVEKVNDLSVK  331 (474)
Q Consensus       320 kL~ekvneL~~~  331 (474)
                      ..|.-+|...-.
T Consensus       226 ~Iv~aln~yt~~  237 (247)
T PF06705_consen  226 DIVQALNHYTKA  237 (247)
T ss_pred             HHHHHHHHHHHH
Confidence            778777776533

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=90.28  E-value=19  Score=35.09  Aligned_cols=88  Identities=23%  Similarity=0.247  Sum_probs=50.6

Q ss_pred             HHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhh
Q 011943           93 TVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQRE  172 (474)
Q Consensus        93 ti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkE  172 (474)
                      .|+.|+++..-       +...+..|..|+..+++- ..-..-.|...+....++-|-++.....|+-|+....-.....
T Consensus        13 ki~~L~n~l~e-------lq~~l~~l~~ENk~Lk~l-q~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~   84 (194)
T PF15619_consen   13 KIKELQNELAE-------LQRKLQELRKENKTLKQL-QKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQE   84 (194)
T ss_pred             HHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555432       233445555555555443 3334444556666667777777777777777777766666666


Q ss_pred             hhHHHHHHHHHHHHHH
Q 011943          173 GGLEMNIANLQSEKEF  188 (474)
Q Consensus       173 a~LEe~IkqLq~EI~~  188 (474)
                      -.++.+|+....++-.
T Consensus        85 r~~~~klk~~~~el~k  100 (194)
T PF15619_consen   85 RELERKLKDKDEELLK  100 (194)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666665555555443

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

Probab=90.14  E-value=21  Score=35.53  Aligned_cols=52  Identities=19%  Similarity=0.247  Sum_probs=38.7

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      .++ ++...+......+..+...+..|+..+..|...|.+++.+...+.-+..
T Consensus        92 ~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~  144 (225)
T COG1842          92 EEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKA  144 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444 7777777777778888888888888888888888777777776665555

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

Probab=90.03  E-value=4.1  Score=33.87  Aligned_cols=65  Identities=23%  Similarity=0.238  Sum_probs=52.2

Q ss_pred             HHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          146 LRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       146 ~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      ++.++++.....|+.|..+......++..+..+|+.|+..+......-..+..++..+..+...|
T Consensus         2 sl~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l   66 (74)
T PF12329_consen    2 SLEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESL   66 (74)
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35667788888999999999999999999999998888888887777777777777776666544

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

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

Probab=89.98  E-value=20  Score=37.27  Aligned_cols=77  Identities=19%  Similarity=0.262  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          119 QNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQ  198 (474)
Q Consensus       119 qeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~Lee  198 (474)
                      .+++.+...+..-.+..- .||++++..++..+-.+..+|.++++.              +.+++.++......-..++.
T Consensus        83 k~~l~evEekyrkAMv~n-aQLDNek~~l~yqvd~Lkd~lee~eE~--------------~~~~~re~~eK~~elEr~K~  147 (302)
T PF09738_consen   83 KDSLAEVEEKYRKAMVSN-AQLDNEKSALMYQVDLLKDKLEELEET--------------LAQLQREYREKIRELERQKR  147 (302)
T ss_pred             HHHHHHHHHHHHHHHHHH-hhhchHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555556 889999999988888888877776554              55555555544444455555


Q ss_pred             HHHHHHHHHHHH
Q 011943          199 KISQLRDESAAL  210 (474)
Q Consensus       199 eL~~L~~e~~~L  210 (474)
                      .+..|+.++..|
T Consensus       148 ~~d~L~~e~~~L  159 (302)
T PF09738_consen  148 AHDSLREELDEL  159 (302)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

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

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

Probab=89.95  E-value=8.4  Score=34.63  Aligned_cols=65  Identities=18%  Similarity=0.234  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          144 NDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       144 ~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~  208 (474)
                      +..+--..+.++..|...+..++-....+..|...+.+|+....+..+.-+.+..+|..+.....
T Consensus        11 ~~el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le   75 (107)
T PF09304_consen   11 QNELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLE   75 (107)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444445555555555555555555555555555544443

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

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

Probab=89.88  E-value=39  Score=38.14  Aligned_cols=108  Identities=16%  Similarity=0.197  Sum_probs=49.0

Q ss_pred             hhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHH
Q 011943          104 HIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ  183 (474)
Q Consensus       104 ~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq  183 (474)
                      .=+++..+++..+.|+.-+..++--+        .++..-...+.++++.+...|..-.++++...+....|...|..=.
T Consensus       257 ~~~~~eslre~~~~L~~D~nK~~~y~--------~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~  328 (581)
T KOG0995|consen  257 DPGKEESLREKKARLQDDVNKFQAYV--------SQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQG  328 (581)
T ss_pred             CcchHHHHHHHHHHHHhHHHHHHHHH--------HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            34556666666666666555555554        3333344444444444444444444443333333333322221100


Q ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Q 011943          184 ---SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEE  219 (474)
Q Consensus       184 ---~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEE  219 (474)
                         .+...-...-..+.+.|..++.+.+.|.++-..++=
T Consensus       329 iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l  367 (581)
T KOG0995|consen  329 ISGEDVERMNLERNKLKRELNKIQSELDRLSKEVWELKL  367 (581)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence               001113344445556666666666666555444433

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

Probab=89.59  E-value=27  Score=35.82  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhh
Q 011943          263 RNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       263 l~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      +..+..++..++..+..++..+.
T Consensus       248 l~~~~~~l~~~~~~l~~~~~~l~  270 (423)
T TIGR01843       248 LTEAQARLAELRERLNKARDRLQ  270 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444444444433

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.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=89.52  E-value=58  Score=39.59  Aligned_cols=47  Identities=9%  Similarity=0.275  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHH
Q 011943           83 QREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQ  130 (474)
Q Consensus        83 q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE  130 (474)
                      |+++.+.++.|+.-|.+= +-.-++-.-+.+.|.+.-.++..+.++++
T Consensus        43 ~k~~~~~l~~tl~~l~~~-~~~~~~~~~~~~~i~~ap~~~~~~~~~l~   89 (1109)
T PRK10929         43 QAEIVEALQSALNWLEER-KGSLERAKQYQQVIDNFPKLSAELRQQLN   89 (1109)
T ss_pred             hHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            566677777777766543 33335555666666666666666666655

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.47  E-value=5.1  Score=33.75  Aligned_cols=67  Identities=15%  Similarity=0.249  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          137 IQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQL  203 (474)
Q Consensus       137 ikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L  203 (474)
                      +.+|+......+-.++-+.+.|.+|++++.+..|....+......|+.++.++.++-..-.++|+.|
T Consensus         6 ~ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsL   72 (79)
T COG3074           6 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566667777777788888888888888877766666666666666666666665555555555544

>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=89.43  E-value=15  Score=36.33  Aligned_cols=40  Identities=18%  Similarity=0.223  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhhhhhhhhccccc
Q 011943          302 TQIEAAGALIDKLITENIELVEKVNDLSVKLDRQSVAAGLSSA  344 (474)
Q Consensus       302 sQiEal~d~RK~LwrEnakL~ekvneL~~~l~~~~~~~~~ss~  344 (474)
                      .+...+..++..+=+-+..+.||..-+   +.--..+...++.
T Consensus       128 eR~~Rl~~L~~~l~~~dv~~~ek~r~v---lea~~~E~~yg~~  167 (251)
T PF11932_consen  128 ERQERLARLRAMLDDADVSLAEKFRRV---LEAYQIEMEYGRT  167 (251)
T ss_pred             HHHHHHHHHHHhhhccCCCHHHHHHHH---HHHHHHHHHhCCc
Confidence            345566666666666677777766655   2333444444443

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.

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=89.18  E-value=24  Score=34.83  Aligned_cols=70  Identities=20%  Similarity=0.257  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          134 EETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDE  206 (474)
Q Consensus       134 eEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e  206 (474)
                      ..++..+...+.....-+..+|.+|.++=..   ..+........|..+..+.+.+..--..++..+..|+..
T Consensus        29 ~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e---~~~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~r   98 (207)
T PF05010_consen   29 KKKYEELHKENQEMRKIMEEYEKTIAQMIEE---KQKQKELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKR   98 (207)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH---HHhhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHH
Confidence            3344666677777778888888888886655   333344556667777777777777766777666655443

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=88.91  E-value=26  Score=34.75  Aligned_cols=95  Identities=17%  Similarity=0.248  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHH---
Q 011943          112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF---  188 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~---  188 (474)
                      +..-.++++.+..+..+|+-..+=- ...+..+..-.++.+-+|-.+.....+-+....+=..|++.+..+.+...+   
T Consensus        52 enr~~kdEE~~e~~e~qLkEAk~ia-E~adrK~eEVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~  130 (205)
T KOG1003|consen   52 ENRAQKLEEKMEAQEAQLKEAKHIA-EKADRKYEEVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSA  130 (205)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHH
Confidence            3344445555555444443332222 345557778889999999999988888888888888899998888888777   


Q ss_pred             ----HHHHHHHHHHHHHHHHHHH
Q 011943          189 ----WLQKEAALEQKISQLRDES  207 (474)
Q Consensus       189 ----llqKEa~LeeeL~~L~~e~  207 (474)
                          +.+++..++.+|+.+.++.
T Consensus       131 ~ee~~~q~~d~~e~~ik~ltdKL  153 (205)
T KOG1003|consen  131 KEEKLEQKEEKYEEELKELTDKL  153 (205)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHH
Confidence                4455555555555555544

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=88.81  E-value=34  Score=35.95  Aligned_cols=39  Identities=26%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             hhhhhHHHHHHHH-HHHHHHHHHHHHHHhhhhhhhHhhhh
Q 011943          296 EQKDFSTQIEAAG-ALIDKLITENIELVEKVNDLSVKLDR  334 (474)
Q Consensus       296 E~~dLksQiEal~-d~RK~LwrEnakL~ekvneL~~~l~~  334 (474)
                      +.-+|...++.-+ ..+..||..=.+|-..=--|..+|++
T Consensus       164 EKVdlEn~LE~EQE~lvN~L~Kqm~~l~~eKr~Lq~~l~~  203 (310)
T PF09755_consen  164 EKVDLENTLEQEQEALVNRLWKQMDKLEAEKRRLQEKLEQ  203 (310)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            3334444444333 35666676665555544455555554

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

Probab=88.54  E-value=71  Score=39.36  Aligned_cols=63  Identities=14%  Similarity=0.123  Sum_probs=42.6

Q ss_pred             HhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          225 EADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       225 KaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      +-+....+...+.++..+......+......+..+++++..+.+++..+...+.++..+++.+
T Consensus       849 ~~~~~~~i~~l~~~~~e~k~~~~~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~  911 (1294)
T KOG0962|consen  849 VIEQEREISRLINLRNELKEEKQKIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPL  911 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcch
Confidence            444445555556666666666666666667777777777777777777777777777777654

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=88.50  E-value=44  Score=36.95  Aligned_cols=64  Identities=13%  Similarity=0.185  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHH
Q 011943          182 LQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELE  260 (474)
Q Consensus       182 Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LE  260 (474)
                      .+..+..+.+-...|..++..|-++.         ||++..+|..-+..      +|..-+.=++..+..++.+|....
T Consensus        97 ~~ek~~~l~~~~~~L~~~F~~LA~~i---------le~k~~~f~~~~~~------~l~~ll~Pl~e~l~~f~~~v~~~~  160 (475)
T PRK10361         97 ADDKIRQMINSEQRLSEQFENLANRI---------FEHSNRRVDEQNRQ------SLNSLLSPLREQLDGFRRQVQDSF  160 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHH------HHHHHHhhHHHHHHHHHHHHHHHH
Confidence            34444456666677777777775543         56666677422211      334444555555555555555444

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

Probab=88.36  E-value=39  Score=36.18  Aligned_cols=68  Identities=18%  Similarity=0.128  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH-HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          136 TIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI-QREGGLEMNIANLQSEKEFWLQKEAALEQKISQL  203 (474)
Q Consensus       136 kikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~-QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L  203 (474)
                      .+.-++.+....-++....|..+.+|+.++.... .....+..+|..++........+....+.++..+
T Consensus       162 ~~~fl~~ql~~~~~~L~~ae~~l~~f~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l  230 (498)
T TIGR03007       162 AQRFIDEQIKTYEKKLEAAENRLKAFKQENGGILPDQEGDYYSEISEAQEELEAARLELNEAIAQRDAL  230 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3355666777777777788888888877665421 1112233444444444444333333333333333

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.

