Citrus Sinensis ID: 046547

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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---
Protein Sequence
MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS
Secondary Structure (PSIPRED)
cHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHcHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHcHcccHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVdakdyqqiPELLGSFeeacqnpnpfsflsnfpqnhrIKVIDEMLEsfiplrprsrpkiaYDYLLSYTLQSLHPLPLALAILQRTlrsgcvpvpqiRLLLSSAWLERRCQSQSVADILLEMKsigyhpdcgtcnyLVSSLCAIDQLVEAAKVLKgmssaecvpdlesySIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLerkgcpigfqGYEVVVEGCLECREYILAGKtvmgmtergfipYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS
Flexible Loop (DISEMBL)
MMIGAIKSCRSLVNFRPCLLQFsslrsmsslRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGlagvgewklaTVVRQRFAELKS
Low Complexity Region (SEG)
MMIGAIKSCRSLVNFRPCllqfsslrsmsslrtlEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS
Disordered region (IsUnstruct)
****AIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF*****
Disordered Region (DISOPRED)
MMIGAI*SCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK*
Disordered Region (DISEMBL)
MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS
Disordered Region (DISPRO)
MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	343	2.2.26 [Sep-21-2011]
Q9LNC0	343	Pentatricopeptide repeat-	yes	no	0.953	0.953	0.639	1e-120
Q9SZ52	1112	Pentatricopeptide repeat-	no	no	0.758	0.233	0.239	9e-11
Q9SSR6	523	Pentatricopeptide repeat-	no	no	0.580	0.380	0.231	7e-10
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.682	0.391	0.234	4e-09
P0C8R0	546	Putative pentatricopeptid	no	no	0.553	0.347	0.235	4e-09
Q9FFE3	535	Pentatricopeptide repeat-	no	no	0.731	0.469	0.241	5e-09
Q9SR00	602	Pentatricopeptide repeat-	no	no	0.501	0.285	0.265	6e-09
Q0WPZ6	874	Pentatricopeptide repeat-	no	no	0.536	0.210	0.259	1e-08
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.527	0.383	0.231	1e-08
Q9FLL3	527	Pentatricopeptide repeat-	no	no	0.615	0.400	0.214	4e-08

>sp|Q9LNC0|PPR16_ARATH Pentatricopeptide repeat-containing protein At1g06270 OS=Arabidopsis thaliana GN=At1g06270 PE=2 SV=1

 Score =  431 bits (1107), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 211/330 (63%), Positives = 259/330 (78%), Gaps = 3/330 (0%)

Query: 14  NFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNF 73
           +F  C+  F   RS+SS   +E+ ++ AV+ K+Y +IPEL+ S +E  QN   FSFLS F
Sbjct: 17  SFDVCIPFF---RSISSFEAVEKAIKCAVETKEYLRIPELVVSLKEPYQNSTLFSFLSAF 73

Query: 74  PQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVP 133
            ++HRI+VIDE+L+SF+P+RPRS PKI Y  LL+Y LQS  PLPL+ AILQRTLRSGC+P
Sbjct: 74  QRHHRIRVIDEILQSFVPVRPRSLPKIVYSSLLTYCLQSSDPLPLSFAILQRTLRSGCLP 133

Query: 134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKV 193
            PQ  LLLS AWLERR  SQSVADI+ EMK IGY PD GTCNYLVSSLCA+D+L EA KV
Sbjct: 134 NPQTHLLLSDAWLERRRGSQSVADIINEMKLIGYSPDTGTCNYLVSSLCAVDKLDEAIKV 193

Query: 194 LKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR 253
           ++ MS+A C+PD+ESY  VI ++  ARKT D V+++KEMV   G+ PR+GM+ KVAAALR
Sbjct: 194 VEEMSAAGCIPDVESYGAVINSLCLARKTTDVVKIVKEMVSKAGISPRKGMLTKVAAALR 253

Query: 254 ANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK 313
           ANRE+WKA+EMIEF+E +  P+ F+ YEVVVEGCLE REYILAGK VM MT+RGFIPYIK
Sbjct: 254 ANREIWKAIEMIEFVESRDYPVEFESYEVVVEGCLEVREYILAGKVVMRMTDRGFIPYIK 313

Query: 314 VRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           VRQKVVE L  +GEWKLA  VRQR +EL+S
Sbjct: 314 VRQKVVERLINIGEWKLACTVRQRVSELRS 343

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ52|PP344_ARATH Pentatricopeptide repeat-containing protein At4g31850, chloroplastic OS=Arabidopsis thaliana GN=PGR3 PE=1 SV=1

 Score = 68.2 bits (165), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 64/267 (23%), Positives = 115/267 (43%), Gaps = 7/267 (2%)

Query: 78  RIKVIDEMLESFIPLRPRSRPKIAYDYL--LSYTLQSLHPLPLALAILQRTLRSGCVPVP 135
           R+  +D+ LE F  +        AY Y+  + Y  +S   +  AL   ++    G  P  
Sbjct: 410 RVHRLDDALELFGNMESLGVKPTAYTYIVFIDYYGKSGDSVS-ALETFEKMKTKGIAP-- 466

Query: 136 QIRLLLSSAW-LERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVL 194
            I    +S + L +  + +    I   +K IG  PD  T N ++     + ++ EA K+L
Sbjct: 467 NIVACNASLYSLAKAGRDREAKQIFYGLKDIGLVPDSVTYNMMMKCYSKVGEIDEAIKLL 526

Query: 195 KGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA 254
             M    C PD+   + +I  +  A + ++A +M   M   M L P       + A L  
Sbjct: 527 SEMMENGCEPDVIVVNSLINTLYKADRVDEAWKMFMRMK-EMKLKPTVVTYNTLLAGLGK 585

Query: 255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKV 314
           N ++ +A+E+ E + +KGCP     +  + +   +  E  LA K +  M + G +P +  
Sbjct: 586 NGKIQEAIELFEGMVQKGCPPNTITFNTLFDCLCKNDEVTLALKMLFKMMDMGCVPDVFT 645

Query: 315 RQKVVEGLAGVGEWKLATVVRQRFAEL 341
              ++ GL   G+ K A     +  +L
Sbjct: 646 YNTIIFGLVKNGQVKEAMCFFHQMKKL 672

Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSR6|PPR78_ARATH Pentatricopeptide repeat-containing protein At1g52640, mitochondrial OS=Arabidopsis thaliana GN=At1g52640 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 48/207 (23%), Positives = 91/207 (43%), Gaps = 8/207 (3%)

Query: 119 ALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVA---DILLEMKSIGYHPDCGTCN 175
           A  +    L   CV    + LL  +A L+  C+S  V     +  EM ++G  PD  +  
Sbjct: 227 ARKVFDEMLERNCV----VDLLAYNALLDALCKSGDVDGGYKMFQEMGNLGLKPDAYSFA 282

Query: 176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN 235
             + + C    +  A KVL  M   + VP++ +++ +I  +    K +DA  ++ EM+  
Sbjct: 283 IFIHAYCDAGDVHSAYKVLDRMKRYDLVPNVYTFNHIIKTLCKNEKVDDAYLLLDEMI-Q 341

Query: 236 MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL 295
            G  P       + A    + E+ +A +++  ++R  C      Y +V++  +    +  
Sbjct: 342 KGANPDTWTYNSIMAYHCDHCEVNRATKLLSRMDRTKCLPDRHTYNMVLKLLIRIGRFDR 401

Query: 296 AGKTVMGMTERGFIPYIKVRQKVVEGL 322
           A +   GM+ER F P +     ++ GL
Sbjct: 402 ATEIWEGMSERKFYPTVATYTVMIHGL 428

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 57/243 (23%), Positives = 112/243 (46%), Gaps = 9/243 (3%)

Query: 100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVAD-- 157
           + Y+ +L  +L     L  A+ +L R L+  C P     ++  +  +E  C+   V    
Sbjct: 205 VTYNTILR-SLCDSGKLKQAMEVLDRMLQRDCYP----DVITYTILIEATCRDSGVGHAM 259

Query: 158 -ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM 216
            +L EM+  G  PD  T N LV+ +C   +L EA K L  M S+ C P++ +++I++ +M
Sbjct: 260 KLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSM 319

Query: 217 STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG 276
            +  +  DA +++ +M L  G  P       +   L     + +A++++E + + GC   
Sbjct: 320 CSTGRWMDAEKLLADM-LRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPN 378

Query: 277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQ 336
              Y  ++ G  + ++   A + +  M  RG  P I     ++  L   G+ + A  +  
Sbjct: 379 SLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILN 438

Query: 337 RFA 339
           + +
Sbjct: 439 QLS 441

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8R0|PP416_ARATH Putative pentatricopeptide repeat-containing protein At5g43820 OS=Arabidopsis thaliana GN=At5g43820 PE=3 SV=1

 Score = 62.4 bits (150), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/191 (23%), Positives = 90/191 (47%), Gaps = 1/191 (0%)

Query: 146 LERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD 205
           L R  +     +I   +K  G  PD    N ++ +  +     E+ +  + M   EC P+
Sbjct: 300 LGRTGRINDSVEIFDNIKHKGNVPDANVYNAMICNFISARDFDESMRYYRRMLDEECEPN 359

Query: 206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI 265
           LE+YS ++  +   RK +DA+E+ +EM L+ G++P  G+V      L +      A+ + 
Sbjct: 360 LETYSKLVSGLIKGRKVSDALEIFEEM-LSRGVLPTTGLVTSFLKPLCSYGPPHAAMVIY 418

Query: 266 EFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV 325
           +   + GC I    Y+++++      +  +       M E G+   ++V + +V+GL  +
Sbjct: 419 QKSRKAGCRISESAYKLLLKRLSRFGKCGMLLNVWDEMQESGYPSDVEVYEYIVDGLCII 478

Query: 326 GEWKLATVVRQ 336
           G  + A +V +
Sbjct: 479 GHLENAVLVME 489

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFE3|PP388_ARATH Pentatricopeptide repeat-containing protein At5g16420, mitochondrial OS=Arabidopsis thaliana GN=At5g16420 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 64/265 (24%), Positives = 108/265 (40%), Gaps = 14/265 (5%)

Query: 68  SFLSNFPQNHRIKVIDEML----ESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAIL 123
           + L+   QN R  ++  M     ESF        P I    LL   L   + +  A  +L
Sbjct: 160 TLLNVLIQNQRFDLVHAMFKNSKESF-----GITPNIFTCNLLVKALCKKNDIESAYKVL 214

Query: 124 QRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCA 183
                 G VP       +   ++ R    +S   +L EM   G++PD  T   L+   C 
Sbjct: 215 DEIPSMGLVPNLVTYTTILGGYVAR-GDMESAKRVLEEMLDRGWYPDATTYTVLMDGYCK 273

Query: 184 IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG 243
           + +  EAA V+  M   E  P+  +Y ++I A+   +K+ +A  M  EM L    MP   
Sbjct: 274 LGRFSEAATVMDDMEKNEIEPNEVTYGVMIRALCKEKKSGEARNMFDEM-LERSFMPDSS 332

Query: 244 MVIKVAAALRANREMWKAVEMIEFLERKGC-PIGFQGYEVVVEGCLECREYILAGKTVMG 302
           +  KV  AL  + ++ +A  +   + +  C P       ++   C E R  +   + +  
Sbjct: 333 LCCKVIDALCEDHKVDEACGLWRKMLKNNCMPDNALLSTLIHWLCKEGR--VTEARKLFD 390

Query: 303 MTERGFIPYIKVRQKVVEGLAGVGE 327
             E+G IP +     ++ G+   GE
Sbjct: 391 EFEKGSIPSLLTYNTLIAGMCEKGE 415

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR00|PP213_ARATH Pentatricopeptide repeat-containing protein At3g04760, chloroplastic OS=Arabidopsis thaliana GN=At3g04760 PE=2 SV=1

 Score = 62.0 bits (149), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 48/181 (26%), Positives = 86/181 (47%), Gaps = 9/181 (4%)

Query: 112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVAD---ILLEMKSIGYH 168
           +L  +P A+ +++   + G     Q  +   +A +   C+   + D   +L  M+S  + 
Sbjct: 136 TLRNIPKAVRVMEILEKFG-----QPDVFAYNALINGFCKMNRIDDATRVLDRMRSKDFS 190

Query: 169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEM 228
           PD  T N ++ SLC+  +L  A KVL  + S  C P + +Y+I+I A       ++A+++
Sbjct: 191 PDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKL 250

Query: 229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL 288
           M EM L+ GL P       +   +     + +A EM+  LE KGC      Y +++   L
Sbjct: 251 MDEM-LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALL 309

Query: 289 E 289
            
Sbjct: 310 N 310

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WPZ6|PP158_ARATH Pentatricopeptide repeat-containing protein At2g17140 OS=Arabidopsis thaliana GN=At2g17140 PE=2 SV=1

 Score = 61.2 bits (147), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 62/239 (25%), Positives = 102/239 (42%), Gaps = 55/239 (23%)