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.29  E-value=33  Score=35.25  Aligned_cols=49  Identities=20%  Similarity=0.342  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQ  160 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkd  160 (474)
                      ++..|..|+.++..+..++.. +.++|.+++.+...+=++++.++..|.+
T Consensus        50 ~q~ei~~L~~qi~~~~~k~~~-~~~~i~~~~~eik~l~~eI~~~~~~I~~   98 (265)
T COG3883          50 IQNEIESLDNQIEEIQSKIDE-LQKEIDQSKAEIKKLQKEIAELKENIVE   98 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555322 2333344444444444444444443333

>PRK10698 phage shock protein PspA; Provisional

Probab=88.23  E-value=28  Score=34.34  Aligned_cols=107  Identities=15%  Similarity=0.199  Sum_probs=51.9

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHh-----hhhHHHHHHHH
Q 011943          108 EATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQR-----EGGLEMNIANL  182 (474)
Q Consensus       108 e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Qk-----Ea~LEe~IkqL  182 (474)
                      +.+++-.|+++++.+...++.+-...... +.++.+...+-...+..+.+..--=....-..-+     .....+++..|
T Consensus        26 ~k~l~q~i~em~~~l~~~r~alA~~~A~~-k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l  104 (222)
T PRK10698         26 QKLVRLMIQEMEDTLVEVRSTSARALAEK-KQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATL  104 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777777766665555555 5555555555555555554443322221111111     12234444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          183 QSEKEFWLQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       183 q~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                      +.++.........|+..+..|+.+...+..|+.
T Consensus       105 ~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~  137 (222)
T PRK10698        105 EHEVTLVDETLARMKKEIGELENKLSETRARQQ  137 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555444444444444444444433333333

>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=88.05  E-value=58  Score=37.73  Aligned_cols=80  Identities=23%  Similarity=0.254  Sum_probs=49.0

Q ss_pred             HHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943           90 LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus        90 ~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      +-..|..|+++.-.+-|..+||-..+++=.++++.=.-.-+. +...+...+..+..+-++-+..|..++-+.+...+..
T Consensus       336 L~~qVAsLQeev~sq~qEqaiLq~SLqDK~AElevERv~skt-LQ~ELsrAqea~~~lqqq~~~aee~Lk~v~eav~S~q  414 (739)
T PF07111_consen  336 LRGQVASLQEEVASQQQEQAILQHSLQDKAAELEVERVGSKT-LQAELSRAQEARRRLQQQTASAEEQLKLVSEAVSSSQ  414 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555677777777777777776665555555433333222 3333366666666777777777777777777766655


Q ss_pred             H
Q 011943          170 Q  170 (474)
Q Consensus       170 Q  170 (474)
                      +
T Consensus       415 ~  415 (739)
T PF07111_consen  415 Q  415 (739)
T ss_pred             H
Confidence            5

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

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

Probab=87.51  E-value=56  Score=36.96  Aligned_cols=92  Identities=16%  Similarity=0.279  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHH
Q 011943          142 RQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDES----------AALN  211 (474)
Q Consensus       142 ~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~----------~~L~  211 (474)
                      .....+-++.+.++..+..+++-.....++...++..|..|+.||..-.-+-..+..+.+.|+...          ...-
T Consensus       259 ~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn  338 (581)
T KOG0995|consen  259 GKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMN  338 (581)
T ss_pred             chHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            334444455556666666666666666666666666666666666553333333333333332221          1112


Q ss_pred             HhhhhHHHHHHHhHhhhhhhhh
Q 011943          212 MKRASLEERLKLLEADKDSWTQ  233 (474)
Q Consensus       212 qKQ~~LEERisQFKaERDsWLk  233 (474)
                      +-...|..-+...+.++|.|.+
T Consensus       339 ~Er~~l~r~l~~i~~~~d~l~k  360 (581)
T KOG0995|consen  339 LERNKLKRELNKIQSELDRLSK  360 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            2223344455555667777643

>PLN03188 kinesin-12 family protein; Provisional

Probab=87.44  E-value=55  Score=40.21  Aligned_cols=83  Identities=24%  Similarity=0.241  Sum_probs=63.2

Q ss_pred             hhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHH
Q 011943          104 HIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ  183 (474)
Q Consensus       104 ~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq  183 (474)
                      -|.+|..+++.|.+--.+|..+.+-+..-.+|+      ++...+-.  +-|.+|..|+.-.+.-.-.+.-+++++..|.
T Consensus       875 a~~re~~le~~c~~qa~~i~ql~~lv~qyk~e~------~~~~~~~~--~~~~ki~~l~~~~dg~l~~~~~~~~~~~~~~  946 (1320)
T PLN03188        875 AIRREMALEEFCTKQASEITQLNRLVQQYKHER------ECNAIIGQ--TREDKIIRLESLMDGVLSKEDFLEEELASLM  946 (1320)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhhh------hhhHHHhh--hhhhhHHHHhhhcccccchhhhhhhhhhhhh
Confidence            478888999999999999988888765544544      44444433  7788898888888888788888888888888


Q ss_pred             HHHHHHHHHHH
Q 011943          184 SEKEFWLQKEA  194 (474)
Q Consensus       184 ~EI~~llqKEa  194 (474)
                      .+...+.+++.
T Consensus       947 ~~~~~~~~~y~  957 (1320)
T PLN03188        947 HEHKLLKEKYE  957 (1320)
T ss_pred             hhHHHHHHHhh
Confidence            88877766554

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

Probab=87.42  E-value=53  Score=36.63  Aligned_cols=88  Identities=11%  Similarity=0.199  Sum_probs=62.1

Q ss_pred             HHHHhhhhhhhh---hhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943           93 TVKHLRNERESH---IQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus        93 ti~~l~~e~d~~---~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      -|-.|+.+||-.   ||.---+-..|+.|++.-..++.. ....+.-..+++.....|.-+...+...|..-++++.+..
T Consensus       272 ~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~ek~r~l~~D-~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~kEeei~~L~  350 (622)
T COG5185         272 DIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSD-SNKYENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQ  350 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-HHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH
Confidence            345566666653   454445556677777777777777 5566666678888888888888888777777777777777


Q ss_pred             HhhhhHHHHHHH
Q 011943          170 QREGGLEMNIAN  181 (474)
Q Consensus       170 QkEa~LEe~Ikq  181 (474)
                      .++..|..+|..
T Consensus       351 ~~~d~L~~q~~k  362 (622)
T COG5185         351 SNIDELHKQLRK  362 (622)
T ss_pred             hhHHHHHHHHHh
Confidence            777777766544

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=87.11  E-value=4.2  Score=33.49  Aligned_cols=57  Identities=23%  Similarity=0.219  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHH
Q 011943          250 TQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALID  312 (474)
Q Consensus       250 ~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK  312 (474)
                      ..|..+|..|=.....|..+|..|+.++..|......+      .+.+...+++++++...-+
T Consensus         3 ~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L------~ekne~Ar~rvEamI~RLk   59 (65)
T TIGR02449         3 QALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQL------LEKNEQARQKVEAMITRLK   59 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhh
Confidence            45556666666666666666666666666666666655      5555555666666555443

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>PF02090 SPAM: Salmonella surface presentation of antigen gene type M protein; InterPro: IPR002954 The Salmonella typhimurium Surface Presentation of Antigens M gene (SpaM) is one of 12 that form a cluster responsible for invasion properties []

Probab=86.82  E-value=28  Score=32.86  Aligned_cols=118  Identities=24%  Similarity=0.252  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASL  217 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~L  217 (474)
                      -++..+..-+.++++.++..++-|+.-..++.-.-..+      -..++=.++.+-+.+..+|..|.-+...+..|.-.|
T Consensus        26 ~ql~~e~~~L~~ee~~~~~Q~~~L~~LL~~~r~~~~vl------~r~~L~allRkqAVvRrqi~eL~lq~~~i~ekR~~l   99 (147)
T PF02090_consen   26 LQLQREEQKLDAEEEAIEEQRAGLQSLLDTQRAEGCVL------SREELYALLRKQAVVRRQIQELNLQEQQIQEKRRQL   99 (147)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHccccc------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566666677777777777777776665554431111      122344478889999999999999999999999999


Q ss_pred             HHHHHHhHhhhhhhhhhhhchHHHHhhhHH--HHHHHHHHHHHHHH
Q 011943          218 EERLKLLEADKDSWTQMESVSKETIAGLSV--DITQLRMQVVELEE  261 (474)
Q Consensus       218 EERisQFKaERDsWLkkEIsLke~Issl~~--~~~sLq~QV~~LEe  261 (474)
                      +.....++..|.-|+.++-.-..-+.+++.  .+..|+.+.+++++
T Consensus       100 ~ke~~~~~~~r~~wlrK~dkY~rw~~~~kr~~r~~~l~qeE~E~EE  145 (147)
T PF02090_consen  100 EKEKQEQQEQRKHWLRKEDKYDRWQQRQKRLRRLQQLRQEETEQEE  145 (147)
T ss_pred             HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999999999998865555544433  34466666666553

The gene product is required for entry by the bacterium into epithelial cells, and is thus considered to be a virulence factor []. Other Spa genes in the cluster are related to invasion (Inv) genes in similar Salmonella and Shigella species [], and flagella biosynthesis genes in Helicobacter pylori []. A homologue of this protein has been found recently in Salmonella enterica []. The protein, named InvI, is required by the organism to gain access to mammalian epithelial cells, and cellular mutants (InvI-) failed to successfully infect these cells. It has also been found that the inv-spa loci of this particular species encode for a type III protein secretion system, essential in the bacterium's host cell invasion process [].

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=86.62  E-value=91  Score=38.52  Aligned_cols=68  Identities=12%  Similarity=0.149  Sum_probs=40.4

Q ss_pred             cccCCCCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 011943           58 VDADRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETI  137 (474)
Q Consensus        58 ~~~~~~~~~~~~~~~~~e~~~~~~~q~e~~~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEki  137 (474)
                      |+.||+-..|+=.--.. -....||=..|                    ++..=...|..|+.+|..+...+..+ .+.+
T Consensus       708 v~~dG~~r~G~l~G~~~-k~~a~~IG~~a--------------------R~~~R~~ri~el~~~IaeL~~~i~~l-~~~l  765 (1353)
T TIGR02680       708 IDVDGRFRLGVLRGAWA-KPAAEYIGAAA--------------------RERARLRRIAELDARLAAVDDELAEL-AREL  765 (1353)
T ss_pred             ECCCCceeeeeeecccC-CcchhHhhHHH--------------------HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Confidence            67788777775321111 22255555555                    45667889999999999999887442 2222


Q ss_pred             HHHHHHHHHH
Q 011943          138 QQLQRQNDLR  147 (474)
Q Consensus       138 kQLe~E~~~~  147 (474)
                      ..|......+
T Consensus       766 ~~l~~r~~~L  775 (1353)
T TIGR02680       766 RALGARQRAL  775 (1353)
T ss_pred             HHHHHHHHHH
Confidence            4444443333

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.

>TIGR02977 phageshock_pspA phage shock protein A

Probab=86.50  E-value=34  Score=33.40  Aligned_cols=108  Identities=13%  Similarity=0.139  Sum_probs=61.1

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHH-----hhhhHHHHHHH
Q 011943          107 KEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQ-----REGGLEMNIAN  181 (474)
Q Consensus       107 ~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~Q-----kEa~LEe~Ikq  181 (474)
                      -+.+++..|+++++.+...++.+-...... +.++.+...+-...+..+.+...-=....-..-     .....++++..
T Consensus        25 P~~~l~q~irem~~~l~~ar~~lA~~~a~~-k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al~~k~~~~~~~~~  103 (219)
T TIGR02977        25 PEKMIRLIIQEMEDTLVEVRTTSARTIADK-KELERRVSRLEAQVADWQEKAELALSKGREDLARAALIEKQKAQELAEA  103 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence            456788888888888888888876666666 666666666666666666555443332222222     22234444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          182 LQSEKEFWLQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       182 Lq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                      |+..+..+......++.+|..|+.+...+..|..
T Consensus       104 l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~  137 (219)
T TIGR02977       104 LERELAAVEETLAKLQEDIAKLQAKLAEARARQK  137 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555444444444444

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>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=86.38  E-value=36  Score=33.65  Aligned_cols=25  Identities=20%  Similarity=0.276  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLR  162 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq  162 (474)
                      .++.++...+......++..+..|+
T Consensus        45 d~~~~e~~~L~~e~~~l~~e~e~L~   69 (251)
T PF11932_consen   45 DQWDDEKQELLAEYRQLEREIENLE   69 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

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.

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=86.32  E-value=60  Score=36.07  Aligned_cols=36  Identities=25%  Similarity=0.386  Sum_probs=23.4

Q ss_pred             HHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHH
Q 011943           89 ILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK  128 (474)
Q Consensus        89 ~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqk  128 (474)
                      .|+-.|+.|+    |.|-|+-.+=+.|.+|+.-+.+|...
T Consensus       342 yLe~kvkeLQ----~k~~kQqvfvDiinkLk~niEeLIed  377 (527)
T PF15066_consen  342 YLEKKVKELQ----MKITKQQVFVDIINKLKENIEELIED  377 (527)
T ss_pred             HHHHHHHHHH----HHhhhhhHHHHHHHHHHHHHHHHHHh
Confidence            4555555544    56777777777777777776666543

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

Probab=86.18  E-value=6.9  Score=32.51  Aligned_cols=59  Identities=24%  Similarity=0.317  Sum_probs=42.5

Q ss_pred             HHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          220 RLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVS  278 (474)
Q Consensus       220 RisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIs  278 (474)
                      .|.+|..|-..|-++|..+...|..++..+..+..++..+...+...+.++..|+..+.
T Consensus        13 ~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~   71 (74)
T PF12329_consen   13 QIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLK   71 (74)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            67777766777777777777777777777777777777777777777777776665543

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=86.16  E-value=42  Score=38.53  Aligned_cols=141  Identities=18%  Similarity=0.156  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHH
Q 011943          184 SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESR  263 (474)
Q Consensus       184 ~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl  263 (474)
                      .-++......+.+.+.|...+++...|.+--+    ...-+.  + ...+.+.+|+..+.++...+..|+.+-.+...++
T Consensus        54 ~kve~a~~~~~~L~~~ia~~eael~~l~s~l~----~~~~~~--~-~~~k~e~tLke~l~~l~~~le~lr~qk~eR~~ef  126 (660)
T KOG4302|consen   54 RKVEEASESKARLLQEIAVIEAELNDLCSALG----EPSIIG--E-ISDKIEGTLKEQLESLKPYLEGLRKQKDERRAEF  126 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----Cccccc--c-cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444445555555555555554433222    111110  0 2334566999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhh---hhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh
Q 011943          264 NNLLQENRQLKENVSSLRSQLSSD---ESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKL  332 (474)
Q Consensus       264 ~sL~eEiq~LkeqIseL~~~iqtl---e~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l  332 (474)
                      ..+-.+++.|-..|.+...-...+   +..-. ....+.|+.++..|...+-.=..+...+++.+..||=.|
T Consensus       127 ~el~~qie~l~~~l~g~~~~~~~~~~D~~dls-l~kLeelr~~L~~L~~ek~~Rlekv~~~~~~I~~l~~~L  197 (660)
T KOG4302|consen  127 KELYHQIEKLCEELGGPEDLPSFLIADESDLS-LEKLEELREHLNELQKEKSDRLEKVLELKEEIKSLCSVL  197 (660)
T ss_pred             HHHHHHHHHHHHHhcCCccCCcccccCccccc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999988888661111110   11111 156778888888888888888888888888888888444

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=85.98  E-value=24  Score=39.43  Aligned_cols=126  Identities=21%  Similarity=0.293  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhh------hhhHhhH---------HHHHHHHHHHH---HHHHHHHHHhhHHHHHHH
Q 011943           79 QHLLQREAMAILEETVKHLRNERESH------IQKEATL---------EGTVQQLQNEC---DLYKEKVQATLEETIQQL  140 (474)
Q Consensus        79 ~~~~q~e~~~~~eeti~~l~~e~d~~------~~~e~~~---------Ee~IkqLqeEi---~~lkqkLE~lleEkikQL  140 (474)
                      -..+|++-...|.+.+|-+++||...      +..|++.         -.-+++|++-+   ...+..|+.+..+- .++
T Consensus       153 ~S~~~~~~~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~eel~~kt~el-~~q  231 (596)
T KOG4360|consen  153 RSAFQRELLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQEELQSKTKEL-SRQ  231 (596)
T ss_pred             hhhHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH
Confidence            35688888889999999999998763      3223221         12233333333   33333333333333 455


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHhhh-------hHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          141 QRQNDLRMQKEATLEETIKQLRNQN-------DLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRD  205 (474)
Q Consensus       141 e~E~~~~lQkeA~lE~kIkdLq~~~-------~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~  205 (474)
                      ..++..++-.++.+..+|+-+.=++       ....+....+.+++..++.......+...+.+++|++|..
T Consensus       232 ~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleDkyAE~m~~~~EaeeELk~lrs  303 (596)
T KOG4360|consen  232 QEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELEDKYAECMQMLHEAEEELKCLRS  303 (596)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            5566666666666666665554332       2233444556666777777777777777777777777754

>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices

Probab=85.81  E-value=27  Score=32.12  Aligned_cols=64  Identities=27%  Similarity=0.296  Sum_probs=46.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhhHHHHHHHh-Hhhhhhhhhhhh
Q 011943          173 GGLEMNIANLQSEKEFWLQKEAALEQKI----SQLRDESAALNMKRASLEERLKLL-EADKDSWTQMES  236 (474)
Q Consensus       173 a~LEe~IkqLq~EI~~llqKEa~LeeeL----~~L~~e~~~L~qKQ~~LEERisQF-KaERDsWLkkEI  236 (474)
                      +..+.++++|+.+...+.++|.+...+.    ..+...+..+.....++++++..+ ....-.|-+.|-
T Consensus        23 ~~v~~~l~~LEae~q~L~~kE~~r~~~~k~~ae~a~~~L~~~~~~~~~i~e~~~kl~~~~~~r~yk~eY   91 (126)
T PF09403_consen   23 ASVESELNQLEAEYQQLEQKEEARYNEEKQEAEAAEAELAELKELYAEIEEKIEKLKQDSKVRWYKDEY   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGSTTHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhcchhHHHHHH
Confidence            4566778888888888888887766544    345667778888888999999999 444445666544

; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.

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

Probab=85.54  E-value=62  Score=35.59  Aligned_cols=26  Identities=15%  Similarity=0.118  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          256 VVELEESRNNLLQENRQLKENVSSLR  281 (474)
Q Consensus       256 V~~LEesl~sL~eEiq~LkeqIseL~  281 (474)
                      -..+.-.+..-..|++.|+.++...-
T Consensus       357 ~s~~~~k~~~ke~E~q~lr~~l~~~~  382 (511)
T PF09787_consen  357 KSPLQLKLKEKESEIQKLRNQLSARA  382 (511)
T ss_pred             cChHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444455567788888888877654

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 [].

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=85.36  E-value=36  Score=32.71  Aligned_cols=126  Identities=18%  Similarity=0.223  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          137 IQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRAS  216 (474)
Q Consensus       137 ikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~  216 (474)
                      +..+++=...+=|.+..++..|.+++............++.++..++..+..|..+-..-      |...+..|..    
T Consensus        18 ld~~EDP~~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~A------l~~g~edLAr----   87 (221)
T PF04012_consen   18 LDKAEDPEKMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELA------LAAGREDLAR----   87 (221)
T ss_pred             HHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHcCCHHHHH----
Confidence            344444556666667777777777777777777777777777777777777765543211      1111111100    


Q ss_pred             HHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          217 LEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       217 LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                                   .+|.+-..+...+..+...+..+..++..|+..+..+...+..++.+...+..+..
T Consensus        88 -------------~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~~  143 (221)
T PF04012_consen   88 -------------EALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKAREN  143 (221)
T ss_pred             -------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                         01111114444555555555555555555555555555555555555554444443

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PRK10698 phage shock protein PspA; Provisional

Probab=85.32  E-value=41  Score=33.24  Aligned_cols=115  Identities=14%  Similarity=0.194  Sum_probs=87.8

Q ss_pred             HHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943           90 LEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus        90 ~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      +++++..++...-..|-.+..++..+.+++..+.....+-+..+..=   -++=-...+......+..+..|+.......
T Consensus        36 m~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G---~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~  112 (222)
T PRK10698         36 MEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKE---KEDLARAALIEKQKLTDLIATLEHEVTLVD  112 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777776667788888999999999999999998865544422   122334556667778888899999888888


Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          170 QREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDES  207 (474)
Q Consensus       170 QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~  207 (474)
                      ..-..|...+..|+..+..+..+-..|..+....++..
T Consensus       113 ~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~a~~  150 (222)
T PRK10698        113 ETLARMKKEIGELENKLSETRARQQALMLRHQAASSSR  150 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888888888888777777666554

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=85.27  E-value=9.6  Score=32.61  Aligned_cols=63  Identities=19%  Similarity=0.295  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhh-------hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          137 IQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREG-------GLEMNIANLQSEKEFWLQKEAALEQK  199 (474)
Q Consensus       137 ikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa-------~LEe~IkqLq~EI~~llqKEa~Leee  199 (474)
                      +.||+.....++-.++-+..+|.+|+.++....+.-.       .|..+..+|+.+...|..+-..|=.+
T Consensus         6 leqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLGk   75 (79)
T PRK15422          6 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGR   75 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5667777777777788888888888888777666533       35555566666666565554444333

>PLN02939 transferase, transferring glycosyl groups

Probab=85.03  E-value=96  Score=37.32  Aligned_cols=69  Identities=20%  Similarity=0.209  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Q 011943          248 DITQLRMQVVELEESRNNLL------QENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITEN  318 (474)
Q Consensus       248 ~~~sLq~QV~~LEesl~sL~------eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEn  318 (474)
                      ++..|+.+|-.|++++....      .-++-+++++.-++.+++..  .......+.-....+++.++.-+.|..|.
T Consensus       325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  399 (977)
T PLN02939        325 QNQDLRDKVDKLEASLKEANVSKFSSYKVELLQQKLKLLEERLQAS--DHEIHSYIQLYQESIKEFQDTLSKLKEES  399 (977)
T ss_pred             cchHHHHHHHHHHHHHHHhhHhhhhHHHHHHHHHHHHHHHHHHHhh--HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            34467777777777765432      22344557777777777754  11112233334444555555555544443

>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=85.02  E-value=34  Score=35.13  Aligned_cols=51  Identities=22%  Similarity=0.242  Sum_probs=32.2

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .++..|.....++.+++.++..+..+-.+|+..|+..+..+.-.+.+++++
T Consensus       166 ~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sL  216 (267)
T PF10234_consen  166 ALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSL  216 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556666666666666666666666666666666666666555555555554

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

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

Probab=84.92  E-value=16  Score=33.23  Aligned_cols=15  Identities=27%  Similarity=0.233  Sum_probs=6.4

Q ss_pred             HHHHHHHHHHHHhhh
Q 011943          311 IDKLITENIELVEKV  325 (474)
Q Consensus       311 RK~LwrEnakL~ekv  325 (474)
                      .++-=+|-.+|++++
T Consensus       135 ~rkke~E~~kLk~rL  149 (151)
T PF11559_consen  135 LRKKEREIEKLKERL  149 (151)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            333334444454443

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.

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=84.89  E-value=10  Score=31.35  Aligned_cols=56  Identities=23%  Similarity=0.307  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDL  167 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s  167 (474)
                      |+..|..|+..++.+.+++++.-.+- +.|..+++..+......=..+.+|+.+++.
T Consensus         3 Lea~~~~Lr~rLd~~~rk~~~~~~~~-k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~   58 (69)
T PF14197_consen    3 LEAEIATLRNRLDSLTRKNSVHEIEN-KRLRRERDSAERQLGDAYEENNKLKEENEA   58 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555554433333 555555555555555554444444444433

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

Probab=84.63  E-value=20  Score=35.03  Aligned_cols=66  Identities=15%  Similarity=0.214  Sum_probs=56.8

Q ss_pred             HHh---Hhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhhhhhh
Q 011943          222 KLL---EADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRN--NLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       222 sQF---KaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~--sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .||   -.+-+.-|..+| .|++.+.++..++.....++..|...++  .+.++|++|+..+.....++..+
T Consensus        71 DqF~~~~~eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~  142 (201)
T KOG4603|consen   71 DQFDMVSDEELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNI  142 (201)
T ss_pred             HhhcCCChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466   346677788999 9999999999999999999999998765  78899999999999998888877

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=84.52  E-value=57  Score=34.30  Aligned_cols=62  Identities=19%  Similarity=0.251  Sum_probs=37.7

Q ss_pred             HHHHHHHHHhhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHH-------hhHHHHHHHHHHHHHHHH
Q 011943           88 AILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQA-------TLEETIQQLQRQNDLRMQ  149 (474)
Q Consensus        88 ~~~eeti~~l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~-------lleEkikQLe~E~~~~lQ  149 (474)
                      +.|+..-+.|+-|.++.-.+-..|...++.|....-.+..+.|.       .+.-+|.+|..+...++.
T Consensus        30 ~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr~~sv~~~~~aEqEEE~isN~LlKkl~~l~keKe~L~~   98 (310)
T PF09755_consen   30 ESLQQENRVLKRELETEKARCKHLQEENRALREASVRIQAKAEQEEEFISNTLLKKLQQLKKEKETLAL   98 (310)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35666666677777777777777777777776665555444332       334455666666666543

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

Probab=84.50  E-value=91  Score=36.58  Aligned_cols=17  Identities=18%  Similarity=0.345  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 011943          112 EGTVQQLQNECDLYKEK  128 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqk  128 (474)
                      ...+..|..++..+...
T Consensus       500 ~~e~~~l~~~l~~~~~~  516 (908)
T COG0419         500 REEIEELEKELRELEEE  516 (908)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444444444444433

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

Probab=84.46  E-value=62  Score=34.66  Aligned_cols=19  Identities=16%  Similarity=0.387  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHhhhhhhh
Q 011943           85 EAMAILEETVKHLRNERES  103 (474)
Q Consensus        85 e~~~~~eeti~~l~~e~d~  103 (474)
                      -|-..++.-||++.+.++-
T Consensus        68 aa~~llq~kirk~~e~~eg   86 (401)
T PF06785_consen   68 AAGQLLQTKIRKITEKDEG   86 (401)
T ss_pred             HHHHHHHHHHHHHHhccHH
Confidence            3444677777777655543

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

Probab=84.40  E-value=87  Score=36.65  Aligned_cols=55  Identities=16%  Similarity=0.218  Sum_probs=28.7

Q ss_pred             HHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          220 RLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLK  274 (474)
Q Consensus       220 RisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~Lk  274 (474)
                      |+.-...+|-.-|.+=..|...+.+.++.+..+++....|...++.|-.++.+|+
T Consensus       203 rlqlhlkermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~  257 (916)
T KOG0249|consen  203 RLQLHLKERMAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLR  257 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333344444433333355555555555555555555555555555555555555

>PRK10884 SH3 domain-containing protein; Provisional

Probab=84.23  E-value=12  Score=36.75  Aligned_cols=78  Identities=13%  Similarity=0.190  Sum_probs=39.7