Query: 112 SLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPD 170
           S+  +  A ++LQ  +R+ C+P      +LL S W   R       ++L +M   GY  D
Sbjct: 408 SVGKVDAAKSLLQEMMRNNCLPNAYTCNILLHSLWKMGRISE--AEELLRKMNEKGYGLD 465

Query: 171 CGTCNYLVSSLCAIDQLVEAAKVLKGM----SSA-------------------ECVPDLE 207
             TCN +V  LC   +L +A +++KGM    S+A                    C+PDL 
Sbjct: 466 TVTCNIIVDGLCGSGELDKAIEIVKGMRVHGSAALGNLGNSYIGLVDDSLIENNCLPDLI 525

Query: 208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-------------RQGMVIKVAAALRA 254
           +YS ++  +  A +  +A  +  EM +   L P             +QG   K+++A R 
Sbjct: 526 TYSTLLNGLCKAGRFAEAKNLFAEM-MGEKLQPDSVAYNIFIHHFCKQG---KISSAFRV 581

Query: 255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMG-MTERGFIPYI 312
            ++M          E+KGC    + Y  ++ G L  +  I     +M  M E+G  P I
Sbjct: 582 LKDM----------EKKGCHKSLETYNSLILG-LGIKNQIFEIHGLMDEMKEKGISPNI 629

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNL2|PP418_ARATH Pentatricopeptide repeat-containing protein At5g46100 OS=Arabidopsis thaliana GN=At5g46100 PE=2 SV=1

 Score = 61.2 bits (147), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/186 (23%), Positives = 85/186 (45%), Gaps = 5/186 (2%)

Query: 150 CQSQSVAD----ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD 205
           C++    D    I LEM   G  PD  T   L+S LC   ++ EA K+   M   +C P 
Sbjct: 167 CRNDGTVDAGLKIFLEMPKRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPT 226

Query: 206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI 265
           + +Y+ +I  +  ++  ++A+  ++EM  + G+ P       +   L  +    +A+E+ 
Sbjct: 227 VVTYTSLINGLCGSKNVDEAMRYLEEMK-SKGIEPNVFTYSSLMDGLCKDGRSLQAMELF 285

Query: 266 EFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV 325
           E +  +GC      Y  ++ G  + ++   A + +  M  +G  P   +  KV+ G   +
Sbjct: 286 EMMMARGCRPNMVTYTTLITGLCKEQKIQEAVELLDRMNLQGLKPDAGLYGKVISGFCAI 345

Query: 326 GEWKLA 331
            +++ A
Sbjct: 346 SKFREA 351

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLL3|PP412_ARATH Pentatricopeptide repeat-containing protein At5g41170, mitochondrial OS=Arabidopsis thaliana GN=At5g41170 PE=2 SV=1

 Score = 59.3 bits (142), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 47/219 (21%), Positives = 98/219 (44%), Gaps = 8/219 (3%)

Query: 119 ALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVA---DILLEMKSIGYHPDCGTCN 175
           A++++ + +  G  P     +++ +  ++  C++  V     +  +M++ G  PD     
Sbjct: 161 AMSMVNQMVEMGIKP----DVVMYTTIIDSLCKNGHVNYALSLFDQMENYGIRPDVVMYT 216

Query: 176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN 235
            LV+ LC   +  +A  +L+GM+  +  PD+ +++ +I A     K  DA E+  EM+  
Sbjct: 217 SLVNGLCNSGRWRDADSLLRGMTKRKIKPDVITFNALIDAFVKEGKFLDAEELYNEMI-R 275

Query: 236 MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL 295
           M + P       +         + +A +M   +E KGC      Y  ++ G  +C++   
Sbjct: 276 MSIAPNIFTYTSLINGFCMEGCVDEARQMFYLMETKGCFPDVVAYTSLINGFCKCKKVDD 335

Query: 296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV 334
           A K    M+++G          +++G   VG+  +A  V
Sbjct: 336 AMKIFYEMSQKGLTGNTITYTTLIQGFGQVGKPNVAQEV 374

Arabidopsis thaliana (taxid: 3702)

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	343
225446521	343	PREDICTED: pentatricopeptide repeat-cont	1.0	1.0	0.685	1e-132
356543880	342	PREDICTED: pentatricopeptide repeat-cont	0.997	1.0	0.647	1e-121
224122026	341	predicted protein [Populus trichocarpa]	0.979	0.985	0.632	1e-119
297848900	343	pentatricopeptide repeat-containing prot	0.953	0.953	0.639	1e-118
18390636	343	pentatricopeptide repeat-containing prot	0.953	0.953	0.639	1e-118
449443213	343	PREDICTED: pentatricopeptide repeat-cont	1.0	1.0	0.583	1e-117
255568347	354	pentatricopeptide repeat-containing prot	0.965	0.935	0.623	1e-116
295828236	182	AT1G06270-like protein [Neslia paniculat	0.530	1.0	0.670	1e-65
345288407	182	AT1G06270-like protein, partial [Capsell	0.530	1.0	0.675	1e-65
295828230	182	AT1G06270-like protein [Capsella grandif	0.530	1.0	0.675	6e-65

>gi|225446521|ref|XP_002278909.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06270 [Vitis vinifera] gi|302143379|emb|CBI21940.3| unnamed protein product [Vitis vinifera]

 Score =  477 bits (1227), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 235/343 (68%), Positives = 275/343 (80%)

Query: 1   MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA 60
           M IGA K CRSL +F   L Q SS+ S++S +TLEE+++AAV++K YQ+IP+LL S EE 
Sbjct: 1   MAIGATKLCRSLFHFHYSLRQISSIHSITSSQTLEESIKAAVESKTYQKIPDLLISLEET 60

Query: 61  CQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLAL 120
           C NPNPFSFLS F QN R +V+DE+L+SFIPLRPRSRP+IAY  LLS+TLQS +PLPLAL
Sbjct: 61  CLNPNPFSFLSTFSQNLRTQVVDEILQSFIPLRPRSRPQIAYACLLSFTLQSANPLPLAL 120

Query: 121 AILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS 180
           AILQRTLRSGC+PVPQ  LLLSSAWL RR QS SV++IL EM+SIGY+PDCGTCNYL+ S
Sbjct: 121 AILQRTLRSGCIPVPQTHLLLSSAWLSRRRQSHSVSNILSEMQSIGYYPDCGTCNYLILS 180

Query: 181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP 240
           LCAIDQLVEA  VLK M    C+PDLE Y  VIGAM   R+T DA E+MKEMV  +GL P
Sbjct: 181 LCAIDQLVEAVIVLKSMGQVGCIPDLEGYGSVIGAMCAMRRTTDATELMKEMVAKIGLTP 240

Query: 241 RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV 300
           RQG V+ + AALRA +E+WKAVEMIEFLE +    GF  YE V+EGCL C E++LAGK V
Sbjct: 241 RQGTVLNLVAALRAKKEIWKAVEMIEFLEGEDFNAGFASYESVLEGCLACHEFVLAGKVV 300

Query: 301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           MGMT RGFIPYI VRQKVVEGLA +GEWKLA  VRQRFA+L+S
Sbjct: 301 MGMTARGFIPYIGVRQKVVEGLANLGEWKLALAVRQRFADLRS 343

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543880|ref|XP_003540386.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06270-like [Glycine max]

 Score =  441 bits (1133), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 222/343 (64%), Positives = 275/343 (80%), Gaps = 1/343 (0%)

Query: 1   MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA 60
           M++ A+   R L+ FRP L +    RS+SSL+ LE+ VRA V+AK+Y +IPELL S  +A
Sbjct: 1   MVMVAMMHYRFLLCFRPILNRCPLGRSVSSLQNLEQAVRAEVEAKNYIKIPELLIS-SDA 59

Query: 61  CQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLAL 120
           CQ  NPFSF S+FPQN R++++DEML+S IP+RPRS+ ++ Y YLLSYTLQS HP PLAL
Sbjct: 60  CQISNPFSFFSSFPQNIRVQIVDEMLQSLIPIRPRSKAQLTYSYLLSYTLQSSHPFPLAL 119

Query: 121 AILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS 180
           A+LQRTLRSGCVPVPQ  +LLSSAWL++ C S SVA+ILL+M+SIGYHPDCGTCNYL+SS
Sbjct: 120 AVLQRTLRSGCVPVPQTHVLLSSAWLDQHCLSHSVANILLQMQSIGYHPDCGTCNYLLSS 179

Query: 181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP 240
           LCA+DQL EA KVL+GM  A C+PD  SY  VIGAM   RKT  A+++MK+MV+  GL P
Sbjct: 180 LCAVDQLEEAVKVLRGMGGAGCIPDSSSYGAVIGAMCRVRKTAKALDLMKQMVVQYGLTP 239

Query: 241 RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV 300
            QG ++K+ AALRANRE+WKAVEMIEFLE++G  +GF+ YE+V+EGCLE REY+LA K  
Sbjct: 240 GQGTLVKLLAALRANREIWKAVEMIEFLEKEGNSVGFESYELVIEGCLEKREYVLAAKVA 299

Query: 301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
            GMTERGFIPYI+VRQK++EGLA + EW LA  VRQRFA LKS
Sbjct: 300 TGMTERGFIPYIRVRQKIIEGLASIDEWNLACAVRQRFAALKS 342

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122026|ref|XP_002330712.1| predicted protein [Populus trichocarpa] gi|222872316|gb|EEF09447.1| predicted protein [Populus trichocarpa]

 Score =  434 bits (1117), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 215/340 (63%), Positives = 263/340 (77%), Gaps = 4/340 (1%)

Query: 5   AIKSCRSLVNFRPCLLQFSSLRSMSSLRT-LEETVRAAVDAKDYQQIPELLGSFEEACQN 63
           A K  +SL+ +   LLQF   R++S+  T LEET++AAV+ K Y + P+L  SF+++  N
Sbjct: 5   ATKLSKSLLPYSKILLQF---RTLSTSHTPLEETLKAAVECKSYSKFPDLFDSFKQSNNN 61

Query: 64  PNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAIL 123
           P+PFSFLS FP N R +VIDE+++S IP+RPR R  I Y  LLSYTLQ+ +   L+LAI+
Sbjct: 62  PSPFSFLSTFPFNLRTQVIDEIIQSLIPIRPRFRNFIVYSSLLSYTLQNSNLFSLSLAII 121

Query: 124 QRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCA 183
           Q TLRSGC+PVPQ  + LSSAWL+RR + QSV DIL+EMKSIGY+PDCG CNY+V SLC 
Sbjct: 122 QCTLRSGCLPVPQTHVSLSSAWLDRRREGQSVGDILMEMKSIGYNPDCGLCNYIVLSLCN 181

Query: 184 IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG 243
           +DQL+EA KVLKGM    C PD ESY IVIGAM   RK +DA+EMMKEMV+ M L PRQG
Sbjct: 182 VDQLIEAVKVLKGMKQVGCFPDWESYGIVIGAMCRVRKCDDAIEMMKEMVVRMRLCPRQG 241

Query: 244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM 303
           +V+KV AALRANREM KA EMIEFLE++G  +GF+ YE+VVEGCLEC+++ LA K VMGM
Sbjct: 242 VVVKVLAALRANREMRKAGEMIEFLEKEGYGVGFESYELVVEGCLECKDFFLAAKVVMGM 301

Query: 304 TERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           TE+GFIPYIKVRQKVVEGL   GEWKLA  VR+RFA L S
Sbjct: 302 TEKGFIPYIKVRQKVVEGLIDAGEWKLACTVRERFAALSS 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848900|ref|XP_002892331.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297338173|gb|EFH68590.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  431 bits (1107), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 211/330 (63%), Positives = 257/330 (77%), Gaps = 3/330 (0%)

Query: 14  NFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNF 73
           +F  C   F   RS+SS   +E+ ++ AV+ K+Y +IPEL+ S +E  QN   FSFLS F
Sbjct: 17  SFNAC---FPFFRSISSFEAVEKAIKCAVETKEYLRIPELVVSLKEPYQNSMLFSFLSAF 73

Query: 74  PQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVP 133
              HRI+VIDE+L+SF+P+RPRS PKI Y  LL+Y LQS  PLPL+ AILQRTLRSGC+P
Sbjct: 74  QHQHRIRVIDEILQSFVPVRPRSLPKIVYSSLLTYCLQSSDPLPLSFAILQRTLRSGCLP 133

Query: 134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKV 193
            PQ +LLLS AWLERR  SQSVADI+ EMK IGY PD GTCNYLVSSLCA+D+L EA KV
Sbjct: 134 NPQTQLLLSDAWLERRRGSQSVADIINEMKLIGYSPDTGTCNYLVSSLCAVDKLDEAIKV 193

Query: 194 LKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR 253
           ++ M +A C+PD+ESY  VI ++  ARKTND V+++KEMV   G+ PR+GM+ KVAAALR
Sbjct: 194 VEEMGAAGCIPDVESYGAVINSLCLARKTNDVVKIVKEMVSKAGISPRKGMLTKVAAALR 253

Query: 254 ANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK 313
           ANRE+WKA+EMIEF+E +  P+ F+ YEVVVEGCLE REYILAGK VM MT+RGFIPYIK
Sbjct: 254 ANREIWKAIEMIEFVESRDYPVEFESYEVVVEGCLEVREYILAGKMVMRMTDRGFIPYIK 313

Query: 314 VRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           VRQKVVE L  +GEWKLA  VRQR +EL+S
Sbjct: 314 VRQKVVERLISIGEWKLACTVRQRLSELRS 343

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18390636|ref|NP_563765.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75264068|sp|Q9LNC0.1|PPR16_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g06270 gi|8844132|gb|AAF80224.1|AC025290_13 Contains similarity to an unknown protein F23N19.4 gi|6630464 from Arabidopsis thaliana gb|AC007190 and contains multiple PPR PF|01535 repeats. EST gb|T44174 comes from this gene [Arabidopsis thaliana] gi|17529194|gb|AAL38823.1| unknown protein [Arabidopsis thaliana] gi|20465473|gb|AAM20196.1| unknown protein [Arabidopsis thaliana] gi|21536601|gb|AAM60933.1| unknown [Arabidopsis thaliana] gi|332189849|gb|AEE27970.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  431 bits (1107), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 211/330 (63%), Positives = 259/330 (78%), Gaps = 3/330 (0%)

Query: 14  NFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNF 73
           +F  C+  F   RS+SS   +E+ ++ AV+ K+Y +IPEL+ S +E  QN   FSFLS F
Sbjct: 17  SFDVCIPFF---RSISSFEAVEKAIKCAVETKEYLRIPELVVSLKEPYQNSTLFSFLSAF 73

Query: 74  PQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVP 133
            ++HRI+VIDE+L+SF+P+RPRS PKI Y  LL+Y LQS  PLPL+ AILQRTLRSGC+P
Sbjct: 74  QRHHRIRVIDEILQSFVPVRPRSLPKIVYSSLLTYCLQSSDPLPLSFAILQRTLRSGCLP 133

Query: 134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKV 193
            PQ  LLLS AWLERR  SQSVADI+ EMK IGY PD GTCNYLVSSLCA+D+L EA KV
Sbjct: 134 NPQTHLLLSDAWLERRRGSQSVADIINEMKLIGYSPDTGTCNYLVSSLCAVDKLDEAIKV 193

Query: 194 LKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR 253
           ++ MS+A C+PD+ESY  VI ++  ARKT D V+++KEMV   G+ PR+GM+ KVAAALR
Sbjct: 194 VEEMSAAGCIPDVESYGAVINSLCLARKTTDVVKIVKEMVSKAGISPRKGMLTKVAAALR 253

Query: 254 ANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK 313
           ANRE+WKA+EMIEF+E +  P+ F+ YEVVVEGCLE REYILAGK VM MT+RGFIPYIK
Sbjct: 254 ANREIWKAIEMIEFVESRDYPVEFESYEVVVEGCLEVREYILAGKVVMRMTDRGFIPYIK 313

Query: 314 VRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           VRQKVVE L  +GEWKLA  VRQR +EL+S
Sbjct: 314 VRQKVVERLINIGEWKLACTVRQRVSELRS 343

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443213|ref|XP_004139374.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06270-like [Cucumis sativus] gi|449483078|ref|XP_004156487.1| PREDICTED: pentatricopeptide repeat-containing protein At1g06270-like [Cucumis sativus]

 Score =  426 bits (1096), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 200/343 (58%), Positives = 263/343 (76%)

Query: 1   MMIGAIKSCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA 60
           M IG  K+   L+NF   L Q+SS+ S+S  +TL+++++AAV++K Y+++P+L  S +EA
Sbjct: 1   MNIGRTKTSAFLLNFHHFLGQYSSIHSISPSQTLQDSIKAAVESKSYKKLPDLFPSLQEA 60

Query: 61  CQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLAL 120
           C NPN F FLS FP N R +V+DE+L+S I +RPRS+ +  +  LL YTLQS  P PL+L
Sbjct: 61  CHNPNLFLFLSTFPLNLRTQVVDEILQSLISIRPRSKSQFVHGSLLFYTLQSPSPFPLSL 120

Query: 121 AILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS 180
            +LQR L SGCVP PQ   LLSSAWL++R Q++SVA+IL++M+SIGY PD   CNYL+SS
Sbjct: 121 PVLQRILHSGCVPSPQTHFLLSSAWLKQRSQAKSVANILMDMQSIGYKPDSNICNYLISS 180

Query: 181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP 240
           LC+I +L EA +VLKGM  A C+PDLESY  +I A +  R+T+ AVE++KEMV+ + LMP
Sbjct: 181 LCSIGELAEAFQVLKGMGGAGCIPDLESYGTLIHAATAVRRTDKAVELLKEMVVKVKLMP 240

Query: 241 RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV 300
           RQG +  V AALR NRE+ +AVE+IE LER    +GF+ YE++VEGCLECREYILAGK  
Sbjct: 241 RQGTITNVVAALRTNREVRRAVEIIELLERDSHDVGFESYELLVEGCLECREYILAGKVT 300

Query: 301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           MGMT+RGFIPYIKVRQ+VVEGLAG+GE +LA+ VR+RF EL S
Sbjct: 301 MGMTDRGFIPYIKVRQEVVEGLAGIGEVELASAVRRRFVELGS 343

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568347|ref|XP_002525148.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535607|gb|EEF37275.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  423 bits (1088), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 209/335 (62%), Positives = 258/335 (77%), Gaps = 4/335 (1%)

Query: 10  RSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFE-EACQNPNPFS 68
           R+ +        FS  RS+SSL   E +++AA++ + YQ+IP+LL S + ++  NPNPFS
Sbjct: 23  RAAIKLHQIAFNFSLCRSISSL---ERSIKAAIETESYQEIPDLLISSKIQSLHNPNPFS 79

Query: 69  FLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLR 128
           FLS FP N R  +ID++L+SFI +RP SR K+ Y  LLS+TLQS +PLPLALAILQR  R
Sbjct: 80  FLSTFPLNQRTHIIDKILQSFITIRPHSRLKLVYSCLLSHTLQSPNPLPLALAILQRGFR 139

Query: 129 SGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV 188
           SG +P PQIRL L+SAWL  R Q  +VA ILLEM+SIGY+PDCG CNY++ SLC++DQL 
Sbjct: 140 SGFMPEPQIRLFLTSAWLNTRVQLHTVAGILLEMESIGYYPDCGICNYIIYSLCSVDQLP 199

Query: 189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV 248
           EA KVLKGMS A CVPDLE Y  VIG+MS ARKT DAVE+MKEMV+ +GL PRQG ++K+
Sbjct: 200 EAVKVLKGMSGAGCVPDLECYDTVIGSMSKARKTVDAVEIMKEMVVKVGLNPRQGTMMKL 259

Query: 249 AAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGF 308
           AAALRANRE+  AVE+IEFLER+GC +GF  Y++V+EGCLE +EYILA K VM MT++GF
Sbjct: 260 AAALRANREILIAVELIEFLEREGCVVGFGCYQLVLEGCLERKEYILAAKVVMRMTDKGF 319

Query: 309 IPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS 343
           IPYIKVRQKVVEGL     W +A  VRQRFAEL S
Sbjct: 320 IPYIKVRQKVVEGLIDADAWNIACTVRQRFAELSS 354

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|295828236|gb|ADG37787.1| AT1G06270-like protein [Neslia paniculata]

 Score =  256 bits (654), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 122/182 (67%), Positives = 146/182 (80%)

Query: 117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNY 176
           PL+ AILQRTLRSGC+P P   LLLS AWLERR  SQSVADI+ EMK +GY PD GTCNY
Sbjct: 1   PLSFAILQRTLRSGCLPNPHTHLLLSDAWLERRRGSQSVADIINEMKLVGYSPDTGTCNY 60

Query: 177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM 236
           LVSSLCA+D+L EA KV++ M +A C+PD+ESY  VI ++  ARKTND V ++KEMV   
Sbjct: 61  LVSSLCAVDKLDEAIKVVEEMGAAGCIPDVESYGAVINSLCLARKTNDVVNIVKEMVSKA 120

Query: 237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILA 296
           G+ PR+GM+ KVA+ALRANRE WKA+EMIEF+E +  P+ F+ YEVVVEGCLE REYILA
Sbjct: 121 GISPRKGMLTKVASALRANRETWKAIEMIEFVESRDYPVEFESYEVVVEGCLEVREYILA 180

Query: 297 GK 298
           GK
Sbjct: 181 GK 182

Source: Neslia paniculata

Species: Neslia paniculata

Genus: Neslia

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|345288407|gb|AEN80695.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288409|gb|AEN80696.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288411|gb|AEN80697.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288413|gb|AEN80698.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288415|gb|AEN80699.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288417|gb|AEN80700.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288419|gb|AEN80701.1| AT1G06270-like protein, partial [Capsella rubella] gi|345288421|gb|AEN80702.1| AT1G06270-like protein, partial [Capsella rubella]

 Score =  256 bits (654), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 123/182 (67%), Positives = 147/182 (80%)

Query: 117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNY 176
           PL+ AILQRTLRSGC+P PQ  LLLS AWL+RR  SQSVADI+ EMK IGY PD GTCNY
Sbjct: 1   PLSFAILQRTLRSGCLPNPQTHLLLSDAWLQRRRGSQSVADIINEMKLIGYSPDTGTCNY 60

Query: 177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM 236
           LVSSLCA+D+L EA KV++ M +A C+PD+ESY  VI ++  ARKTND V ++KEMV   
Sbjct: 61  LVSSLCAVDKLDEAIKVVEEMGAAGCIPDVESYGAVINSLCLARKTNDVVNIVKEMVSKA 120

Query: 237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILA 296
            + PR+GM+ KVA+ALRANRE WKA+EMIEF+E +G P+ F+ YEVVVEGCLE REYILA
Sbjct: 121 RISPRKGMLTKVASALRANRETWKAIEMIEFVESRGYPVEFESYEVVVEGCLEIREYILA 180

Query: 297 GK 298
           GK
Sbjct: 181 GK 182

Source: Capsella rubella

Species: Capsella rubella

Genus: Capsella

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|295828230|gb|ADG37784.1| AT1G06270-like protein [Capsella grandiflora]

 Score =  254 bits (648), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 123/182 (67%), Positives = 145/182 (79%)

Query: 117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNY 176
           PL+ AILQRTLRSGC P  Q  LLLS AWLERR  SQSVADI+ EMK IGY PD GTCNY
Sbjct: 1   PLSFAILQRTLRSGCXPNXQTHLLLSDAWLERRRGSQSVADIINEMKLIGYSPDTGTCNY 60

Query: 177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM 236
           LVSSLCA+D+L EA KV++ M +A C+PD+ESY  VI ++  ARKTND V ++KEMV   
Sbjct: 61  LVSSLCAVDKLDEAIKVVEEMGAAGCIPDVESYGAVINSLCLARKTNDVVNIVKEMVSKA 120

Query: 237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILA 296
            + PR+GM+ KVA+ALRANRE WKA+EMIEF+E +G P+ F+ YEVVVEGCLE REYILA
Sbjct: 121 RISPRKGMLTKVASALRANRETWKAIEMIEFVESRGYPVEFESYEVVVEGCLEVREYILA 180

Query: 297 GK 298
           GK
Sbjct: 181 GK 182

Source: Capsella grandiflora

Species: Capsella grandiflora

Genus: Capsella

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	343
TAIR|locus:2038525	343	AT1G06270 "AT1G06270" [Arabido	0.900	0.900	0.660	5.1e-106
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.723	0.223	0.254	2.9e-10
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.647	0.371	0.242	1.7e-09
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.647	0.470	0.231	3.1e-09
TAIR|locus:2170907	546	AT5G43820 [Arabidopsis thalian	0.521	0.327	0.238	5.3e-09
TAIR|locus:2119747	660	EMB1025 "embryo defective 1025	0.758	0.393	0.239	2e-08
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.772	0.402	0.218	2.6e-08
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.755	0.343	0.258	3.1e-08
TAIR|locus:2009787	806	AT1G30290 "AT1G30290" [Arabido	0.591	0.251	0.246	4.5e-08
TAIR|locus:2084978	602	AT3G04760 [Arabidopsis thalian	0.498	0.284	0.266	4.9e-08

TAIR|locus:2038525 AT1G06270 "AT1G06270" [Arabidopsis thaliana (taxid:3702)]

 Score = 1049 (374.3 bits), Expect = 5.1e-106, P = 5.1e-106
 Identities = 204/309 (66%), Positives = 248/309 (80%)

Query:    35 EETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRP 94
             E+ ++ AV+ K+Y +IPEL+ S +E  QN   FSFLS F ++HRI+VIDE+L+SF+P+RP
Sbjct:    35 EKAIKCAVETKEYLRIPELVVSLKEPYQNSTLFSFLSAFQRHHRIRVIDEILQSFVPVRP 94

Query:    95 RSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQS 154
             RS PKI Y  LL+Y LQS  PLPL+ AILQRTLRSGC+P PQ  LLLS AWLERR  SQS
Sbjct:    95 RSLPKIVYSSLLTYCLQSSDPLPLSFAILQRTLRSGCLPNPQTHLLLSDAWLERRRGSQS 154