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      ++...+..++.++..|+.+...+..+.+   +....+...+......+..+      ..++..|+.++..+...+..|-.
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~~~~~---~~~~~l~~~~~~~~~~~~~L------~~~n~~L~~~l~~~~~~~~~l~~  160 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNIDNTWN---QRTAEMQQKVAQSDSVINGL------KEENQKLKNQLIVAQKKVDAANL  160 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhHHH---HHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666666666655555555444333   33333333344444444444      55555555555555555555555


Q ss_pred             HHHHHHh
Q 011943          317 ENIELVE  323 (474)
Q Consensus       317 EnakL~e  323 (474)
                      ++..+..
T Consensus       161 ~~~~~~~  167 (206)
T PRK10884        161 QLDDKQR  167 (206)
T ss_pred             HHHHHHH
Confidence            5555543

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.00  E-value=39  Score=33.86  Aligned_cols=40  Identities=25%  Similarity=0.319  Sum_probs=18.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 011943          244 GLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQ  283 (474)
Q Consensus       244 sl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~  283 (474)
                      .++..+.++..+-...+..+.-+-.+..-|+.+|+.+...
T Consensus        64 ~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   64 TLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444455555555555544333

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=82.11  E-value=9  Score=32.06  Aligned_cols=69  Identities=22%  Similarity=0.279  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHh-HhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHH
Q 011943          195 ALEQKISQLRDESAALNMKRASLEERLKLL-EADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESR  263 (474)
Q Consensus       195 ~LeeeL~~L~~e~~~L~qKQ~~LEERisQF-KaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl  263 (474)
                      ..+..|+.|..++=.|..+--.|++|+.++ -......++.-|.|+..+.++..++..++..+..++.++
T Consensus         4 Eqe~~i~~L~KENF~LKLrI~fLee~l~~~~~~~~~~~~keNieLKve~~~L~~el~~~~~~l~~a~~~~   73 (75)
T PF07989_consen    4 EQEEQIDKLKKENFNLKLRIYFLEERLQKLGPESIEELLKENIELKVEVESLKRELQEKKKLLKEAEKAI   73 (75)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456778888888888888888888888877 333333344444777777777777776666666666554

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=82.08  E-value=37  Score=30.58  Aligned_cols=33  Identities=24%  Similarity=0.306  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          175 LEMNIANLQSEKEFWLQKEAALEQKISQLRDES  207 (474)
Q Consensus       175 LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~  207 (474)
                      +...+.+|+.+++.+.+.-..+...+.++..-.
T Consensus        11 l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~   43 (140)
T PRK03947         11 LAAQLQALQAQIEALQQQLEELQASINELDTAK   43 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555544443333

>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=81.54  E-value=72  Score=33.29  Aligned_cols=156  Identities=19%  Similarity=0.193  Sum_probs=75.8

Q ss_pred             HHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHh
Q 011943          147 RMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEA  226 (474)
Q Consensus       147 ~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKa  226 (474)
                      .+|++..+|-.+..|+-+.   .|+..    +|..|+.-.....++...-+.+...|.-++..|.       |-...+..
T Consensus        16 aLqKIqelE~QldkLkKE~---qQrQf----QleSlEAaLqKQKqK~e~ek~e~s~LkREnq~l~-------e~c~~lek   81 (307)
T PF10481_consen   16 ALQKIQELEQQLDKLKKER---QQRQF----QLESLEAALQKQKQKVEEEKNEYSALKRENQSLM-------ESCENLEK   81 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHH----hHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHH-------HHHHHHHH
Confidence            4566666666666665442   22222    2344444444455555555555555555554332       22233322


Q ss_pred             hhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh------------hhhh
Q 011943          227 DKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDES------------KKHA  293 (474)
Q Consensus       227 ERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~------------~~~~  293 (474)
                      -|+ ||.-++ .-.-.|..+...+.+...++..|+.++.-+..+....+.........+.-+.-            .-..
T Consensus        82 ~rq-Klshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~~~~sl~~~stpqk~f~~p~tp~q~~~  160 (307)
T PF10481_consen   82 TRQ-KLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASSGDVSLNPCSTPQKSFATPLTPSQYYS  160 (307)
T ss_pred             HHH-HhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCccccccCCchhhccCCCChhhhhh
Confidence            232 333444 44445555555555555555555555555544444443333322222220000            0112


Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHH
Q 011943          294 TSEQKDFSTQIEAAGALIDKLITE  317 (474)
Q Consensus       294 ~~E~~dLksQiEal~d~RK~LwrE  317 (474)
                      ...+.+|+.++..-...||.|=.|
T Consensus       161 ~sk~e~L~ekynkeveerkrle~e  184 (307)
T PF10481_consen  161 DSKYEELQEKYNKEVEERKRLEAE  184 (307)
T ss_pred             hhhHHHHHHHHHHHHHHHhhHHHH
Confidence            256777777777777777777555

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 [].

>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=81.38  E-value=33  Score=31.86  Aligned_cols=35  Identities=26%  Similarity=0.319  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          176 EMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       176 Ee~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      .+++..+..+|..+..+-..++..+..|..+...|
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L  105 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASL  105 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555555555555544

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 [].

>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=81.29  E-value=57  Score=31.94  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          179 IANLQSEKEFWLQKEAALEQKISQL  203 (474)
Q Consensus       179 IkqLq~EI~~llqKEa~LeeeL~~L  203 (474)
                      |..++..+..+...-..+..++..+
T Consensus        22 L~~~~~~l~~~~~~~~~l~~~i~~~   46 (302)
T PF10186_consen   22 LLELRSELQQLKEENEELRRRIEEI   46 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444443

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

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=81.28  E-value=72  Score=33.13  Aligned_cols=67  Identities=24%  Similarity=0.257  Sum_probs=52.8

Q ss_pred             hhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHH
Q 011943          102 ESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHI  169 (474)
Q Consensus       102 d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~  169 (474)
                      +..+++-+=+....+.++..+..+......+..++ .++..++..++-....+|.-=++|+-.|....
T Consensus        25 ~~L~kk~~ell~e~k~~~k~~~~~~Kk~~~l~kek-~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lk   91 (309)
T PF09728_consen   25 EALCKKYAELLEEMKRLQKQLKKLQKKQEQLQKEK-DQLQSELSKAILAKSKLESLCRELQKQNKKLK   91 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566777777778888888888888888888888 88999999888888888888777777665444

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=81.07  E-value=74  Score=33.09  Aligned_cols=97  Identities=13%  Similarity=0.171  Sum_probs=62.9

Q ss_pred             hhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHH--H
Q 011943          106 QKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANL--Q  183 (474)
Q Consensus       106 ~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqL--q  183 (474)
                      +.-.++...|..|..+-..+++..+.        ....-.-++...|+.|-...++.+.+....+..+--..++.++  .
T Consensus       101 ~~~rll~d~i~nLk~se~~lkqQ~~~--------a~RrE~ilv~rlA~kEQEmqe~~sqi~~lK~qq~Ps~~qlR~~llD  172 (330)
T KOG2991|consen  101 KYTRLLSDDITNLKESEEKLKQQQQE--------AARRENILVMRLATKEQEMQECTSQIQYLKQQQQPSVAQLRSTLLD  172 (330)
T ss_pred             cccchhHHHHHhhHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHhhC
Confidence            44567777788777777777766432        3334567888889999988888888887777665544443331  1


Q ss_pred             HHHHH----HHHHHHHHHHHHHHHHHHHHHH
Q 011943          184 SEKEF----WLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       184 ~EI~~----llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      --|..    +...-.+.+.+|.+++++.++|
T Consensus       173 PAinl~F~rlK~ele~tk~Klee~QnelsAw  203 (330)
T KOG2991|consen  173 PAINLFFLRLKGELEQTKDKLEEAQNELSAW  203 (330)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhhee
Confidence            11222    5556666677777777777655

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

Probab=81.00  E-value=61  Score=32.07  Aligned_cols=122  Identities=16%  Similarity=0.269  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHhhhhhhhhhhhHhhHHHHH-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhh
Q 011943           87 MAILEETVKHLRNERESHIQKEATLEGTV-QQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQN  165 (474)
Q Consensus        87 ~~~~eeti~~l~~e~d~~~~~e~~~Ee~I-kqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~  165 (474)
                      +..+.+.|.+|.....+.+++-+=..+.+ +.+...+..+...++.....++.++....+.+..+...++..|.+.+...
T Consensus        36 ~~~i~e~i~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~~~~v~~~~~~~~~~~~~~l~~L~~ri~~L~~~i~ee~~~r  115 (247)
T PF06705_consen   36 FQDIKEQIQKLEKALEAEVKRRVESNKKLQSKFEEQINNMQERVENQISEKQEQLQSRLDSLNDRIEALEEEIQEEKEER  115 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45788999999998888877665554444 45777888888888888888989999999999999999999888888776


Q ss_pred             hHHHHhh-hhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Q 011943          166 DLHIQRE-GGLEMNIANLQSEKEF----WLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       166 ~s~~QkE-a~LEe~IkqLq~EI~~----llqKEa~LeeeL~~L~~e~~  208 (474)
                      ....... ..+...|..|...++.    +..+|..+-.+|........
T Consensus       116 ~~~ie~~~~~l~~~l~~l~~~~~~Er~~R~erE~~i~krl~e~~~~l~  163 (247)
T PF06705_consen  116 PQDIEELNQELVRELNELQEAFENERNEREEREENILKRLEEEENRLQ  163 (247)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6544333 3355556665544444    88888888888877755553

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

Probab=80.80  E-value=1.5e+02  Score=36.61  Aligned_cols=17  Identities=24%  Similarity=0.220  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 011943          113 GTVQQLQNECDLYKEKV  129 (474)
Q Consensus       113 e~IkqLqeEi~~lkqkL  129 (474)
                      ++|.+|-.+|.+...+|
T Consensus      1511 eqi~~L~~~I~e~v~sL 1527 (1758)
T KOG0994|consen 1511 EQIQQLTGEIQERVASL 1527 (1758)
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            45666666666555443

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=80.55  E-value=1.1e+02  Score=34.61  Aligned_cols=21  Identities=33%  Similarity=0.493  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHh
Q 011943          193 EAALEQKISQLRDESAALNMK  213 (474)
Q Consensus       193 Ea~LeeeL~~L~~e~~~L~qK  213 (474)
                      ...|..+|..+..++..|.+|
T Consensus       161 ~EaL~ekLk~~~een~~lr~k  181 (596)
T KOG4360|consen  161 LEALQEKLKPLEEENTQLRSK  181 (596)
T ss_pred             HHHHHhhcCChHHHHHHHHHH
Confidence            344555555555555544443

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=80.48  E-value=19  Score=29.76  Aligned_cols=59  Identities=24%  Similarity=0.227  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 011943          134 EETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQK  192 (474)
Q Consensus       134 eEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqK  192 (474)
                      +..|.-|++..+.+..+....+..++.|..+.++....-...-.++..|+.+++.+.++
T Consensus         4 ea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e   62 (69)
T PF14197_consen    4 EAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKE   62 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456788888888889999999999999888888888888888888888887777666

>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]

Probab=80.39  E-value=77  Score=35.35  Aligned_cols=32  Identities=31%  Similarity=0.311  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLL  224 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQF  224 (474)
                      +..-|++|+.+|+.|........+=.+    |+..|
T Consensus       409 L~~~EE~Lr~Kldtll~~ln~Pnq~k~----Rl~~L  440 (508)
T KOG3091|consen  409 LTPDEEELRAKLDTLLAQLNAPNQLKA----RLDEL  440 (508)
T ss_pred             CCccHHHHHHHHHHHHHHhcChHHHHH----HHHHH
Confidence            555688888888888888877755555    55555

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=80.37  E-value=88  Score=33.56  Aligned_cols=19  Identities=11%  Similarity=0.095  Sum_probs=10.5

Q ss_pred             hhHhhhhhhhhhccccccc
Q 011943          328 LSVKLDRQSVAAGLSSAIG  346 (474)
Q Consensus       328 L~~~l~~~~~~~~~ss~~~  346 (474)
                      +...|+....-++.++-+.
T Consensus       310 a~~~l~~~~I~AP~dG~V~  328 (457)
T TIGR01000       310 LKEDSQKGVIKAPEDGVLH  328 (457)
T ss_pred             HHHHHhCCEEECCCCeEEE
Confidence            3334444455577777654

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

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=80.25  E-value=55  Score=31.16  Aligned_cols=96  Identities=21%  Similarity=0.305  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHH
Q 011943          184 SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEES  262 (474)
Q Consensus       184 ~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEes  262 (474)
                      .+...+.++-..++.++...-++.+.|..+.-..--|+..--..-+.+...+| .-.+....++..+..++.++..|...
T Consensus        27 ~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~lQ~~L~~~re~E~qLr~r  106 (159)
T PF05384_consen   27 QEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHELQVRLAMLREREKQLRER  106 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444455555555555555444443333333333444455677888 88888899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 011943          263 RNNLLQENRQLKENVSS  279 (474)
Q Consensus       263 l~sL~eEiq~LkeqIse  279 (474)
                      ++.|+.....|...|.-
T Consensus       107 RD~LErrl~~l~~tier  123 (159)
T PF05384_consen  107 RDELERRLRNLEETIER  123 (159)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999988888887773