Query:   155 VADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIG 214
             VADI+ EMK IGY PD GTCNYLVSSLCA+D+L EA KV++ MS+A C+PD+ESY  VI 
Sbjct:   155 VADIINEMKLIGYSPDTGTCNYLVSSLCAVDKLDEAIKVVEEMSAAGCIPDVESYGAVIN 214

Query:   215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCP 274
             ++  ARKT D V+++KEMV   G+ PR+GM+ KVAAALRANRE+WKA+EMIEF+E +  P
Sbjct:   215 SLCLARKTTDVVKIVKEMVSKAGISPRKGMLTKVAAALRANREIWKAIEMIEFVESRDYP 274

Query:   275 IGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV 334
             + F+ YEVVVEGCLE REYILAGK VM MT+RGFIPYIKVRQKVVE L  +GEWKLA  V
Sbjct:   275 VEFESYEVVVEGCLEVREYILAGKVVMRMTDRGFIPYIKVRQKVVERLINIGEWKLACTV 334

Query:   335 RQRFAELKS 343
             RQR +EL+S
Sbjct:   335 RQRVSELRS 343

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0042170 "plastid membrane" evidence=IDA

TAIR|locus:2116772 PGR3 "AT4G31850" [Arabidopsis thaliana (taxid:3702)]

 Score = 177 (67.4 bits), Expect = 2.9e-10, P = 2.9e-10
 Identities = 66/259 (25%), Positives = 115/259 (44%)

Query:    78 RIKVIDEMLESFIPLRPRSRPKIAYDYL--LSYTLQSLHPLPLALAILQRTLRSGCVPVP 135
             R+  +D+ LE F  +        AY Y+  + Y  +S   +  AL   ++    G  P  
Sbjct:   410 RVHRLDDALELFGNMESLGVKPTAYTYIVFIDYYGKSGDSVS-ALETFEKMKTKGIAP-- 466

Query:   136 QIRLLLSSAW-LERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVL 194
              I    +S + L +  + +    I   +K IG  PD  T N ++     + ++ EA K+L
Sbjct:   467 NIVACNASLYSLAKAGRDREAKQIFYGLKDIGLVPDSVTYNMMMKCYSKVGEIDEAIKLL 526

Query:   195 KGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA 254
               M    C PD+   + +I  +  A + ++A +M   M   M L P       + A L  
Sbjct:   527 SEMMENGCEPDVIVVNSLINTLYKADRVDEAWKMFMRMK-EMKLKPTVVTYNTLLAGLGK 585

Query:   255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR--EYILAGKTVMGMTERGFIPYI 312
             N ++ +A+E+ E + +KGCP     +  + + CL C+  E  LA K +  M + G +P +
Sbjct:   586 NGKIQEAIELFEGMVQKGCPPNTITFNTLFD-CL-CKNDEVTLALKMLFKMMDMGCVPDV 643

Query:   313 KVRQKVVEGLAGVGEWKLA 331
                  ++ GL   G+ K A
Sbjct:   644 FTYNTIIFGLVKNGQVKEA 662

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 1.7e-09, P = 1.7e-09
 Identities = 56/231 (24%), Positives = 106/231 (45%)

Query:   100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVAD-- 157
             + Y+ +L     S   L  A+ +L R L+  C P     ++  +  +E  C+   V    
Sbjct:   205 VTYNTILRSLCDS-GKLKQAMEVLDRMLQRDCYP----DVITYTILIEATCRDSGVGHAM 259

Query:   158 -ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM 216
              +L EM+  G  PD  T N LV+ +C   +L EA K L  M S+ C P++ +++I++ +M
Sbjct:   260 KLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSM 319

Query:   217 STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG 276
              +  +  DA +++ +M L  G  P       +   L     + +A++++E + + GC   
Sbjct:   320 CSTGRWMDAEKLLADM-LRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPN 378

Query:   277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE 327
                Y  ++ G  + ++   A + +  M  RG  P I     ++  L   G+
Sbjct:   379 SLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGK 429

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2161408 AT5G46100 "AT5G46100" [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 3.1e-09, P = 3.1e-09
 Identities = 55/238 (23%), Positives = 106/238 (44%)

Query:   101 AYDYLLSYTLQSLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVAD-- 157
             AY  +L+  ++  + L LA    +     G  P V  + +L+ +      C++    D  
Sbjct:   123 AYVTVLAILVEE-NQLNLAFKFYKNMREIGLPPTVASLNVLIKAL-----CRNDGTVDAG 176

Query:   158 --ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGA 215
               I LEM   G  PD  T   L+S LC   ++ EA K+   M   +C P + +Y+ +I  
Sbjct:   177 LKIFLEMPKRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLING 236

Query:   216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI 275
             +  ++  ++A+  ++EM  + G+ P       +   L  +    +A+E+ E +  +GC  
Sbjct:   237 LCGSKNVDEAMRYLEEMK-SKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRP 295

Query:   276 GFQGYEVVVEGCLECREYIL--AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA 331
                 Y  ++ G   C+E  +  A + +  M  +G  P   +  KV+ G   + +++ A
Sbjct:   296 NMVTYTTLITGL--CKEQKIQEAVELLDRMNLQGLKPDAGLYGKVISGFCAISKFREA 351

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2170907 AT5G43820 [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 5.3e-09, P = 5.3e-09
 Identities = 43/180 (23%), Positives = 87/180 (48%)

Query:   157 DILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM 216
             +I   +K  G  PD    N ++ +  +     E+ +  + M   EC P+LE+YS ++  +
Sbjct:   311 EIFDNIKHKGNVPDANVYNAMICNFISARDFDESMRYYRRMLDEECEPNLETYSKLVSGL 370

Query:   217 STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG 276
                RK +DA+E+ +EM L+ G++P  G+V      L +      A+ + +   + GC I 
Sbjct:   371 IKGRKVSDALEIFEEM-LSRGVLPTTGLVTSFLKPLCSYGPPHAAMVIYQKSRKAGCRIS 429

Query:   277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQ 336
                Y+++++      +  +       M E G+   ++V + +V+GL  +G  + A +V +
Sbjct:   430 ESAYKLLLKRLSRFGKCGMLLNVWDEMQESGYPSDVEVYEYIVDGLCIIGHLENAVLVME 489

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2119747 EMB1025 "embryo defective 1025" [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 2.0e-08, P = 2.0e-08
 Identities = 64/267 (23%), Positives = 111/267 (41%)

Query:    63 NPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL-LSYTLQSLHPLPLALA 121
             +PN  SF        +++ +D  +E F  +  R      Y Y  L   L     +  A+ 
Sbjct:   184 SPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCLPDGYTYCTLMDGLCKEERIDEAVL 243

Query:   122 ILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSL 181
             +L      GC P P I  +L    L ++     V  ++  M   G  P+  T N L+  L
Sbjct:   244 LLDEMQSEGCSPSPVIYNVLIDG-LCKKGDLTRVTKLVDNMFLKGCVPNEVTYNTLIHGL 302

Query:   182 CAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR 241
             C   +L +A  +L+ M S++C+P+  +Y  +I  +   R+  DAV ++  M    G    
Sbjct:   303 CLKGKLDKAVSLLERMVSSKCIPNDVTYGTLINGLVKQRRATDAVRLLSSME-ERGYHLN 361

Query:   242 QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE-YILAGKTV 300
             Q +   + + L    +  +A+ +   +  KGC      Y V+V+G   CRE      K +
Sbjct:   362 QHIYSVLISGLFKEGKAEEAMSLWRKMAEKGCKPNIVVYSVLVDGL--CREGKPNEAKEI 419

Query:   301 MG-MTERGFIPYIKVRQKVVEGLAGVG 326
             +  M   G +P       +++G    G
Sbjct:   420 LNRMIASGCLPNAYTYSSLMKGFFKTG 446

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP;NAS

TAIR|locus:2099458 AT3G48810 "AT3G48810" [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 2.6e-08, P = 2.6e-08
 Identities = 60/275 (21%), Positives = 114/275 (41%)

Query:    52 ELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ 111
             EL   FE      N  + ++   + H  K   E++   +  +  S   I+Y  L++    
Sbjct:   237 ELAERFEPVVSVYN--ALINGLCKEHDYKGAFELMREMVE-KGISPNVISYSTLINVLCN 293

Query:   112 SLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEM-KSIGYHP 169
             S   + LA + L + L+ GC P +  +  L+   +L  R  +    D+  +M +  G  P
Sbjct:   294 S-GQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFL--RGTTFDALDLWNQMIRGFGLQP 350

Query:   170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM 229
             +    N LV   C+   +V+A  V   M    C P++ +Y  +I   +     + AV + 
Sbjct:   351 NVVAYNTLVQGFCSHGNIVKAVSVFSHMEEIGCSPNIRTYGSLINGFAKRGSLDGAVYIW 410

Query:   230 KEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE 289
              +M L  G  P   +   +  AL  + +  +A  +IE + ++ C      +   ++G  +
Sbjct:   411 NKM-LTSGCCPNVVVYTNMVEALCRHSKFKEAESLIEIMSKENCAPSVPTFNAFIKGLCD 469

Query:   290 CREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLA 323
                   A K    M ++   P  I    ++++GLA
Sbjct:   470 AGRLDWAEKVFRQMEQQHRCPPNIVTYNELLDGLA 504

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 3.1e-08, P = 3.1e-08
 Identities = 69/267 (25%), Positives = 116/267 (43%)

Query:    68 SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTL 127
             S +S   +   +K   E+L+  I  R  S   + Y+ L+S TL   + +  A   L R L
Sbjct:   335 SVISGLCKLGEVKEAVEVLDQMIT-RDCSPNTVTYNTLIS-TLCKENQVEEATE-LARVL 391

Query:   128 RS-GCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID 185
              S G +P V     L+    L R    +   ++  EM+S G  PD  T N L+ SLC+  
Sbjct:   392 TSKGILPDVCTFNSLIQGLCLTRN--HRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKG 449

Query:   186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMV 245
             +L EA  +LK M  + C   + +Y+ +I     A KT +A E+  EM ++ G+       
Sbjct:   450 KLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVH-GVSRNSVTY 508

Query:   246 IKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE 305
               +   L  +R +  A ++++ +  +G       Y  ++       +   A   V  MT 
Sbjct:   509 NTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTS 568

Query:   306 RGFIPYIKVRQKVVEGLAGVGEWKLAT 332
              G  P I     ++ GL   G  ++A+
Sbjct:   569 NGCEPDIVTYGTLISGLCKAGRVEVAS 595

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2009787 AT1G30290 "AT1G30290" [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 4.5e-08, P = 4.5e-08
 Identities = 53/215 (24%), Positives = 99/215 (46%)

Query:   119 ALAILQRTLRSGCVPVPQIRLLLSSAWLE---RRCQSQSVADILLEMKSIGYHPDCGTCN 175
             AL +L    R+G  P     LL+ +  ++   R  + +     L  M+ +G  P+  T N
Sbjct:   261 ALKVLTLMQRAGVEP----NLLICNTTIDVFVRANRLEKALRFLERMQVVGIVPNVVTYN 316

Query:   176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN 235
              ++   C + ++ EA ++L+ M S  C+PD  SY  ++G +   ++  +  ++MK+M   
Sbjct:   317 CMIRGYCDLHRVEEAIELLEDMHSKGCLPDKVSYYTIMGYLCKEKRIVEVRDLMKKMAKE 376

Query:   236 MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL 295
              GL+P Q     +   L  +    +A+  ++  + KG  I   GY  +V     C+E  +
Sbjct:   377 HGLVPDQVTYNTLIHMLTKHDHADEALWFLKDAQEKGFRIDKLGYSAIVHAL--CKEGRM 434

Query:   296 A-GKTVMG-MTERGFIPY-IKVRQKVVEGLAGVGE 327
             +  K ++  M  +G  P  +     VV G   +GE
Sbjct:   435 SEAKDLINEMLSKGHCPPDVVTYTAVVNGFCRLGE 469

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2084978 AT3G04760 [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 4.9e-08, P = 4.9e-08
 Identities = 48/180 (26%), Positives = 86/180 (47%)

Query:   112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVAD---ILLEMKSIGYH 168
             +L  +P A+ +++   + G    P +     +A +   C+   + D   +L  M+S  + 
Sbjct:   136 TLRNIPKAVRVMEILEKFG---QPDV--FAYNALINGFCKMNRIDDATRVLDRMRSKDFS 190

Query:   169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEM 228
             PD  T N ++ SLC+  +L  A KVL  + S  C P + +Y+I+I A       ++A+++
Sbjct:   191 PDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKL 250

Query:   229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL 288
             M EM L+ GL P       +   +     + +A EM+  LE KGC      Y +++   L
Sbjct:   251 MDEM-LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALL 309

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LNC0	PPR16_ARATH	No assigned EC number	0.6393	0.9533	0.9533	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	343
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM 216
           PD  T N L+   C   ++ EA K+   M      P++ +YSI+I  +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 20/55 (36%), Positives = 32/55 (58%)

Query: 161 EMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGA 215
           ++KSI   P   T N L+++LC  +QL +A +VL  M      P+  +YSI++ A
Sbjct: 709 DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA 763