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

---

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	474
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-16
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-11
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-11
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	5e-06
2xs1_A	704	Programmed cell death 6-interacting protein; prote	8e-05
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	5e-04
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	6e-04
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	8e-04

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

 Score = 82.6 bits (204), Expect = 9e-17
 Identities = 53/269 (19%), Positives = 101/269 (37%), Gaps = 9/269 (3%)

Query: 68   AESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKE 127
            AE+   AEAE   +        LEE +  +    E         E   QQLQ E    ++
Sbjct: 903  AETELYAEAEEMRVRLAAKKQELEEILHEMEARIEE-------EEERSQQLQAEKKKMQQ 955

Query: 128  KVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKE 187
            ++   LEE +++ +        ++ T +  IK++ +   +   +   L      L+    
Sbjct: 956  QMLD-LEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVS 1014

Query: 188  FWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSV 247
                  A  E+K   L           + LE RLK  E  +    +++   +   + L  
Sbjct: 1015 DLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHE 1074

Query: 248  DITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESK-KHATSEQKDFSTQIEA 306
             I +L+ Q+ EL+       +E +     +    SQ ++   K +   S   D    +E+
Sbjct: 1075 QIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLES 1134

Query: 307  AGALIDKLITENIELVEKVNDLSVKLDRQ 335
              A  +K   +  +L E++  L  +L+  
Sbjct: 1135 EKAARNKAEKQKRDLSEELEALKTELEDT 1163

>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 = 79.9 bits (197), Expect = 5e-16
 Identities = 51/278 (18%), Positives = 113/278 (40%), Gaps = 20/278 (7%)

Query: 73   LAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQ-- 130
            +   + +    +E     E  +K L  +     +++  L+   ++LQ E +LY E  +  
Sbjct: 859  MQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQ---EKLQAETELYAEAEEMR 915

Query: 131  -------ATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQ 183
                     LEE + +++ + +   ++   L+   K+++ Q     ++    E     LQ
Sbjct: 916  VRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQ 975

Query: 184  SEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIA 243
             EK     K   +E  I  + D++  L  +R  LEER+  L  +     +      +   
Sbjct: 976  LEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKN 1035

Query: 244  GLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQ------ 297
                 I++L +++ + E+SR  L +  R+L+   S L  Q++  +++      Q      
Sbjct: 1036 KHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEE 1095

Query: 298  --KDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLD 333
              +    ++E   +  +  + +  EL   ++DL   L+
Sbjct: 1096 ELQAALARLEDETSQKNNALKKIRELESHISDLQEDLE 1133

>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 = 61.4 bits (149), Expect = 4e-10
 Identities = 48/254 (18%), Positives = 97/254 (38%), Gaps = 23/254 (9%)

Query: 83   QREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQR 142
            Q E M   +E ++  +  ++    +   LE    QL  E +L +EK+QA  E   +  + 
Sbjct: 855  QEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEM 914

Query: 143  QNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQ 202
            +  L  +K   LEE + ++  + +         E     LQ+EK+        ++Q++  
Sbjct: 915  RVRLAAKK-QELEEILHEMEARIEE-------EEERSQQLQAEKK-------KMQQQMLD 959

Query: 203  LRDESAALNMKRASLEE-------RLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQ 255
            L ++       R  L+        ++K +E D        +   +    L   ++ L   
Sbjct: 960  LEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTN 1019

Query: 256  VVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQK-DFSTQIEAAGALIDKL 314
            + E EE   NL +   + +  +S L  +L  +E  +    + K     +       I +L
Sbjct: 1020 LAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAEL 1079

Query: 315  ITENIELVEKVNDL 328
              +  EL  ++   
Sbjct: 1080 QAQIAELKAQLAKK 1093

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

 Score = 58.3 bits (141), Expect = 3e-09
 Identities = 49/306 (16%), Positives = 102/306 (33%), Gaps = 40/306 (13%)

Query: 83   QREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQR 142
            Q E++  ++    ++R+           L   +  L       +E +QA  EE  +  +R
Sbjct: 817  QLESIFCIQ---YNVRSFMNVXHWPWMXLFFXIXPLLKVTRQEEE-MQAKDEELQRTKER 872

Query: 143  QNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKE---AALEQK 199
            Q     + +   ++  +    +N L  +           LQ+E E + + E     L  K
Sbjct: 873  QQKAEAELKELEQKHTQLCEEKNLLQEK-----------LQAETELYAEAEEMRVRLAAK 921

Query: 200  ISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVEL 259
              +L +    +  +    EER + L+A+K    Q               +  L  Q+ E 
Sbjct: 922  KQELEEILHEMEARIEEEEERSQQLQAEKKKMQQ--------------QMLDLEEQLEEE 967

Query: 260  EESRNNLLQENRQLKENVSSLRSQLSSDES--------KKHATSEQKDFSTQIEAAGALI 311
            E +R  L  E       +  +   +   E         +K       D +T +       
Sbjct: 968  EAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKA 1027

Query: 312  DKLITENIELVEKVNDLSVKLDRQSVAAGLSSAIGSDAVTALTSDTEPMSESSDNMSSLN 371
              L     +    +++L V+L ++  +      I        +   E ++E    ++ L 
Sbjct: 1028 KNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELK 1087

Query: 372  NRLETQ 377
             +L  +
Sbjct: 1088 AQLAKK 1093

>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 = 54.5 bits (131), Expect = 5e-08
 Identities = 28/215 (13%), Positives = 76/215 (35%), Gaps = 13/215 (6%)

Query: 69   ESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK 128
            E A   + + + +     +  +E+ +  + ++     ++   LE  V  L       +EK
Sbjct: 967  EEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEK 1026

Query: 129  VQ-------------ATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGL 175
             +             + LE  +++ ++      + +  LE     L  Q      +   L
Sbjct: 1027 AKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAEL 1086

Query: 176  EMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQME 235
            +  +A  + E +  L +      + +    +   L    + L+E L+  +A ++   + +
Sbjct: 1087 KAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQK 1146

Query: 236  SVSKETIAGLSVDITQLRMQVVELEESRNNLLQEN 270
                E +  L  ++          +E R +  +++
Sbjct: 1147 RDLSEELEALKTELEDTLDTTATQQELRGSDYKDD 1181

>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 = 47.5 bits (113), Expect = 7e-06
 Identities = 42/218 (19%), Positives = 81/218 (37%), Gaps = 22/218 (10%)

Query: 140  LQRQNDLRMQKEATLEETI-KQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEA---- 194
            L R+   + Q++      I   +R+  ++       L   I  L        + +A    
Sbjct: 806  LARKAFAKRQQQLESIFCIQYNVRSFMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEE 865

Query: 195  --ALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQL 252
                +++  +   E   L  K   L E   LL+    + T++ + ++E    L+    +L
Sbjct: 866  LQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQEL 925

Query: 253  RMQVVEL-------EESRNNLLQENRQLKENVSSLRSQLSSDES--------KKHATSEQ 297
               + E+       EE    L  E +++++ +  L  QL  +E+        K  A  + 
Sbjct: 926  EEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKI 985

Query: 298  KDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLDRQ 335
            K     I       +KL  E   L E+V+DL+  L  +
Sbjct: 986  KKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEE 1023

>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 = 45.6 bits (108), Expect = 3e-05
 Identities = 47/243 (19%), Positives = 92/243 (37%), Gaps = 29/243 (11%)

Query: 1    MEDEKKKKRNKKKKNNKQTKTTTDDVAVGADPNHLINGQKDDVRSQASEPADIQNVQVDA 60
             E  ++K + +K   + + K   DD+ +  D N+ +  ++  +  + S+           
Sbjct: 967  EEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSD----------- 1015

Query: 61   DRHQSNGAESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQN 120
                     + NLAE E +     +     E  +  L    +   +    LE   ++L+ 
Sbjct: 1016 --------LTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEG 1067

Query: 121  ECDLYKEKV---QATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEM 177
            E     E++   QA + E   QL ++ +      A LE+  +  +  N L   RE  LE 
Sbjct: 1068 ESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLED--ETSQKNNALKKIRE--LES 1123

Query: 178  NIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESV 237
            +I++LQ + E         E++   L +E  AL   +  LE+ L      ++        
Sbjct: 1124 HISDLQEDLESEKAARNKAEKQKRDLSEELEAL---KTELEDTLDTTATQQELRGSDYKD 1180

Query: 238  SKE 240
              +
Sbjct: 1181 DDD 1183

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

 Score = 65.5 bits (160), Expect = 2e-11
 Identities = 37/222 (16%), Positives = 89/222 (40%), Gaps = 15/222 (6%)

Query: 69   ESANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEK 128
            +      A   +    +A+  L+   + +  +RE    K      +V++         +K
Sbjct: 872  KHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIE--ARSVERY--------KK 921

Query: 129  VQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEF 188
            +   LE  I QLQR+ D + ++  +L E +  L        ++       +   + E + 
Sbjct: 922  LHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKN 981

Query: 189  WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVD 248
               +  +L+++I++LR E      ++ ++EE     + + +   Q+ S  KE    L  +
Sbjct: 982  ATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETE---QLVSELKEQNTLLKTE 1038

Query: 249  ITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESK 290
              +L  ++ +  +     ++  ++L E    L   L+ +  +
Sbjct: 1039 KEELNRRIHDQAKEITETME--KKLVEETKQLELDLNDERLR 1078

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

 Score = 45.9 bits (109), Expect = 3e-05
 Identities = 26/182 (14%), Positives = 67/182 (36%), Gaps = 29/182 (15%)

Query: 75   EAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLE 134
            E +   L ++  +    +  K L  +                 L+       EK+++   
Sbjct: 927  ENKIMQLQRK--IDEQNKEYKSLLEKM--------------NNLEITYSTETEKLRS-DV 969

Query: 135  ETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEA 194
            E ++  + +      +  +L+E I +LR +           +     ++   +   + + 
Sbjct: 970  ERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQ-------TQTEKKTIEEWAD---KYKH 1019

Query: 195  ALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRM 254
              EQ +S+L++++  L  ++  L    ++ +  K+    ME    E    L +D+   R+
Sbjct: 1020 ETEQLVSELKEQNTLLKTEKEELNR--RIHDQAKEITETMEKKLVEETKQLELDLNDERL 1077

Query: 255  QV 256
            + 
Sbjct: 1078 RY 1079

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

 Score = 45.9 bits (109), Expect = 3e-05
 Identities = 33/205 (16%), Positives = 63/205 (30%), Gaps = 27/205 (13%)

Query: 135  ETIQQLQRQNDLRMQKEATLEE---TIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQ 191
              +Q L R   +R + +  L E    I Q   +  L           I  LQ     + +
Sbjct: 843  IALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCC---YRR 899

Query: 192  KEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQ 251
              A  E K  +L+ E+ ++       ++    LE       +               I +
Sbjct: 900  MMAKRELK--KLKIEARSVE----RYKKLHIGLENKIMQLQRK--------------IDE 939

Query: 252  LRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQ-KDFSTQIEAAGAL 310
               +   L E  NNL        E + S   +L   E +    + +      +I      
Sbjct: 940  QNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKE 999

Query: 311  IDKLITENIELVEKVNDLSVKLDRQ 335
            + +  TE   + E  +    + ++ 
Sbjct: 1000 LHQTQTEKKTIEEWADKYKHETEQL 1024

>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 = 63.7 bits (154), Expect = 7e-11
 Identities = 69/470 (14%), Positives = 156/470 (33%), Gaps = 138/470 (29%)

Query: 52  DIQNVQVDADRHQSNGAESANLAEAERQHLLQR----EAMAILEETVKHLRNERESHIQK 107
           D ++VQ D  +        + L++ E  H++           L  T   L +++E  +QK
Sbjct: 34  DCKDVQ-DMPK--------SILSKEEIDHIIMSKDAVSGTLRLFWT---LLSKQEEMVQK 81

Query: 108 --EATLEGT----VQQLQNEC-------DLYKEKVQATLEETIQQLQRQNDLRMQKEATL 154
             E  L       +  ++ E         +Y E+    L    Q   + N  R+Q    L
Sbjct: 82  FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQVFAKYNVSRLQPYLKL 140

Query: 155 EETIKQLRNQNDLHIQREGG-----LEMNIAN---LQSEKE---FWL------QKEAALE 197
            + + +LR   ++ I    G     + +++     +Q + +   FWL        E  LE
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200

Query: 198 Q----------KISQLRDESAALNMKRASLEERLKLLEADK----------DSWTQMESV 237
                        +   D S+ + ++  S++  L+ L   K          +        
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ------ 254

Query: 238 SKETIAGLSVDITQLRMQVVELEESRN----NLLQENRQLKENVSSLRSQLSSDESK--- 290
           + +     + ++   ++ +     +R     + L        ++      L+ DE K   
Sbjct: 255 NAKAWN--AFNL-SCKILLT----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 291 -KHATSEQKDFSTQIEAAGALIDKLITE---------------NIELVEKVNDLSVK-LD 333
            K+     +D   ++         +I E               N + +  + + S+  L+
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Query: 334 ----RQS-VAAGL---SSAIGSDAVTALTSDTEPMSESSDNMSSLNNR--LETQGVVAVK 383
               R+      +   S+ I +  ++ +  D    S+    ++ L+    +E Q     K
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK-SDVMVVVNKLHKYSLVEKQP----K 422