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	343
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.61
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.59
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.56
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.54
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
PF13041	50	PPR_2: PPR repeat family	99.53
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.53
PF13041	50	PPR_2: PPR repeat family	99.53
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.52
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.48
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.48
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.47
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.46
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.45
PRK14574	822	hmsH outer membrane protein; Provisional	99.43
PRK14574	822	hmsH outer membrane protein; Provisional	99.4
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.39
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.39
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.38
KOG2003	840	consensus TPR repeat-containing protein [General f	99.31
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.29
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.28
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.24
KOG2003	840	consensus TPR repeat-containing protein [General f	99.23
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.22
KOG1126	638	consensus DNA-binding cell division cycle control	99.22
KOG1126	638	consensus DNA-binding cell division cycle control	99.22
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.2
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.19
PRK12370	553	invasion protein regulator; Provisional	99.18
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.18
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.17
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.16
KOG2076	895	consensus RNA polymerase III transcription factor	99.14
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.08
PRK12370	553	invasion protein regulator; Provisional	99.07
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.06
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.05
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.04
PF12854	34	PPR_1: PPR repeat	99.02
PF12854	34	PPR_1: PPR repeat	98.99
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.96
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.91
KOG1129	478	consensus TPR repeat-containing protein [General f	98.89
PRK11189	296	lipoprotein NlpI; Provisional	98.89
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.86
KOG2076	895	consensus RNA polymerase III transcription factor	98.82
KOG1129	478	consensus TPR repeat-containing protein [General f	98.82
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.81
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.75
PRK11189	296	lipoprotein NlpI; Provisional	98.75
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.75
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.68
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.67
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.65
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.64
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.62
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.61
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.56
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.55
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.54
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.5
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.49
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.47
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.45
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.44
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.42
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.42
PLN02789	320	farnesyltranstransferase	98.41
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.4
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.39
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.38
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.37
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.36
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.36
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.33
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.33
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.32
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.32
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.27
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.26
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.26
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.24
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.24
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.22
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.22
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.21
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.2
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.19
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.18
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.16
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.13
PRK04841	903	transcriptional regulator MalT; Provisional	98.13
PRK15359	144	type III secretion system chaperone protein SscB;	98.11
PRK04841	903	transcriptional regulator MalT; Provisional	98.1
PRK15359	144	type III secretion system chaperone protein SscB;	98.09
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.09
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.08
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.07
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.06
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.06
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.05
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.05
KOG1125	579	consensus TPR repeat-containing protein [General f	98.04
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.02
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.0
KOG1125	579	consensus TPR repeat-containing protein [General f	97.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.98
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.97
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.97
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.96
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.94
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.94
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.93
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.92
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.91
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.88
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.86
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.83
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.79
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.74
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.73
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.73
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.72
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.72
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.69
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.69
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.64
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.63
PLN02789	320	farnesyltranstransferase	97.6
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.59
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.58
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.55
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.54
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.53
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.45
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.42
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.42
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.39
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.37
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.36
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.35
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.32
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.31
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.29
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.23
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.22
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.17
KOG3941	406	consensus Intermediate in Toll signal transduction	97.1
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.09
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.07
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.06
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.04
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.02
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.02
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.93
PF12688	120	TPR_5: Tetratrico peptide repeat	96.92
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.89
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.89
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.87
KOG3941	406	consensus Intermediate in Toll signal transduction	96.82
PRK10803	263	tol-pal system protein YbgF; Provisional	96.81
KOG0553	304	consensus TPR repeat-containing protein [General f	96.77
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.75
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.7
PF12688	120	TPR_5: Tetratrico peptide repeat	96.67
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.6
PF13371	73	TPR_9: Tetratricopeptide repeat	96.57
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.53
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.52
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.32
PRK10803	263	tol-pal system protein YbgF; Provisional	96.3
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	96.28
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.24
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.22
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.16
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.1
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.07
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.04
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.01
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.0
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.97
KOG0553	304	consensus TPR repeat-containing protein [General f	95.91
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.88
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.73
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.68
PF13371	73	TPR_9: Tetratricopeptide repeat	95.67
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.57
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.55
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.5
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.5
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.46
PF13929	292	mRNA_stabil: mRNA stabilisation	95.44
PF13929	292	mRNA_stabil: mRNA stabilisation	95.37
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.36
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.23
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.22
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.2
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.13
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.1
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.07
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.87
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.83
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.76
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.74
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	94.73
COG4700	251	Uncharacterized protein conserved in bacteria cont	94.65
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.6
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.08
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.03
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.97
COG4700	251	Uncharacterized protein conserved in bacteria cont	93.88
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.62
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.53
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.45
KOG4555	175	consensus TPR repeat-containing protein [Function	93.33
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.3
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.24
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.08
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.06
KOG4555	175	consensus TPR repeat-containing protein [Function	93.03
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.03
PF13512	142	TPR_18: Tetratricopeptide repeat	93.01
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.85
PRK15331	165	chaperone protein SicA; Provisional	92.67
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.66
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.59
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.56
PF13428	44	TPR_14: Tetratricopeptide repeat	92.56
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.42
KOG2041	1189	consensus WD40 repeat protein [General function pr	92.34
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	92.33
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.3
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	92.14
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.01
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	91.94
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.8
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.8
PRK15331	165	chaperone protein SicA; Provisional	91.75
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	91.63
PF13512	142	TPR_18: Tetratricopeptide repeat	91.48
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	90.85
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.83
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	90.56
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.37
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.37
PRK11906	458	transcriptional regulator; Provisional	90.2
KOG1585	308	consensus Protein required for fusion of vesicles	90.15
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.01
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.97
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.81
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.8
PF13428	44	TPR_14: Tetratricopeptide repeat	89.68
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.67
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.51
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.44
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.25
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	89.02
COG3947	361	Response regulator containing CheY-like receiver a	88.97
PF13762	145	MNE1: Mitochondrial splicing apparatus component	88.78
COG0457	291	NrfG FOG: TPR repeat [General function prediction	88.51
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.43
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.29
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.22
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.02
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.42
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.01
COG1747	711	Uncharacterized N-terminal domain of the transcrip	86.05
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	85.91
COG0457	291	NrfG FOG: TPR repeat [General function prediction	85.72
KOG2610	491	consensus Uncharacterized conserved protein [Funct	85.51
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.06
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.96
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.82
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	84.75
PF13431	34	TPR_17: Tetratricopeptide repeat	84.31
PRK11906	458	transcriptional regulator; Provisional	84.25
KOG4648	536	consensus Uncharacterized conserved protein, conta	84.16
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.12
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.22
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	82.93
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.38
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.99
PF13762	145	MNE1: Mitochondrial splicing apparatus component	81.92
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.69
COG4105	254	ComL DNA uptake lipoprotein [General function pred	81.56
COG3947	361	Response regulator containing CheY-like receiver a	81.46
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.0
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	80.72
PHA02875	413	ankyrin repeat protein; Provisional	80.61
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.36
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	80.02

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.5e-54  Score=410.66  Aligned_cols=320  Identities=11%  Similarity=0.069  Sum_probs=172.9

Q ss_pred             hhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCC
Q 046547           17 PCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLR   93 (343)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~   93 (343)
                      +++..+...+..|+..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|   +..+++.|+.+.+.++++.+.. .
T Consensus       458 ~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~-~  536 (1060)
T PLN03218        458 RVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS-K  536 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH-c
Confidence            34444444444455555555555555555555555555555555555555554   3344444444444444444332 2


Q ss_pred             CCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH
Q 046547           94 PRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLR--SGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus        94 ~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      +..||..+|+++|. +|++.|++++|.++|++|.+  .|+.||..+|+++|.+|++.| ++++|.++|++|.+.|+.|+.
T Consensus       537 Gv~PD~vTYnsLI~-a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G-~ldeA~elf~~M~e~gi~p~~  614 (1060)
T PLN03218        537 NVKPDRVVFNALIS-ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG-QVDRAKEVYQMIHEYNIKGTP  614 (1060)
T ss_pred             CCCCCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHcCCCCCh
Confidence            34455555555554 44455555555555555543  345555555555555555543 355555555555555555555


Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      .+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+ .|+.||..+|++||.+
T Consensus       615 ~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k-~G~~pd~~tynsLI~a  693 (1060)
T PLN03218        615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK-QGIKLGTVSYSSLMGA  693 (1060)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHH
Confidence            555555555555555555555555555555555555555555555555555555555555554 2555555555555555


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA  331 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  331 (343)
                      |++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|
T Consensus       694 y~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A  773 (1060)
T PLN03218        694 CSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG  773 (1060)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHh
Q 046547          332 TVVRQRFAE  340 (343)
Q Consensus       332 ~~~~~~m~~  340 (343)
                      .+++++|.+
T Consensus       774 ~~l~~~M~k  782 (1060)
T PLN03218        774 LDLLSQAKE  782 (1060)
T ss_pred             HHHHHHHHH
Confidence            555555543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-53  Score=408.63  Aligned_cols=309  Identities=15%  Similarity=0.178  Sum_probs=295.9

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      |+..+|+.+|.+|++.|+++.|.++|+.|.+.|+.||..+|   +..+++.|+.+.+.++++.+.+ .+..||..+|+++
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~-~Gv~PdvvTynaL  513 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVN-AGVEANVHTFGAL  513 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHH-cCCCCCHHHHHHH
Confidence            89999999999999999999999999999999999999998   6677788888888888888765 4678999999999


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHh--cCCccCHhhHHHHHHHHHc
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKS--IGYHPDCGTCNYLVSSLCA  183 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~--~g~~~~~~~~~~ll~~~~~  183 (343)
                      |. +|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.+ ++++|.++|++|..  .|+.||..+|+.+|.+|++
T Consensus       514 I~-gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G-~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k  591 (1060)
T PLN03218        514 ID-GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG-AVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN  591 (1060)
T ss_pred             HH-HHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            97 78899999999999999999999999999999999999986 69999999999976  6899999999999999999


Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      .|++++|.++|++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|.++ |+.||..+|+++|.+|++.|++++|.+
T Consensus       592 ~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~-Gv~PD~~TynsLI~a~~k~G~~eeA~~  670 (1060)
T PLN03218        592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFE  670 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999985 999999999999999999999999999


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          264 MIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       264 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      ++++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.
T Consensus       671 l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999864

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1.5e-48  Score=369.15  Aligned_cols=311  Identities=14%  Similarity=0.154  Sum_probs=223.3

Q ss_pred             hchhhhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHh----------------------
Q 046547           13 VNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFL----------------------   70 (343)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~----------------------   70 (343)
                      ....+++..++    .|+..+|+.+|.+|++.|++++|+++|++|...|..|+..+|.                      
T Consensus       175 ~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~  250 (697)
T PLN03081        175 IDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCV  250 (697)
T ss_pred             HHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHH
Confidence            33444455554    2677789999999999999999999999998888888776652                      


Q ss_pred             ----------------hhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc
Q 046547           71 ----------------SNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV  134 (343)
Q Consensus        71 ----------------~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~  134 (343)
                                      ..+++.|+.+.+.++++.+.     .+|..+||++|. +|++.|++++|+++|++|.+.|+.||
T Consensus       251 ~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~~~vt~n~li~-~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP-----EKTTVAWNSMLA-GYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC-----CCChhHHHHHHH-HHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence                            23334444444444444432     246777777775 66677777777777777777777777


Q ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 046547          135 PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIG  214 (343)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  214 (343)
                      ..||++++.+|++.+ .+++|.+++..|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+    ||..+||+||.
T Consensus       325 ~~t~~~ll~a~~~~g-~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~  399 (697)
T PLN03081        325 QFTFSIMIRIFSRLA-LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIA  399 (697)
T ss_pred             HHHHHHHHHHHHhcc-chHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHH
Confidence            777777777777765 4777777777777777777777777777777777777777777777753    67777777777


Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH-cCCCCchhhHHHHHHHHHhcccH
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER-KGCPIGFQGYEVVVEGCLECREY  293 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~  293 (343)
                      +|++.|+.++|+++|++|.+ .|+.||..||+++|.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++
T Consensus       400 ~y~~~G~~~~A~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~  478 (697)
T PLN03081        400 GYGNHGRGTKAVEMFERMIA-EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL  478 (697)
T ss_pred             HHHHcCCHHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCH
Confidence            77777777777777777776 37777777777777777777777777777777764 47777777777777777777777


Q ss_pred             hHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          294 ILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       294 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++|.+++++|   ++.|+..+|++|+.+|...|+++.|.++++++.++.
T Consensus       479 ~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~  524 (697)
T PLN03081        479 DEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG  524 (697)
T ss_pred             HHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC
Confidence            7777776654   566777777777777777777777777777766543

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=2e-47  Score=361.54  Aligned_cols=311  Identities=12%  Similarity=0.073  Sum_probs=225.4

Q ss_pred             hhhhhhccc-cCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCC
Q 046547           17 PCLLQFSSL-RSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPR   95 (343)
Q Consensus        17 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (343)
                      .++..+... +..|+..+|+.++.+|++.++++.+.+++..|...|+.|++.+|+.++..+.+.+.++++.+.+.++.  
T Consensus       108 ~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~--  185 (697)
T PLN03081        108 ELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP--  185 (697)
T ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC--
Confidence            334444432 24578999999999999999999999999999999999999988544444444444444444444432  


Q ss_pred             CCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHH-----------------------------------HH
Q 046547           96 SRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIR-----------------------------------LL  140 (343)
Q Consensus        96 ~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-----------------------------------~~  140 (343)
                      .||..+||++|. ++++.|++++|+++|++|.+.|+.||..||                                   |+
T Consensus       186 ~~~~~t~n~li~-~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~  264 (697)
T PLN03081        186 ERNLASWGTIIG-GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA  264 (697)
T ss_pred             CCCeeeHHHHHH-HHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHH
Confidence            368999999997 788889999999999999887776665544                                   55


Q ss_pred             HHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC
Q 046547          141 LSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR  220 (343)
Q Consensus       141 li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  220 (343)
                      ||.+|++.| ++++|.++|++|.    ++|..+||.+|.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|
T Consensus       265 Li~~y~k~g-~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g  339 (697)
T PLN03081        265 LIDMYSKCG-DIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA  339 (697)
T ss_pred             HHHHHHHCC-CHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence            556666654 4666777776664    34667777777777777777777777777777777777777777777777777


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHH
Q 046547          221 KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  300 (343)
                      ++++|.+++..|.+ .|+.||..+|++||.+|++.|++++|.++|++|.+    ||..+||+||.+|++.|+.++|.++|
T Consensus       340 ~~~~a~~i~~~m~~-~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf  414 (697)
T PLN03081        340 LLEHAKQAHAGLIR-TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMF  414 (697)
T ss_pred             chHHHHHHHHHHHH-hCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHH
Confidence            77777777777776 37777777777777777777777777777776643    56667777777777777777777777


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ++|.+.|+.||..||+.++.+|++.|+.++|.++|+.|.+
T Consensus       415 ~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        415 ERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            7777777777777777777777777777777777777754

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.5e-46  Score=360.15  Aligned_cols=297  Identities=12%  Similarity=0.091  Sum_probs=215.2

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH--------------------------------------hh
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF--------------------------------------LS   71 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--------------------------------------~~   71 (343)
                      +..+||.+|.+|++.|++++|+++|++|...|+.||..||                                      +.
T Consensus       252 d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~  331 (857)
T PLN03077        252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQ  331 (857)
T ss_pred             CcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHH
Confidence            4445556666666666566666665555555555555544                                      22


Q ss_pred             hhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCc
Q 046547           72 NFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQ  151 (343)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  151 (343)
                      .+++.|+.+.+.++++.+.     .||..+||++|. +|++.|++++|+++|++|.+.|+.||..||+.++.++++.+ +
T Consensus       332 ~y~k~g~~~~A~~vf~~m~-----~~d~~s~n~li~-~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g-~  404 (857)
T PLN03077        332 MYLSLGSWGEAEKVFSRME-----TKDAVSWTAMIS-GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG-D  404 (857)
T ss_pred             HHHhcCCHHHHHHHHhhCC-----CCCeeeHHHHHH-HHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccc-h
Confidence            2333444444444444432     356777777776 66777777788888888877777788888888777777665 5


Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKE  231 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  231 (343)
                      +++|.++++.|.+.|+.|+..+||.||.+|++.|++++|.++|++|.+    +|..+||++|.+|++.|+.++|+.+|++
T Consensus       405 ~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~  480 (857)
T PLN03077        405 LDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQ  480 (857)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777777777777777777777777777777777777777777777654    3444555555555555555555555555


Q ss_pred             HHhcCCC-----------------------------------------------------------------CCchhHHH
Q 046547          232 MVLNMGL-----------------------------------------------------------------MPRQGMVI  246 (343)
Q Consensus       232 m~~~~~~-----------------------------------------------------------------~p~~~~~~  246 (343)
                      |..  ++                                                                 .||..+||
T Consensus       481 m~~--~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n  558 (857)
T PLN03077        481 MLL--TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWN  558 (857)
T ss_pred             HHh--CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHH
Confidence            542  33                                                                 34556678


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh-HCCCCCCHHHHHHHHHHHhcc
Q 046547          247 KVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT-ERGFIPYIKVRQKVVEGLAGV  325 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~g~~p~~~~~~~li~~~~~~  325 (343)
                      +||.+|++.|+.++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|. +.|+.|+..+|+.++++|++.
T Consensus       559 ~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~  638 (857)
T PLN03077        559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRA  638 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhC
Confidence            8888888899999999999999999999999999999999999999999999999998 679999999999999999999


Q ss_pred             CChhHHHHHHHHHH
Q 046547          326 GEWKLATVVRQRFA  339 (343)
Q Consensus       326 g~~~~a~~~~~~m~  339 (343)
                      |++++|.+++++|.
T Consensus       639 G~~~eA~~~~~~m~  652 (857)
T PLN03077        639 GKLTEAYNFINKMP  652 (857)
T ss_pred             CCHHHHHHHHHHCC
Confidence            99999999999883

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-46  Score=363.07  Aligned_cols=309  Identities=15%  Similarity=0.091  Sum_probs=181.3

Q ss_pred             hhhhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhh---cccchHHHHHHHHhcC
Q 046547           15 FRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQ---NHRIKVIDEMLESFIP   91 (343)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~---~~~~~~~~~~~~~~~~   91 (343)
                      ...++..++    .|+..+|+.+|.+|++.|++++|+++|++|...|+.||..||..++..   .+......++...+.+
T Consensus       140 A~~~f~~m~----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  215 (857)
T PLN03077        140 AWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVR  215 (857)
T ss_pred             HHHHHhcCC----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHH
Confidence            344444444    367788999999999999999999999999999999998888433332   2222222222222221


Q ss_pred             CCCCC-------------------------------CChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHH
Q 046547           92 LRPRS-------------------------------RPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLL  140 (343)
Q Consensus        92 ~~~~~-------------------------------p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  140 (343)
                       .+..                               ||..+||++|. +|++.|++++|+++|++|.+.|+.||..||+.
T Consensus       216 -~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~-~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~  293 (857)
T PLN03077        216 -FGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMIS-GYFENGECLEGLELFFTMRELSVDPDLMTITS  293 (857)
T ss_pred             -cCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHH-HHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence             1233                               35555555554 45555555555555555555555555555555


Q ss_pred             HHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC
Q 046547          141 LSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR  220 (343)
Q Consensus       141 li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  220 (343)
                      +|.++++.+ +.+.+.+++..|.+.|+.||..+||.||.+|++.|++++|.++|++|..    ||..+||++|.+|++.|
T Consensus       294 ll~a~~~~g-~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g  368 (857)
T PLN03077        294 VISACELLG-DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNG  368 (857)
T ss_pred             HHHHHHhcC-ChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCC
Confidence            555555543 3555555555555555555555555555555555555555555555542    45555555555555555


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHH
Q 046547          221 KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  300 (343)
                      ++++|+++|++|.+ .|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.||.+|++.|++++|.++|
T Consensus       369 ~~~~A~~lf~~M~~-~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf  447 (857)
T PLN03077        369 LPDKALETYALMEQ-DNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVF  447 (857)
T ss_pred             CHHHHHHHHHHHHH-hCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555555555554 25555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      ++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.
T Consensus       448 ~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~  482 (857)
T PLN03077        448 HNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQML  482 (857)
T ss_pred             HhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55542    344555555555555555555555555554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=2e-18  Score=153.73  Aligned_cols=289  Identities=11%  Similarity=0.029  Sum_probs=228.1

Q ss_pred             HHhCccCcchHHHHHHHchhcCCCCChH-HH---hhhhhhcccchHHHHHHHHhcCCCCCCCC---hhhHHHHHHHHhhc
Q 046547           40 AAVDAKDYQQIPELLGSFEEACQNPNPF-SF---LSNFPQNHRIKVIDEMLESFIPLRPRSRP---KIAYDYLLSYTLQS  112 (343)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~  112 (343)
                      .+...|+++.|.+.|+++.+.  .|+.. ++   ...+...|+.+.+.+.++.+... +..++   ...+..+.. .+..
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~~~~~La~-~~~~  119 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSR-PDLTREQRLLALQELGQ-DYLK  119 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHH-HHHH
Confidence            456778999999999999875  34433 33   44556777777777777776552 22111   245666665 6778


Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH----hhHHHHHHHHHccCcHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC----GTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~ll~~~~~~~~~~  188 (343)
                      .|+++.|..+|+++.+.. +++..+++.+...+++.+ ++++|.+.++.+.+.+..++.    ..+..+...+.+.|+++
T Consensus       120 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEK-DWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             CCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhc-hHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            899999999999998753 346678888888888876 699999999999876543322    24566777888999999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +|.+.|+++.+.. +.+...+..+...+.+.|++++|.++++++... +......+++.++.+|.+.|++++|...++++
T Consensus       198 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        198 AARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998754 234667888889999999999999999999863 32223467899999999999999999999999


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc---cCChhHHHHHHHHHHh
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAG---VGEWKLATVVRQRFAE  340 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~  340 (343)
                      .+.  .|+...+..+...+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..++++|.+
T Consensus       276 ~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        276 LEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            885  577777788999999999999999999998876  5899999988888775   5699999999999875

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.84  E-value=2.4e-17  Score=161.75  Aligned_cols=297  Identities=13%  Similarity=0.002  Sum_probs=191.0

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      +...|..+...+.+.|++++|.+.|+.+.+.. ..+...+   ...+...++.+.+.+.++......|.  +...+..+.
T Consensus       600 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~  676 (899)
T TIGR02917       600 SPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPD--NTEAQIGLA  676 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CHHHHHHHH
Confidence            34455555555666666666666665554332 1111111   33344455555555555554433221  344555555


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ  186 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~  186 (343)
                      . .+...|++++|.++++.+.+.+ +++...+..+...+...+ ++++|.+.++.+...+  |+..++..+...+.+.|+
T Consensus       677 ~-~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g-~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~  751 (899)
T TIGR02917       677 Q-LLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQK-DYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGN  751 (899)
T ss_pred             H-HHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCC-CHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCC
Confidence            4 4555666666666666665543 334445555555555544 5677777777766643  444556666677777777


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIE  266 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  266 (343)
                      +++|.+.++++.+.. +.+..++..+...|...|++++|..+|+++.+  ..+++..+++.+...+...|+ ++|..+++
T Consensus       752 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~  827 (899)
T TIGR02917       752 TAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVK--KAPDNAVVLNNLAWLYLELKD-PRALEYAE  827 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCc-HHHHHHHH
Confidence            777777777766543 34566777777777777888888888887774  335566777777777777777 67888877


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          267 FLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       267 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      +..+.. +-+..++..+...+...|++++|.++|+++.+.+.. +..++..+..+|.+.|++++|.+++++|.+
T Consensus       828 ~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       828 KALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence            776632 123445666777788899999999999999887643 888899999999999999999999998863

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=2.4e-17  Score=146.81  Aligned_cols=260  Identities=11%  Similarity=-0.000  Sum_probs=207.2

Q ss_pred             hhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc---HHHHHHHHHHHHhccC
Q 046547           74 PQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV---PQIRLLLSSAWLERRC  150 (343)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~  150 (343)
                      ...++.+.+.+.++......|.  +..++..+.. ++...|++++|..+++.+...+..++   ...+..+...|...| 
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~--~~~~~~~la~-~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g-  121 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPE--TVELHLALGN-LFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG-  121 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcc--cHHHHHHHHH-HHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC-
Confidence            3556666677777776654332  4456777775 77888999999999999987643332   245677777777776 


Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHhcCCChhHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL----ESYSIVIGAMSTARKTNDAV  226 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~  226 (343)
                      ++++|..+|+++.+.. +++..+++.+...+.+.|++++|.+.++.+.+.+..+..    ..+..+...+...|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            6999999999998752 456788999999999999999999999999886543322    24566778889999999999


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          227 EMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       227 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..|+++.+.  .+.+...+..+...+.+.|++++|.++++++.+.+-.....+++.+..+|...|++++|...++++.+.
T Consensus       201 ~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        201 ALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999852  234566788889999999999999999999987543223457888999999999999999999999876


Q ss_pred             CCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          307 GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       307 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                        .|+...+..+...+.+.|++++|.++++++.+..
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~  312 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH  312 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence              4676777899999999999999999999887654

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.82  E-value=1.3e-16  Score=156.59  Aligned_cols=224  Identities=13%  Similarity=0.035  Sum_probs=119.1

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      .+...|++++|..+++++.+.. +.+..+|..+...+...+ ++++|...++.+.+.. +.+...+..+...+.+.|+++
T Consensus       576 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  652 (899)
T TIGR02917       576 YYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAG-DLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA  652 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHH
Confidence            3444455555555555544322 223444444444444443 4555555555554432 223344555555555555555


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +|..+|+++.+.. +.+..++..+...+...|++++|.++++.+.+  ..+++...+..+...+.+.|++++|.+.|+.+
T Consensus       653 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  729 (899)
T TIGR02917       653 KAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK--QHPKAALGFELEGDLYLRQKDYPAAIQAYRKA  729 (899)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCcCChHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5555555554432 22344555555555555555555555555553  22344455555556666666666666666665