Query: 384 EDRNGINGVHADPPPLVLSSSEAEYSGEIVQIPLDDKEVQDLELQVVESY 433
           E    I  ++ +                 +++ L+++    L   +V+ Y
Sbjct: 423 ESTISIPSIYLE-----------------LKVKLENE--YALHRSIVDHY 453

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C Length = 411

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 23/117 (19%), Positives = 47/117 (40%), Gaps = 7/117 (5%)

Query: 174 GLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEAD----KD 229
           G+   ++  Q++ +  LQ    LE  + Q+ ++++ +     +++      E+      D
Sbjct: 24  GIADFLSTYQTKVDKDLQS---LEDILHQVENKTSEVKQLIKAIQLTYNPDESSKPNMID 80

Query: 230 SWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS 286
           + T       E I      I      +  L+E  N+  Q+   LKE V+ L +Q   
Sbjct: 81  AATLKSRKMLEEIMKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQCQE 137

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 44.2 bits (103), Expect = 8e-05
 Identities = 29/272 (10%), Positives = 84/272 (30%), Gaps = 9/272 (3%)

Query: 70  SANLAEAERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKV 129
            +  A  +R+  L   ++A + E          S     A  + +   +          V
Sbjct: 371 QSLAAYNQRKADLVNRSIAQMREATTLANGVLASLNLPAAIEDVSGDTVPQSILTKSRSV 430

Query: 130 --QATLEETIQQLQRQNDLRMQKEATLEETIKQLRN--QNDLHIQREGGLEMNIANLQSE 185
             Q  ++   Q ++   +L  +    L+E+++ L      D  ++ +             
Sbjct: 431 IEQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNEL 490

Query: 186 KEFWLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSW-TQMESVSKETIAG 244
            +    +       + +       +     S  + + LL   +      + S +      
Sbjct: 491 YKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQ 550

Query: 245 LSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQI 304
            S  +  L+  +  L+E +         LK     + S+  +  ++    +E+    T++
Sbjct: 551 GSEVVNVLKSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTEL 610

Query: 305 EAA----GALIDKLITENIELVEKVNDLSVKL 332
           +         + + + +   L++ +     + 
Sbjct: 611 DRVYGGLTTKVQESLKKQEGLLKNIQVSHQEF 642

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 40.1 bits (93), Expect = 5e-04
 Identities = 15/75 (20%), Positives = 37/75 (49%), Gaps = 8/75 (10%)

Query: 130 QATLE-ETIQQLQRQNDLRMQ-KEATLEETIKQLRNQ-----NDLHIQREGGLEMNIA-N 181
           + T E E+I++ + +   R+Q  +A  +   ++ R +      + + ++   +E N   N
Sbjct: 79  RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138

Query: 182 LQSEKEFWLQKEAAL 196
             ++K F+ Q +A +
Sbjct: 139 RIADKAFYQQPDADI 153

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B* Length = 464

 Score = 41.2 bits (96), Expect = 6e-04
 Identities = 15/109 (13%), Positives = 41/109 (37%), Gaps = 5/109 (4%)

Query: 77  ERQHLLQREAMAILEETVKHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEET 136
            +Q    +  +  L++ V    +   +  Q    ++  + + Q +    ++     L E 
Sbjct: 92  LKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQ----RKDNDIILSEY 147

Query: 137 IQQLQ-RQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQS 184
             +++   N ++   +  +  +++ LR   D   ++   LE  IA    
Sbjct: 148 NTEMELHYNYIKDNLDNNIPSSLRVLRAVIDSLHKKIQKLENAIATQTD 196

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B* Length = 464

 Score = 40.8 bits (95), Expect = 8e-04
 Identities = 13/111 (11%), Positives = 38/111 (34%), Gaps = 3/111 (2%)

Query: 95  KHLRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATL 154
             L  + ++       L+  V +  +      + V   ++  + + Q+Q        +  
Sbjct: 89  TTLLKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNM-IDNKLVKTQKQRKDNDIILSEY 147

Query: 155 EETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRD 205
              ++   N    ++     +  ++  L++  +   +K   LE  I+   D
Sbjct: 148 NTEMELHYNYIKDNLDNN--IPSSLRVLRAVIDSLHKKIQKLENAIATQTD 196

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	474
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.84
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.81
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.23
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.23
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.56
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.47
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	97.3
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.18
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	96.92
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.53
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.81
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	95.72
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	95.28
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	94.99
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	94.82
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	94.22
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	93.69
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	93.28
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	92.38
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	92.31
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	92.24
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.95
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	91.41
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.31
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	89.18
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	88.15
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	87.9
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	87.76
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	87.18
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	85.89
3bas_A	89	Myosin heavy chain, striated muscle/general contro	85.82
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	85.59
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	85.48
1z2t_A	26	Anchor peptide Ser65-Leu87 of ALMGS; lipid binding	85.04
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	84.4
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	84.14
2avr_X	119	Adhesion A; antiparallel helix-loop-helix, leucine	83.39
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	82.72
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	82.67
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	82.37
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	82.25
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	81.3
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	80.91
1m1j_C	409	Fibrinogen gamma chain; coiled coils, disulfide ri	80.78
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	80.55
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	80.51
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	80.17

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.84  E-value=5.5e-05  Score=68.43  Aligned_cols=35  Identities=20%  Similarity=0.167  Sum_probs=15.8

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          294 TSEQKDFSTQIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       294 ~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      ......+..++..+...+..+-.+-..+.+.+..+
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (284)
T 1c1g_A          229 SDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQ  263 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.81  E-value=4.9e-05  Score=68.74  Aligned_cols=39  Identities=18%  Similarity=0.083  Sum_probs=15.5

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhh
Q 011943          294 TSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKL  332 (474)
Q Consensus       294 ~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l  332 (474)
                      ...+..+..++..+......+-.+-..+..+.+.+.+.+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  274 (284)
T 1c1g_A          236 ETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEL  274 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444443333333333344443333

>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=98.23  E-value=4.2e-07  Score=104.18  Aligned_cols=26  Identities=19%  Similarity=0.068  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          303 QIEAAGALIDKLITENIELVEKVNDL  328 (474)
Q Consensus       303 QiEal~d~RK~LwrEnakL~ekvneL  328 (474)
                      ++..+...+..|+++-..|.+.+.+|
T Consensus      1138 ~~~~le~q~~~L~~ele~L~~~Ieel 1163 (1184)
T 1i84_S         1138 ARNKAEKQKRDLSEELEALKTELEDT 1163 (1184)
T ss_dssp             --------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555555555444444

>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=98.23  E-value=2.3e-06  Score=98.15  Aligned_cols=13  Identities=15%  Similarity=0.253  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHH
Q 011943           84 REAMAILEETVKH   96 (474)
Q Consensus        84 ~e~~~~~eeti~~   96 (474)
                      +.|.-+++-.+|.
T Consensus       818 ~~a~~~iQ~~~r~  830 (1184)
T 1i84_S          818 LESIFCIQYNVRS  830 (1184)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4565556665555

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

Probab=97.56  E-value=0.011  Score=56.89  Aligned_cols=81  Identities=17%  Similarity=0.231  Sum_probs=42.9

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHH
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALID  312 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK  312 (474)
                      +|| .++..+..+...+..+..++..++..+..+...+..+...+......+.         ..+.+++.++..+...|.
T Consensus        97 kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~---------~~~~e~~~e~~~l~~~r~  167 (256)
T 3na7_A           97 IEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVE---------NEVKNIKETQQIIFKKKE  167 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHH
Confidence            444 5555555555555555555555555444444444444444444433333         346666777777777777


Q ss_pred             HHHHH-HHHHHh
Q 011943          313 KLITE-NIELVE  323 (474)
Q Consensus       313 ~LwrE-nakL~e  323 (474)
                      .|-.. ++.|..
T Consensus       168 ~l~~~i~~~lL~  179 (256)
T 3na7_A          168 DLVEKTEPKIYS  179 (256)
T ss_dssp             HHHHTSCHHHHH
T ss_pred             HHHhcCCHHHHH
Confidence            66555 444444

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

Probab=97.47  E-value=0.019  Score=54.22  Aligned_cols=164  Identities=13%  Similarity=0.163  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRASL  217 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~~L  217 (474)
                      ..-........+....++..+.+|+.   +..+-++.|+.+|.+++..+..+..+-+.+..++..+..+......-    
T Consensus        13 ~ywk~~~~~~~q~~~~le~El~EFqe---sSrELE~ELE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e----   85 (189)
T 2v71_A           13 AYWKELSMKYKQSFQEARDELVEFQE---GSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQ----   85 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
Confidence            33444445555566666666666654   56777788888888888777777777777777777765555433111    


Q ss_pred             HHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-hhhhhhhh
Q 011943          218 EERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD-ESKKHATS  295 (474)
Q Consensus       218 EERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl-e~~~~~~~  295 (474)
                                   |. ..+ .|+..|..+...+..|...+-.|+..-..++........++..++..+... |.+..|  
T Consensus        86 -------------~~-~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~alL--  149 (189)
T 2v71_A           86 -------------SY-KQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFL--  149 (189)
T ss_dssp             -------------HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             -------------HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH--
Confidence                         11 234 777777777788888888888888888888888888888888888777744 444444  


Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHhhh
Q 011943          296 EQKDFSTQIEAAGALIDKLITENIELVEKVNDLSVKLD  333 (474)
Q Consensus       296 E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~~l~  333 (474)
                           .+.++    .+..|-.+...|+..+.+|...|.
T Consensus       150 -----E~El~----EKe~l~~~~QRLkdE~rDLk~El~  178 (189)
T 2v71_A          150 -----ESELD----EKESLLVSVQRLKDEARDLRQELA  178 (189)
T ss_dssp             -----HHHHH----HHHHHHCCC---------------
T ss_pred             -----HHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 33333    255555566677777777766553

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=97.30  E-value=0.034  Score=51.69  Aligned_cols=134  Identities=15%  Similarity=0.143  Sum_probs=89.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWL  190 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~ll  190 (474)
                      +.+.|..|+.++.++..++++-.+.. ..|......+.+..+.+|..+.+|++......-.+..|+..+..|+...+.-.
T Consensus         4 ~neKi~~LekQL~E~n~kLk~EsE~~-~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr   82 (168)
T 3o0z_A            4 ANEKLSQLQKQLEEANDLLRTESDTA-VRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAER   82 (168)
T ss_dssp             ------CTHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667778888888888887766666 78888889999999999999999999988888888888888888887766533


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          191 QKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLL  267 (474)
Q Consensus       191 qKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~  267 (474)
                      .--....+.+..++..+                      .-|..|+ .++..++....++..|++.+..|+.+.+++.
T Consensus        83 ~~r~q~se~~~elq~ri----------------------~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           83 RDRGHDSEMIGDLQARI----------------------TSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            22233333333332222                      2223444 5555666666666777777777777766665

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

Probab=97.18  E-value=0.029  Score=52.98  Aligned_cols=109  Identities=12%  Similarity=0.161  Sum_probs=71.8

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          125 YKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLR  204 (474)
Q Consensus       125 lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~  204 (474)
                      ..+.||+-++..|.+++..+.++..+.+.+...+..++++.....   ..+..++..|+.++..+...-..|...|..|+
T Consensus        39 sSrELE~ELE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~---~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLE  115 (189)
T 2v71_A           39 GSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQY---AQSYKQVSVLEDDLSQTRAIKEQLHKYVRELE  115 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555556667777788888888888888888877777764433   33445677777777777777777777777777


Q ss_pred             HHHHHHHHhhhhHHHHHHHh------Hhhhhhhhhhhh
Q 011943          205 DESAALNMKRASLEERLKLL------EADKDSWTQMES  236 (474)
Q Consensus       205 ~e~~~L~qKQ~~LEERisQF------KaERDsWLkkEI  236 (474)
                      ..++.|..+..-+..-+.-|      -=||.+||..|+
T Consensus       116 q~NDdlEr~~R~~~~SleD~e~kln~aiEr~alLE~El  153 (189)
T 2v71_A          116 QANDDLERAKRATIMSLEDFEQRLNQAIERNAFLESEL  153 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777655444333333333      225666766666

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

Probab=96.92  E-value=0.15  Score=49.14  Aligned_cols=84  Identities=12%  Similarity=0.068  Sum_probs=41.5

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHH
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALID  312 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK  312 (474)
                      +|. .|...|..+...+..+..++..+.+.+..+...+..+...+..+...+...         ...+...+.++.....
T Consensus        90 kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~---------~~~~~~~~~e~~~e~~  160 (256)
T 3na7_A           90 RELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALEL---------ESLVENEVKNIKETQQ  160 (256)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHH
Confidence            444 444444444444444444444444444444444444444444443333322         3445555555556666


Q ss_pred             HHHHHHHHHHhhhh
Q 011943          313 KLITENIELVEKVN  326 (474)
Q Consensus       313 ~LwrEnakL~ekvn  326 (474)
                      .|..+-..|...+.
T Consensus       161 ~l~~~r~~l~~~i~  174 (256)
T 3na7_A          161 IIFKKKEDLVEKTE  174 (256)
T ss_dssp             HHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhcCC
Confidence            66666666666554

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

Probab=96.53  E-value=0.031  Score=64.20  Aligned_cols=70  Identities=14%  Similarity=0.190  Sum_probs=40.2

Q ss_pred             hhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHH
Q 011943          233 QMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALI  311 (474)
Q Consensus       233 kkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~R  311 (474)
                      .+|. .++..+..+..++..|+.++..+.++...+++.++++++   +|+..+..+      ..++..|++|++++....
T Consensus       976 ~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~~---~L~~kv~~L------~~e~~~L~qq~~~l~~~~ 1046 (1080)
T 2dfs_A          976 EEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKH---ETEQLVSEL------KEQNTLLKTEKEELNRRI 1046 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH------HHHHHHHHHHHHHHHHHH
Confidence            3444 555556666666666666666666666666665555553   334444444      666777777766666433

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

Probab=96.04  E-value=0.089  Score=54.81  Aligned_cols=77  Identities=18%  Similarity=0.186  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 011943          251 QLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVEKVNDLSV  330 (474)
Q Consensus       251 sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~ekvneL~~  330 (474)
                      .+...++.+++....+..+++.++.++......++.+      ..+...++.+++...+....+.++.+.+..+..+|.=
T Consensus       506 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          506 NLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDL------EQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhH------HhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444555555555555555555555555554      6667777777777778888888888888777777754


Q ss_pred             hhh
Q 011943          331 KLD  333 (474)
Q Consensus       331 ~l~  333 (474)
                      +++
T Consensus       580 ~~~  582 (597)
T 3oja_B          580 KKN  582 (597)
T ss_dssp             TTC
T ss_pred             Hhc
Confidence            443

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

Probab=95.81  E-value=2.9  Score=53.37  Aligned_cols=95  Identities=11%  Similarity=0.145  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQ  268 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~e  268 (474)
                      +.++-+.++.++...+.+......+-..|++++..|+++.+..+.+=..|+..+...+..+.....=+..|-.+..-|.+
T Consensus      2012 kr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek~RW~~ 2091 (3245)
T 3vkg_A         2012 LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQ 2091 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccHHH
Confidence            45556666666666666666666666677778888887777765443366666666666666555556666666666777


Q ss_pred             HHHHHHHHHHHHHhh
Q 011943          269 ENRQLKENVSSLRSQ  283 (474)
Q Consensus       269 Eiq~LkeqIseL~~~  283 (474)
                      .++.+..++..+-..
T Consensus      2092 ~~~~l~~~~~~L~GD 2106 (3245)
T 3vkg_A         2092 QSENFNTQMSTVVGD 2106 (3245)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHH
Confidence            676666666655443

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

Probab=95.72  E-value=0.84  Score=39.95  Aligned_cols=42  Identities=21%  Similarity=0.243  Sum_probs=23.4

Q ss_pred             HHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 011943          151 EATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQK  192 (474)
Q Consensus       151 eA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqK  192 (474)
                      .+.++..|+.|+.........+..++.+..+|..++..+...
T Consensus        15 ~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~q   56 (129)
T 2fxo_A           15 MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQ   56 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555566666665555555555666655555555554433

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

Probab=95.28  E-value=0.087  Score=43.69  Aligned_cols=54  Identities=22%  Similarity=0.246  Sum_probs=43.3

Q ss_pred             hhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          234 MES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       234 kEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ..| .|+..|..++..+..|..+...+......|..+|++|+.....|+.++..+
T Consensus        20 dtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A           20 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345 667777777788888888888888888888888888888888888888866

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

Probab=94.99  E-value=5.5  Score=50.91  Aligned_cols=100  Identities=15%  Similarity=0.196  Sum_probs=63.0

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLIT  316 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~Lwr  316 (474)
                      .+++.+..++.+....+.+...++..+..++..++.|+.+......+-+.+      ..+.+....+++.+..+...|=.
T Consensus      2011 Pkr~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L------~~e~~~~~~kl~rA~~Li~gL~~ 2084 (3245)
T 3vkg_A         2011 PLREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQI------KTESSKVKNKVDRSIALLDNLNS 2084 (3245)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhhhh
Confidence            555566666666666666666666666666666666655555554444444      77777778888888888888877


Q ss_pred             HHHHHHhhhhhhhHhhhhhhhhhccc
Q 011943          317 ENIELVEKVNDLSVKLDRQSVAAGLS  342 (474)
Q Consensus       317 EnakL~ekvneL~~~l~~~~~~~~~s  342 (474)
                      |...-.+.+.+|..++...-...=++
T Consensus      2085 Ek~RW~~~~~~l~~~~~~L~GD~LLa 2110 (3245)
T 3vkg_A         2085 ERGRWEQQSENFNTQMSTVVGDVVLA 2110 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhccHHHHHH
Confidence            77777777777655554443443333

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

Probab=94.82  E-value=0.68  Score=53.32  Aligned_cols=30  Identities=23%  Similarity=0.323  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          258 ELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       258 ~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      .|++.+++|..+++.|+.++++++..+.+.
T Consensus      1020 ~L~~kv~~L~~e~~~L~qq~~~l~~~~~~~ 1049 (1080)
T 2dfs_A         1020 ETEQLVSELKEQNTLLKTEKEELNRRIHDQ 1049 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666666555544

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

Probab=94.22  E-value=0.58  Score=48.68  Aligned_cols=64  Identities=14%  Similarity=0.096  Sum_probs=31.2

Q ss_pred             HhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 011943          152 ATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAALNMKRA  215 (474)
Q Consensus       152 A~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L~qKQ~  215 (474)
                      ..++.+.+.+........+......+.+..++.++..+.++-...++++.++..+...+.++-.
T Consensus       512 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~  575 (597)
T 3oja_B          512 THLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVK  575 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence            3333334444333333344444444455555555555555555555566555555554443333

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=93.69  E-value=4.1  Score=37.25  Aligned_cols=85  Identities=22%  Similarity=0.234  Sum_probs=54.4

Q ss_pred             hhhhhhhhhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHH
Q 011943           97 LRNERESHIQKEATLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLE  176 (474)
Q Consensus        97 l~~e~d~~~~~e~~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LE  176 (474)
                      +..+.+--..+=...+..|..|++++...-..|+.        |+.--....+++..+|.+|+.|.....-...+-...+
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKs--------LE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AE   97 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKS--------LEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAE   97 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc--------chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444566667778888888888877777644        5555566777777888888887777666655554444


Q ss_pred             HHHHHHHHHHHHH
Q 011943          177 MNIANLQSEKEFW  189 (474)
Q Consensus       177 e~IkqLq~EI~~l  189 (474)
                      ..+..|+..|+.+
T Consensus        98 Rsv~kLEk~id~l  110 (155)
T 2efr_A           98 RSVTKLEKSIDDL  110 (155)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444443

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=93.28  E-value=5.2  Score=37.15  Aligned_cols=87  Identities=17%  Similarity=0.240  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHh----HhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          197 EQKISQLRDESAALNMKRASLEERLKLL----EADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQ  272 (474)
Q Consensus       197 eeeL~~L~~e~~~L~qKQ~~LEERisQF----KaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~  272 (474)
                      +..+.+|++....|......|+..+..|    ..||..|.+..    +.+..++.-+.+|..++..+.........++..
T Consensus        47 E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~s----e~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~  122 (168)
T 3o0z_A           47 ESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDS----EMIGDLQARITSLQEEVKHLKHNLEKVEGERKE  122 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333334444444444    34455554432    344555566777777778888888888888888


Q ss_pred             HHHHHHHHHhhhhhh
Q 011943          273 LKENVSSLRSQLSSD  287 (474)
Q Consensus       273 LkeqIseL~~~iqtl  287 (474)
                      |.+.|+.|+.....+
T Consensus       123 L~Ekl~~lEKe~a~~  137 (168)
T 3o0z_A          123 AQDMLNHSEKEKNNL  137 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            888888887766655

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=92.31  E-value=1.3  Score=47.60  Aligned_cols=42  Identities=12%  Similarity=0.166  Sum_probs=22.9

Q ss_pred             chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          237 VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVS  278 (474)
Q Consensus       237 sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIs  278 (474)
                      .|++.|..|+..+..-...+..|+..+..+..+||.|...|+
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDId  155 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDID  155 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555555554445555555555555555555555444

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

Probab=92.24  E-value=1.7  Score=35.94  Aligned_cols=67  Identities=13%  Similarity=0.256  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          135 ETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKIS  201 (474)
Q Consensus       135 EkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~  201 (474)
                      +-+.+|+.....++..++-+...|.+|+.++....+....+...-..|..++..|.++-..-..+|+
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~   72 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQ   72 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4467788888888888888888999998888877766665333333333333333333333333333

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

Probab=91.95  E-value=4.2  Score=35.38  Aligned_cols=68  Identities=15%  Similarity=0.219  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHH
Q 011943          112 EGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIA  180 (474)
Q Consensus       112 Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~Ik  180 (474)
                      -.+|..|++++..+... ...+..+|+.|+-.++++=+..-..-..+.+|..+......+.+.|+.+|.
T Consensus        34 ~~~~~~Lq~El~~lr~~-~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~aiErnalLE~El~  101 (111)
T 2v66_B           34 YKQVSVLEDDLSQTRAI-KEQLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQAIERNAFLESELD  101 (111)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666655 444555556677777776666666666677776666666666666666554

>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=91.41  E-value=6.7  Score=34.15  Aligned_cols=101  Identities=17%  Similarity=0.179  Sum_probs=48.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHH
Q 011943          110 TLEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFW  189 (474)
Q Consensus       110 ~~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~l  189 (474)
                      -.++.++.++.++..++.+++..-..+ +.|+..+..+++....       |.....+-...-+..++....|......+
T Consensus        10 ~~e~E~~~~~eel~~lke~l~k~e~~r-~ele~~~~~l~~Ek~~-------L~~qL~~E~~~l~e~EE~~~~L~~~k~eL   81 (129)
T 2fxo_A           10 EREKEMASMKEEFTRLKEALEKSEARR-KELEEKMVSLLQEKND-------LQLQVQAEQDNLADAEERCDQLIKNKIQL   81 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            345666667777777766664433333 4444444444444333       33333333333334444455554444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Q 011943          190 LQKEAALEQKISQLRDESAALNMKRASLE  218 (474)
Q Consensus       190 lqKEa~LeeeL~~L~~e~~~L~qKQ~~LE  218 (474)
                      -.+-..+..++......+..|..+-..|+
T Consensus        82 e~~l~el~~rleeeee~~~~L~~~kkkle  110 (129)
T 2fxo_A           82 EAKVKEMNKRLEDEEEMNAELTAKKRKLE  110 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444555544444444444434333

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=89.18  E-value=13  Score=33.94  Aligned_cols=19  Identities=37%  Similarity=0.483  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDES  207 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~  207 (474)
                      .-++|..++.+|..|+...
T Consensus        68 asqrEd~yEeqIk~L~~kL   86 (155)
T 2efr_A           68 YSQKEDKYEEEIKVLSDKL   86 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4455555555555554443

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

Probab=88.15  E-value=5.5  Score=32.81  Aligned_cols=56  Identities=21%  Similarity=0.270  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          154 LEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAA  209 (474)
Q Consensus       154 lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~  209 (474)
                      +...+.+|+.+.+.-...+...+..+..|+...+..----..|+.++..|..+...
T Consensus        26 ~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~f   81 (86)
T 3swk_A           26 LAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEIAF   81 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555555555555555555555444444555555555555443

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=87.90  E-value=11  Score=31.64  Aligned_cols=24  Identities=13%  Similarity=0.195  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHh
Q 011943          140 LQRQNDLRMQKEATLEETIKQLRN  163 (474)
Q Consensus       140 Le~E~~~~lQkeA~lE~kIkdLq~  163 (474)
                      |+.+.+.++-+...++..++.+..
T Consensus        14 lk~e~e~a~drae~~e~~~k~~e~   37 (101)
T 3u1c_A           14 LKLDKENALDRAEQAEADKKAAEE   37 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444433

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=87.76  E-value=4.2  Score=37.22  Aligned_cols=63  Identities=17%  Similarity=0.121  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q 011943          255 QVVELEESRNNLLQENRQLKENVSSLRSQLSSDESKKHATSEQKDFSTQIEAAGALIDKLITENIELVE  323 (474)
Q Consensus       255 QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtle~~~~~~~E~~dLksQiEal~d~RK~LwrEnakL~e  323 (474)
                      .+..|+..+..+...+.+|.+.+.+-...++.+      ..|+..|+-++..+.+....|-.||..|++
T Consensus        69 ~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l------~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~  131 (152)
T 3a7p_A           69 TLAILQKELKSKEQEIRRLKEVIALKNKNTERL------NAALISGTIENNVLQQKLSDLKKEHSQLVA  131 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555555555555444444444      667777788888888888888889988887

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

Probab=87.18  E-value=14  Score=32.07  Aligned_cols=37  Identities=8%  Similarity=0.074  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          174 GLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       174 ~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      .+...|..|+-.++.+-..+...-..|..++.+...-
T Consensus        53 ~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~a   89 (111)
T 2v66_B           53 QLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQA   89 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3444555555556666555555555555555554433