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .+.+  |+..++..+...+.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.|+++.+.
T Consensus       730 ~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       730 LKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            5532  333455555556666666666666666655543 334556666666666666666666666666544

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.73  E-value=4.3e-14  Score=132.82  Aligned_cols=296  Identities=11%  Similarity=0.050  Sum_probs=202.4

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH-HH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF-SF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      +.+..+..+....|+++.|.+.++.+...  .|+.. .+   ...+...|+.+.+.+.++....+.|.  +...+..+..
T Consensus        77 ~~l~~l~~~~l~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~--~~~a~~~la~  152 (656)
T PRK15174         77 DLLRRWVISPLASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSG--NSQIFALHLR  152 (656)
T ss_pred             hHHHHHhhhHhhcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--cHHHHHHHHH
Confidence            34445555566678888888888877654  33322 22   34455666666666666666554442  3445555554


Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcH
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~  187 (343)
                       ++...|++++|...++.+......+ ...+..+ ..+...+ ++++|...++.+.+....++...+..+...+.+.|++
T Consensus       153 -~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g-~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~  228 (656)
T PRK15174        153 -TLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKS-RLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKY  228 (656)
T ss_pred             -HHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcC-CHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCH
Confidence             6777788888888888776543222 2222222 2345554 6888888888876654334444555566778888888


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhH----HHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHH
Q 046547          188 VEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTND----AVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       188 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      ++|...+++..+.. +.+...+..+...+...|++++    |...|+...+  --+.+...+..+...+.+.|++++|..
T Consensus       229 ~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~  305 (656)
T PRK15174        229 QEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIP  305 (656)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            88888888887654 3356677778888888888885    7888888874  334456778888888999999999999


Q ss_pred             HHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCH-HHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          264 MIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYI-KVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       264 ~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .+++..+.  .|+ ...+..+...|.+.|++++|...++++...+  |+. ..+..+..++...|+.++|...|++..+.
T Consensus       306 ~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        306 LLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99988874  344 4456667788889999999999998887653  443 33344566788899999999999887765


Q ss_pred             c
Q 046547          342 K  342 (343)
Q Consensus       342 ~  342 (343)
                      .
T Consensus       382 ~  382 (656)
T PRK15174        382 R  382 (656)
T ss_pred             C
Confidence            4

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=1.8e-14  Score=120.98  Aligned_cols=298  Identities=12%  Similarity=0.099  Sum_probs=226.4

Q ss_pred             HHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccc---------------------------h
Q 046547           31 LRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRI---------------------------K   80 (343)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~---------------------------~   80 (343)
                      +.+=+.+++. ...|...++.-+++.|...|+..+...-   ..+.+-++..                           .
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            3344444443 3468899999999999988875444322   2222222211                           1


Q ss_pred             HHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHH
Q 046547           81 VIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILL  160 (343)
Q Consensus        81 ~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~  160 (343)
                      .++ ++-..   .|  ....+|+++|. .+|+-...+.|.+++++-.....+.+..+||.+|.+-.-.     ...+++.
T Consensus       195 vAd-L~~E~---~P--KT~et~s~mI~-Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~-----~~K~Lv~  262 (625)
T KOG4422|consen  195 VAD-LLFET---LP--KTDETVSIMIA-GLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS-----VGKKLVA  262 (625)
T ss_pred             HHH-HHHhh---cC--CCchhHHHHHH-HHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh-----ccHHHHH
Confidence            122 11111   12  24579999996 7888889999999999999888899999999999874332     2367899


Q ss_pred             HHHhcCCccCHhhHHHHHHHHHccCcHHH----HHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhH-HHHHHHHHHh-
Q 046547          161 EMKSIGYHPDCGTCNYLVSSLCAIDQLVE----AAKVLKGMSSAECVPDLESYSIVIGAMSTARKTND-AVEMMKEMVL-  234 (343)
Q Consensus       161 ~m~~~g~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~m~~-  234 (343)
                      +|....+.||..|+|+++.+..+.|+++.    |.+++.+|++-|+.|...+|..+|..+++.++..+ |..+..++.. 
T Consensus       263 EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~  342 (625)
T KOG4422|consen  263 EMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNS  342 (625)
T ss_pred             HHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHh
Confidence            99999999999999999999999998765    46788999999999999999999999999998765 5555555542 


Q ss_pred             ---cCCCCC----chhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCCchh---hHHHHHHHHHhcccHhHHHHHH
Q 046547          235 ---NMGLMP----RQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPIGFQ---GYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       235 ---~~~~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~---~~~~li~~~~~~g~~~~a~~~~  300 (343)
                         | .++|    |...|..-+..|.+..+.+.|.++-.-+...    -+.|+..   -|..+....|.....+.....|
T Consensus       343 ltGK-~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y  421 (625)
T KOG4422|consen  343 LTGK-TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWY  421 (625)
T ss_pred             hccC-cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               2 3333    4566778888888999999999887766532    1334422   3566778888999999999999


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +.|.-.-+-|+..+...++++..-.|.++-..++|..++...
T Consensus       422 ~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  422 EDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            999998888999999999999999999999999999988653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.72  E-value=7.2e-14  Score=131.33  Aligned_cols=297  Identities=9%  Similarity=-0.007  Sum_probs=226.5

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcCCC-CChHHH-hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHh
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEACQN-PNPFSF-LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTL  110 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~  110 (343)
                      -...++..+.+.|++++|..+++......-. |+.... .......|+.+.+.+.++......|..+  ..+..+-. .+
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~--~a~~~la~-~l  120 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQP--EDVLLVAS-VL  120 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCCh--HHHHHHHH-HH
Confidence            3667888999999999999999988765332 222222 4444567888888888888776656433  34444443 66


Q ss_pred             hcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHH
Q 046547          111 QSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVE  189 (343)
Q Consensus       111 ~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~  189 (343)
                      ...|++++|...++++.+.  .|+ ...+..+...+...+ ++++|...++.+......+ ...+..+ ..+...|++++
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g-~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~e  195 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMD-KELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPE  195 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCC-ChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHH
Confidence            7889999999999999874  455 455666666666665 6999999999887653322 3333333 34788999999


Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH----HHHHH
Q 046547          190 AAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK----AVEMI  265 (343)
Q Consensus       190 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~----a~~~~  265 (343)
                      |...++.+.+....++...+..+..++...|++++|+..++...+  .-+.+...+..+...+...|++++    |...+
T Consensus       196 A~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~--~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~  273 (656)
T PRK15174        196 DHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALA--RGLDGAALRRSLGLAYYQSGRSREAKLQAAEHW  273 (656)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHH
Confidence            999999987765444555666667889999999999999999985  334567778889999999999986    89999


Q ss_pred             HHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          266 EFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       266 ~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++..+.  .|+ ...+..+...+...|++++|...+++..... +.+...+..+..+|.+.|++++|...++++.+..
T Consensus       274 ~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        274 RHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             HHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            998874  454 5578888999999999999999999988764 2246677788899999999999999999987654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=3.6e-13  Score=113.32  Aligned_cols=236  Identities=14%  Similarity=0.138  Sum_probs=168.1

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhh---cccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQ---NHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      +..+|..+|.++|+.-..+.|.+++++..+.....+..+|+.++..   ...-+++.+|+..     ...||..|+|+++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisq-----km~Pnl~TfNalL  280 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQ-----KMTPNLFTFNALL  280 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHh-----hcCCchHhHHHHH
Confidence            5678999999999999999999999999887778888888554432   2224566666665     3467999999999


Q ss_pred             HHHhhcCCChHH----HHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHH----hcCCcc----CHhhH
Q 046547          107 SYTLQSLHPLPL----ALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMK----SIGYHP----DCGTC  174 (343)
Q Consensus       107 ~~~~~~~~~~~~----a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~----~~g~~~----~~~~~  174 (343)
                      + +.++.|+++.    |++++.+|++-|+.|...+|..+|..+++.++..+.+..++.++.    .+.++|    |...|
T Consensus       281 ~-c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  281 S-CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             H-HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            7 8889997765    567888999999999999999999998888754344555544443    333444    23345


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCC----CCCC---HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAE----CVPD---LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      ..-+..|....+.+.|.++-.-.+...    +.|+   ..-|..+....|.....+.-..+|+.|.- .-+-|+..+..-
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP-~~y~p~~~~m~~  438 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP-SAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-ceecCCchhHHH
Confidence            666777777777777777665443211    3333   23456666677777777777777777775 366677777777


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          248 VAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      ++++..-.|.++-.-++|.+++..|
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhh
Confidence            7777777777777777776666554

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.61  E-value=1.4e-11  Score=116.01  Aligned_cols=232  Identities=11%  Similarity=-0.075  Sum_probs=169.7

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                      .|+.+- .++...|++++|+..|++..+.  .|+ ...|..+...+...+ ++++|...|++..+.. +.+...|..+..
T Consensus       333 a~~~lg-~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g-~~~eA~~~~~~al~~~-p~~~~~~~~lg~  407 (615)
T TIGR00990       333 ALNLRG-TFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELG-DPDKAEEDFDKALKLN-SEDPDIYYHRAQ  407 (615)
T ss_pred             HHHHHH-HHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            344443 3555678888888888888764  354 345555555555554 6888998888887653 334677888888


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      .+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|+....  ..+.+...|+.+...+...|+++
T Consensus       408 ~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~  484 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFD  484 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHH
Confidence            8889999999999999887754 23466777788888899999999999999874  34445778888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCchh------hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          260 KAVEMIEFLERKGCPIGFQ------GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~------~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      +|.+.|+...+..-..+..      .++.....+...|++++|.+++++..... +.+...+..+...+.+.|++++|.+
T Consensus       485 ~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~  563 (615)
T TIGR00990       485 EAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALK  563 (615)
T ss_pred             HHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHH
Confidence            9999999887642111111      11222223445789999999999887654 2245578889999999999999999


Q ss_pred             HHHHHHhh
Q 046547          334 VRQRFAEL  341 (343)
Q Consensus       334 ~~~~m~~~  341 (343)
                      .|++..++
T Consensus       564 ~~e~A~~l  571 (615)
T TIGR00990       564 LFERAAEL  571 (615)
T ss_pred             HHHHHHHH
Confidence            99988765

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.59  E-value=1.1e-11  Score=116.78  Aligned_cols=298  Identities=13%  Similarity=-0.017  Sum_probs=215.5

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHh---hhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHH
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFL---SNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYT  109 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~  109 (343)
                      .+...-..+.+.|+++.|++.|++....  .|+...|.   ..+...++.+.+.+..+....+.|.  +...|..+-. +
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~--~~~a~~~~a~-a  203 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD--YSKALNRRAN-A  203 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC--CHHHHHHHHH-H
Confidence            3456677788899999999999987653  57766653   3344556666666666665554442  3445555554 6


Q ss_pred             hhcCCChHHHHHHHHHHHhcC----------------------------CCcc----HHHHHHHH---------------
Q 046547          110 LQSLHPLPLALAILQRTLRSG----------------------------CVPV----PQIRLLLS---------------  142 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~----------------------------~~p~----~~~~~~li---------------  142 (343)
                      +...|++++|+.-|......+                            ..|.    ........               
T Consensus       204 ~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  283 (615)
T TIGR00990       204 YDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDS  283 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcc
Confidence            777899999987665432211                            0010    00000000               


Q ss_pred             ------------H-HH----HhccCchhHHHHHHHHHHhcC-Ccc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCC
Q 046547          143 ------------S-AW----LERRCQSQSVADILLEMKSIG-YHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECV  203 (343)
Q Consensus       143 ------------~-~~----~~~~~~~~~a~~~~~~m~~~g-~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~  203 (343)
                                  . ++    .+..+.+++|.+.|+...+.+ ..| ....|+.+...+...|++++|...|++..+..  
T Consensus       284 ~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~--  361 (615)
T TIGR00990       284 NELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD--  361 (615)
T ss_pred             cccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--
Confidence                        0 00    011135778889999888765 233 44567888888889999999999999988753  


Q ss_pred             CC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHH
Q 046547          204 PD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYE  281 (343)
Q Consensus       204 ~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~  281 (343)
                      |+ ...|..+...+...|++++|...|+...+  --+.+..+|..+...+...|++++|...|++..+.  .| +...+.
T Consensus       362 P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~  437 (615)
T TIGR00990       362 PRVTQSYIKRASMNLELGDPDKAEEDFDKALK--LNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHI  437 (615)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHH
Confidence            44 56788888999999999999999999985  23445778999999999999999999999998874  45 455677


Q ss_pred             HHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          282 VVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       282 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .+...+.+.|++++|+..|++..+.. +-+...+..+...+...|++++|++.|++..++.
T Consensus       438 ~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       438 QLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            77888999999999999999988653 3357888999999999999999999999987764

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.56  E-value=1.1e-12  Score=115.21  Aligned_cols=294  Identities=11%  Similarity=0.034  Sum_probs=152.9