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=85.89  E-value=14  Score=30.86  Aligned_cols=79  Identities=10%  Similarity=0.120  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 011943          116 QQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAA  195 (474)
Q Consensus       116 kqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~  195 (474)
                      ..|+.++..++.. +..+...+..|+.++...-..+..++.....|...-...-.....+.-++-.++.+..++..+..-
T Consensus         7 ~~l~~eL~~l~~e-E~~L~~eL~~lEke~~~l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~   85 (96)
T 3q8t_A            7 EQLQRELKELALE-EERLIQELEDVEKNRKVVAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRY   85 (96)
T ss_dssp             HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555554 444444445555555555555555555555555444444443444444444444444444333333

>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=85.82  E-value=11  Score=31.11  Aligned_cols=46  Identities=20%  Similarity=0.218  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhHHHH
Q 011943          111 LEGTVQQLQNECDLYKEKVQATLEETIQQLQRQNDLRMQKEATLEET  157 (474)
Q Consensus       111 ~Ee~IkqLqeEi~~lkqkLE~lleEkikQLe~E~~~~lQkeA~lE~k  157 (474)
                      .++.++.++.++..++..++-.-..+ +.|+..+..+++..+.+...
T Consensus        12 ~eeEm~~~eeel~~lke~l~k~e~~r-kele~~~~~l~~ek~~L~~q   57 (89)
T 3bas_A           12 QEEEMKEQLKQMDKMKEDLAKTERIK-KELEEQNVTLLEQKNDLFGS   57 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            45555556666666655554333333 44444444444444444444

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=85.59  E-value=21  Score=38.60  Aligned_cols=34  Identities=24%  Similarity=0.273  Sum_probs=21.4

Q ss_pred             HHHHhhhhHHHHHHHh----Hhhhhhhhhhhh-chHHHH
Q 011943          209 ALNMKRASLEERLKLL----EADKDSWTQMES-VSKETI  242 (474)
Q Consensus       209 ~L~qKQ~~LEERisQF----KaERDsWLkkEI-sLke~I  242 (474)
                      .+.+++.+++|++.|+    +.||..|++.-- .|..++
T Consensus       516 ~~~~~~~~~~e~~~ql~~kme~~~~~~~~e~~~~~~~~~  554 (592)
T 1f5n_A          516 MMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKL  554 (592)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556777888888886    666666664433 444443

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=85.48  E-value=15  Score=30.80  Aligned_cols=66  Identities=20%  Similarity=0.129  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          138 QQLQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWLQKEAALEQKISQLRDESAAL  210 (474)
Q Consensus       138 kQLe~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~~L  210 (474)
                      .+++.+....-+.-..+|..|..|+-++       ..++..+..++........+-...+......+.++..|
T Consensus        26 e~~e~~~k~~e~~~~~~E~Ei~sL~kk~-------~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L   91 (101)
T 3u1c_A           26 EQAEADKKAAEERSKQLEDDIVQLEKQL-------RVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASL   91 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444332       23444444444444444444444444444444444444

>1z2t_A Anchor peptide Ser65-Leu87 of ALMGS; lipid binding protein; NMR {Synthetic}

Probab=85.04  E-value=0.3  Score=31.89  Aligned_cols=13  Identities=62%  Similarity=1.001  Sum_probs=11.8

Q ss_pred             chhHhHHHHhhcc
Q 011943          451 PFRLVSFVAKYVS  463 (474)
Q Consensus       451 pfrlisfva~yvs  463 (474)
                      -|||+-||-|||-
T Consensus         4 gfrlvlfvkryvr   16 (26)
T 1z2t_A            4 GFRLVLFVKRYVR   16 (26)
T ss_dssp             CTTHHHHHHHHTH
T ss_pred             cEEEeeeHHHHHH
Confidence            4999999999994

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C

Probab=84.40  E-value=9.1  Score=39.94  Aligned_cols=91  Identities=14%  Similarity=0.163  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQ  268 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~e  268 (474)
                      +++.+..++..|.+|+..++.+.+.-....+.+.-++   ++|...+-.....+......-..+.+++..++.-+.....
T Consensus        29 L~kye~~V~~~l~~L~~~l~~isn~Ts~~~~~v~~ik---~~~~~~q~~~~~n~~~~~q~Skkml~~~~~~~~~~~~~~~  105 (411)
T 3ghg_C           29 LSTYQTKVDKDLQSLEDILHQVENKTSEVKQLIKAIQ---LTYNPDESSKPNMIDAATLKSRKMLEEIMKYEASILTHDS  105 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHCTTTCCCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccchhhHHHHHHHHHHHHHhhhhHHHHHHHHHH---HhhccccCCCCcchhhHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            7788888889999999999888888885555555554   8888887766665555555555677777777777777777


Q ss_pred             HHHHHHHHHHHHHh
Q 011943          269 ENRQLKENVSSLRS  282 (474)
Q Consensus       269 Eiq~LkeqIseL~~  282 (474)
                      .|..|+..+.....
T Consensus       106 ~i~~l~~~~~~~~~  119 (411)
T 3ghg_C          106 SIRYLQEIYNSNNQ  119 (411)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777666555433

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

Probab=84.14  E-value=15  Score=30.13  Aligned_cols=51  Identities=24%  Similarity=0.264  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHH
Q 011943          140 LQRQNDLRMQKEATLEETIKQLRNQNDLHIQREGGLEMNIANLQSEKEFWL  190 (474)
Q Consensus       140 Le~E~~~~lQkeA~lE~kIkdLq~~~~s~~QkEa~LEe~IkqLq~EI~~ll  190 (474)
                      ++..+..=+...+.+|-.|.-|+.-.+..--.+..|+.++..|+.||..+.
T Consensus        33 fk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~fLk   83 (86)
T 3swk_A           33 LREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEIAFLK   83 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444556678899999999999999999999999999999999998764

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=82.72  E-value=3.9  Score=36.51  Aligned_cols=45  Identities=13%  Similarity=0.282  Sum_probs=17.8

Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 011943          241 TIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLS  285 (474)
Q Consensus       241 ~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iq  285 (474)
                      .+..+..++.+|.+++..++..+.++..++..|+..+..|+.++.
T Consensus        83 ~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~  127 (138)
T 3hnw_A           83 DIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIV  127 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444444444444444444433333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=82.67  E-value=22  Score=36.15  Aligned_cols=30  Identities=13%  Similarity=0.233  Sum_probs=18.9

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q 011943          294 TSEQKDFSTQIEAAGALIDKLITENIELVE  323 (474)
Q Consensus       294 ~~E~~dLksQiEal~d~RK~LwrEnakL~e  323 (474)
                      ..++.++.-++.++.+.-+.+.+.++-|-+
T Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  484 (487)
T 3oja_A          455 KKLNGEADLALASANATLQELVVREQNLAS  484 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhHhcccHHHHHHHHHHHHHH
Confidence            555666666666666666666666665543

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

Probab=82.37  E-value=7.6  Score=33.71  Aligned_cols=58  Identities=17%  Similarity=0.310  Sum_probs=17.1

Q ss_pred             hhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          229 DSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       229 DsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqt  286 (474)
                      +.|.+.-+ .++..+......+.....++.++...+..|.-+++.++.+...|+..+..
T Consensus        10 E~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e   68 (129)
T 3tnu_B           10 ESWYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIAD   68 (129)
T ss_dssp             ------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            34444444 44444444444444444444444444444555555554444444444443

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=82.25  E-value=14  Score=37.33  Aligned_cols=58  Identities=12%  Similarity=0.120  Sum_probs=40.6

Q ss_pred             hhhhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 011943          227 DKDSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       227 ERDsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqtl  287 (474)
                      ....||++.+ .++..+...+.+-..+-+-|..|..++..-+.+   -..+|.+++.++.++
T Consensus       397 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~  455 (471)
T 3mq9_A          397 NVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQ---GQKKVEELEGEITTL  455 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            3467788888 888888888888888888888888776655444   223566665554444

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=81.30  E-value=22  Score=29.58  Aligned_cols=23  Identities=17%  Similarity=0.228  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHH
Q 011943          140 LQRQNDLRMQKEATLEETIKQLR  162 (474)
Q Consensus       140 Le~E~~~~lQkeA~lE~kIkdLq  162 (474)
                      |..+.+.++-+.-.++..++.+.
T Consensus        14 lk~e~e~a~d~ae~~e~~~k~~e   36 (101)
T 3u59_A           14 LKLDKENAIDRAEQAEADKKQAE   36 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444433

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

Probab=80.91  E-value=6.7  Score=34.21  Aligned_cols=58  Identities=19%  Similarity=0.193  Sum_probs=14.3

Q ss_pred             hhhhhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 011943          229 DSWTQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSSLRSQLSS  286 (474)
Q Consensus       229 DsWLkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIseL~~~iqt  286 (474)
                      +.|.+.-+ .++..+......+.....++.++...+..|.-+++.++.+...|+.++..
T Consensus        12 E~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e   70 (131)
T 3tnu_A           12 EEWFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEE   70 (131)
T ss_dssp             -----------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            44444444 44444444444444444444444444444444444444444444444443

>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C

Probab=80.78  E-value=8.5  Score=39.99  Aligned_cols=94  Identities=9%  Similarity=0.084  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          189 WLQKEAALEQKISQLRDESAALNMKRASLEERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQ  268 (474)
Q Consensus       189 llqKEa~LeeeL~~L~~e~~~L~qKQ~~LEERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~e  268 (474)
                      +.+.+..+...|..|+..+..+..+-.....-+   ++=.+.|-+.|-.....+.........+.+++..++..+.....
T Consensus        29 L~k~e~~V~~~l~~LE~~l~elsn~ts~v~~Lv---k~iq~~~~~~Q~~~~d~~e~~tq~skkml~~~~~~e~~~~~~~~  105 (409)
T 1m1j_C           29 FNKYRLTTDGELLEIEGLLQQATNSTGSIEYLI---QHIKTIYPSEKQTLPQSIEQLTQKSKKIIEEIIRYENTILAHEN  105 (409)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHSCSSTTCCSSCHHHHHHHHHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhcccccCCCCCchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            445555566666666555555544444222222   22235566655543333333344555677777777777777777


Q ss_pred             HHHHHHHHHHHHHhhhh
Q 011943          269 ENRQLKENVSSLRSQLS  285 (474)
Q Consensus       269 Eiq~LkeqIseL~~~iq  285 (474)
                      ++..|+..+..++..|+
T Consensus       106 ~i~~l~~~~~~~~~~i~  122 (409)
T 1m1j_C          106 TIQQLTDMHIMNSNKIT  122 (409)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHH
Confidence            77777666665544444

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

Probab=80.55  E-value=24  Score=29.38  Aligned_cols=34  Identities=15%  Similarity=0.228  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          175 LEMNIANLQSEKEFWLQKEAALEQKISQLRDESA  208 (474)
Q Consensus       175 LEe~IkqLq~EI~~llqKEa~LeeeL~~L~~e~~  208 (474)
                      .+..|..|+..++.+...-+.+.-+++.+.....
T Consensus        54 ye~~i~~Lr~~i~~~~~ek~~l~~e~dnl~~~~~   87 (93)
T 3s4r_A           54 YEEEMRELRRQVDQLTNDKARVEVERDNLAEDIM   87 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444443

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

Probab=80.51  E-value=12  Score=32.66  Aligned_cols=56  Identities=20%  Similarity=0.210  Sum_probs=31.0

Q ss_pred             hhhhh-chHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhhhh
Q 011943          232 TQMES-VSKETIAGLSVDITQLRMQVVELEESRNNLLQ----ENRQLKENVSSLRSQLSSD  287 (474)
Q Consensus       232 LkkEI-sLke~Issl~~~~~sLq~QV~~LEesl~sL~e----Eiq~LkeqIseL~~~iqtl  287 (474)
                      .+.|| .++..|.++..++.++..+...|+..+..+..    +...++..|..++.+++.+
T Consensus        36 ~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           36 GKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667 77777777777777777777776666655443    3344444555555444443

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=80.17  E-value=14  Score=29.76  Aligned_cols=62  Identities=15%  Similarity=0.210  Sum_probs=28.9

Q ss_pred             HHHHHHhHhhhhhhhhhhhchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011943          218 EERLKLLEADKDSWTQMESVSKETIAGLSVDITQLRMQVVELEESRNNLLQENRQLKENVSS  279 (474)
Q Consensus       218 EERisQFKaERDsWLkkEIsLke~Issl~~~~~sLq~QV~~LEesl~sL~eEiq~LkeqIse  279 (474)
                      ..|+.+++.+.|.|.-+=..+...+...+.....+..+|..|...+..+..+.....+.+..
T Consensus         5 kkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~   66 (81)
T 1ic2_A            5 KKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKD   66 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555444444444444444444444444444444444444444444444333

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	474
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	84.91

>d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: MW0975(SA0943)-like
family: MW0975(SA0943)-like
domain: Hypothetical protein MW0975 (SA0943)
species: Staphylococcus aureus [TaxId: 1280]

Probab=84.91  E-value=6.9  Score=30.09  Aligned_cols=27  Identities=15%  Similarity=0.062  Sum_probs=12.2

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011943          296 EQKDFSTQIEAAGALIDKLITENIELV  322 (474)
Q Consensus       296 E~~dLksQiEal~d~RK~LwrEnakL~  322 (474)
                      .+..+..++..+......+.+.-..+.
T Consensus       145 ~~~~l~~~~~~l~~~~~~~~~~~~~~~  171 (185)
T d2ap3a1         145 TQQGVNEKSKAIEQNYKKLKEVSDKYT  171 (185)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444443333