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCC-hHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPN-PFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      -.++|..+...+-..|++++|+..++.+.+.  +|+ +..|   ...+...|+.+.+-..+....++.|   +.....+-
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP---~l~ca~s~  189 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNP---DLYCARSD  189 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCc---chhhhhcc
Confidence            4567888999999999999999999988764  342 2334   3444555565555555555544433   43333333


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHc
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPD-CGTCNYLVSSLCA  183 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~  183 (343)
                      +...+...|++++|...+.+..+.  .|.-.. |+-|- +.....|+...|+..|++..+.  .|+ ...|-.|-..|..
T Consensus       190 lgnLlka~Grl~ea~~cYlkAi~~--qp~fAiawsnLg-~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke  264 (966)
T KOG4626|consen  190 LGNLLKAEGRLEEAKACYLKAIET--QPCFAIAWSNLG-CVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKE  264 (966)
T ss_pred             hhHHHHhhcccchhHHHHHHHHhh--CCceeeeehhcc-hHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHH
Confidence            333444556666666666655542  232222 22222 2222223344555555554432  222 2334444444444


Q ss_pred             ----------------------------------cCcHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHH
Q 046547          184 ----------------------------------IDQLVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEM  228 (343)
Q Consensus       184 ----------------------------------~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~  228 (343)
                                                        .|++|.|+..+++..+.  .|+ ...|+.|.+++-..|++.+|.+.
T Consensus       265 ~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~c  342 (966)
T KOG4626|consen  265 ARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDC  342 (966)
T ss_pred             HhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHH
Confidence                                              45555555555544432  222 34555555555555555555555


Q ss_pred             HHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch-hhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF-QGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       229 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +.+...  -.+-.....+.|-..|...|.+++|..+|....+  +.|.. ..++.|-..|-+.|++++|+.-+++...  
T Consensus       343 YnkaL~--l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--  416 (966)
T KOG4626|consen  343 YNKALR--LCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--  416 (966)
T ss_pred             HHHHHH--hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--
Confidence            555553  2222333455555555555555555555555444  33432 2455555555556666666665555543  


Q ss_pred             CCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          308 FIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       308 ~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +.|+ ...|+.+...|-..|+.+.|.+.+.+....
T Consensus       417 I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  417 IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc
Confidence            3443 344555555666666666666655554443

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.54  E-value=1.9e-11  Score=107.62  Aligned_cols=298  Identities=12%  Similarity=0.067  Sum_probs=217.9

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      ..+.|..+..++...|+.+.|.+.|.+....  .|+....    -.++...|+...+..-....++..|.  =.+.|+.|
T Consensus       149 fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~--fAiawsnL  224 (966)
T KOG4626|consen  149 FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPC--FAIAWSNL  224 (966)
T ss_pred             hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCc--eeeeehhc
Confidence            5678899999999999999999998876543  5554433    34555566665555555544433221  12445444


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcC--------------------------------CCccH-HHHHHHHHHHHhccCch
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSG--------------------------------CVPVP-QIRLLLSSAWLERRCQS  152 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~--------------------------------~~p~~-~~~~~li~~~~~~~~~~  152 (343)
                      -. .+...|+...|++-|++..+..                                ..|+. ..|.-+-..|..+ |+.
T Consensus       225 g~-~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeq-G~l  302 (966)
T KOG4626|consen  225 GC-VFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQ-GLL  302 (966)
T ss_pred             ch-HHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEecc-ccH
Confidence            42 4555566666666666655421                                11221 1111121122233 456


Q ss_pred             hHHHHHHHHHHhcCCccC-HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHH
Q 046547          153 QSVADILLEMKSIGYHPD-CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKE  231 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  231 (343)
                      +.|+..+++..+.  .|+ ...|+.|-.++-..|++.+|...+.+..... +--....+.|-+.|...|.+++|.++|..
T Consensus       303 dlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~  379 (966)
T KOG4626|consen  303 DLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLK  379 (966)
T ss_pred             HHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            7777777777663  444 5789999999999999999999999988753 22356778899999999999999999999


Q ss_pred             HHhcCCCCCc-hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          232 MVLNMGLMPR-QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       232 m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      ..+   +.|. ...+|.|...|-.+|++++|...+++...  +.|+.. .|+.+-..|-..|+.+.|.+.+.+.+..  .
T Consensus       380 al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--n  452 (966)
T KOG4626|consen  380 ALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--N  452 (966)
T ss_pred             HHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--C
Confidence            874   3444 46689999999999999999999999887  888754 8888999999999999999999988764  4


Q ss_pred             CC-HHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          310 PY-IKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       310 p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      |. ...++.|...|-.+|+..+|+.-|+...++|+
T Consensus       453 Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  453 PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            54 56788999999999999999999999998875

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.54  E-value=5.6e-14  Score=119.17  Aligned_cols=260  Identities=13%  Similarity=-0.001  Sum_probs=113.6

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCCC-CCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhc
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRPR-SRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLER  148 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  148 (343)
                      ..++...++.+.+-++++...  ... +|+...|..++.......++++.|.+.++++...+.. +...+..++.. ...
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~--~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAA--QKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccc--ccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            455556666555555553322  222 3444455444433566778999999999999876533 45556666654 455


Q ss_pred             cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCCHhhHHHHHHHHhcCCChhHHHH
Q 046547          149 RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPDLESYSIVIGAMSTARKTNDAVE  227 (343)
Q Consensus       149 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~  227 (343)
                      + ++++|.++++...+.  .++...+..++..+.+.++++++.++++...... .+.+...|..+...+.+.|+.++|++
T Consensus        91 ~-~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   91 G-DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             c-ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4 689999998877654  3566778889999999999999999999987543 45677888889999999999999999


Q ss_pred             HHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          228 MMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       228 ~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      .+++..+.  .+-|....+.++..+...|+.+++.++++...+.. +.|...+..+..+|...|+.++|+.+|++.....
T Consensus       168 ~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  168 DYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            99999853  33357788999999999999999999999887754 4566677889999999999999999999988754


Q ss_pred             CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          308 FIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       308 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                       +.|+.+...+..++...|+.++|.++..+.-+
T Consensus       245 -p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 -PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -TT-HHHHHHHHHHHT-----------------
T ss_pred             -cccccccccccccccccccccccccccccccc
Confidence             34788889999999999999999999877543

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3e-14  Score=86.48  Aligned_cols=48  Identities=10%  Similarity=0.223  Sum_probs=20.7

Q ss_pred             CchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 046547          240 PRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGC  287 (343)
Q Consensus       240 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  287 (343)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||++||++|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444443

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.53  E-value=1.5e-13  Score=116.63  Aligned_cols=257  Identities=12%  Similarity=0.031  Sum_probs=110.4

Q ss_pred             HHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhh----hhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhh
Q 046547           36 ETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLS----NFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ  111 (343)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~  111 (343)
                      .+...+.+.|++++|+++++......-.|+...|..    +....++.+.+.++.+.+....+.  +...+..++. + .
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~--~~~~~~~l~~-l-~   88 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA--NPQDYERLIQ-L-L   88 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc--cccccccccc-c-c
Confidence            567788899999999999976443332344444432    333566677777777777655443  4556777775 4 5


Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcC-CccCHhhHHHHHHHHHccCcHHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIG-YHPDCGTCNYLVSSLCAIDQLVEA  190 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~ll~~~~~~~~~~~a  190 (343)
                      ..+++++|.+++.+..+..  +++..+...+..+... ++++++.++++...... .+.+...|..+...+.+.|+.++|
T Consensus        89 ~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   89 QDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRL-GDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             -------------------------------H-HHHT-T-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccccc--cccchhhHHHHHHHHH-hHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            6789999999998876544  5666677777776555 57999999999976533 356777888888999999999999


Q ss_pred             HHHHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       191 ~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      .+.+++..+..  | |....+.++..+...|+.+++.+++......  .+.|...+..+..++...|+.++|...+++..
T Consensus       166 ~~~~~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~  241 (280)
T PF13429_consen  166 LRDYRKALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKAL  241 (280)
T ss_dssp             HHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhccccccccccccccccc
Confidence            99999998754  5 4777889999999999999999999998863  36677788999999999999999999999988


Q ss_pred             HcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          270 RKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      +.. +.|......+..++...|+.++|.++..+..
T Consensus       242 ~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  242 KLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHS-TT-HHHHHHHHHHHT----------------
T ss_pred             ccc-ccccccccccccccccccccccccccccccc
Confidence            742 2367777888999999999999999887754

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3e-14  Score=86.52  Aligned_cols=49  Identities=35%  Similarity=0.548  Sum_probs=27.1

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHh
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMS  217 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  217 (343)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.52  E-value=1.1e-10  Score=112.10  Aligned_cols=303  Identities=12%  Similarity=0.035  Sum_probs=172.8

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCCh-HHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNP-FSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDY  104 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  104 (343)
                      .+...+..+...+.+.|++++|.++|++....  .|+. ..+   ...+...++...+...++......|..  .. +..
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~--~~-~~~  121 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDK--AN-LLA  121 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC--HH-HHH
Confidence            34455777777888888888888888876654  2332 222   344556677777777777766554432  23 444


Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhH-----------------------------
Q 046547          105 LLSYTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQS-----------------------------  154 (343)
Q Consensus       105 li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~-----------------------------  154 (343)
                      +- .++...|+.++|+..++++.+..  |+... +..+...+.. ++..++                             
T Consensus       122 la-~~l~~~g~~~~Al~~l~~al~~~--P~~~~~~~~la~~l~~-~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~  197 (765)
T PRK10049        122 LA-YVYKRAGRHWDELRAMTQALPRA--PQTQQYPTEYVQALRN-NRLSAPALGAIDDANLTPAEKRDLEADAAAELVRL  197 (765)
T ss_pred             HH-HHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH-CCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Confidence            44 35667788888888888887743  44332 2222222222 223332                             


Q ss_pred             -----------------HHHHHHHHHhc-CCccCHh-hHH----HHHHHHHccCcHHHHHHHHHHhhhCCCC-CCHhhHH
Q 046547          155 -----------------VADILLEMKSI-GYHPDCG-TCN----YLVSSLCAIDQLVEAAKVLKGMSSAECV-PDLESYS  210 (343)
Q Consensus       155 -----------------a~~~~~~m~~~-g~~~~~~-~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~  210 (343)
                                       |++.++.+.+. ...|+.. .+.    ..+..+...|++++|...|+.+.+.+.. |+. .-.
T Consensus       198 ~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~  276 (765)
T PRK10049        198 SFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQR  276 (765)
T ss_pred             hcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHH
Confidence                             33333333322 1122211 111    1123345667788888888887776532 322 112


Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCC--chhHHHHHHHHHHhCccHHHHHHHHHHHHHcC-----------CCCch
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMP--RQGMVIKVAAALRANREMWKAVEMIEFLERKG-----------CPIGF  277 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-----------~~p~~  277 (343)
                      .+..+|...|++++|+..|+++.......+  .......+..++...|++++|.++++.+.+..           -.|+.
T Consensus       277 ~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~  356 (765)
T PRK10049        277 WVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPND  356 (765)
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCc
Confidence            245677778888888888887764211110  12345556667777788888888877776531           11221


Q ss_pred             ---hhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          278 ---QGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       278 ---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                         ..+..+...+...|+.++|++.++++.... +-+...+..+...+...|+.++|++.+++..++.
T Consensus       357 ~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        357 DWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence               133445556777777777777777776542 2345666666667777777777777777766654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.48  E-value=2.2e-10  Score=115.06  Aligned_cols=297  Identities=11%  Similarity=-0.011  Sum_probs=199.0

Q ss_pred             HHHHHHHhCccCcchHHHHHHHchhcCCCCChH---HHhh-hhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHh
Q 046547           35 EETVRAAVDAKDYQQIPELLGSFEEACQNPNPF---SFLS-NFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTL  110 (343)
Q Consensus        35 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~  110 (343)
                      ......+.+.|++++|.+.|+.+.... .|+..   .|.. .....++...+.+.++.+....|.  +...+..+-. .+
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~--~~~~~~~LA~-ll  191 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPG--NTGLRNTLAL-LL  191 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCC--CHHHHHHHHH-HH
Confidence            344556888999999999999987543 33322   1222 222346677777777777655443  2334444444 56


Q ss_pred             hcCCChHHHHHHHHHHHhcCC------------------C--------------ccHHHHH-------------------
Q 046547          111 QSLHPLPLALAILQRTLRSGC------------------V--------------PVPQIRL-------------------  139 (343)
Q Consensus       111 ~~~~~~~~a~~~~~~m~~~~~------------------~--------------p~~~~~~-------------------  139 (343)
                      ...|+.++|++.++++.+...                  .              |+.....                   
T Consensus       192 ~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~  271 (1157)
T PRK11447        192 FSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR  271 (1157)
T ss_pred             HccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH
Confidence            678999999999998754321                  0              1100000                   


Q ss_pred             --HHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHH------
Q 046547          140 --LLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP-DLESYS------  210 (343)
Q Consensus       140 --~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~------  210 (343)
                        ..-..+... +++++|...|++..+.. +.+...+..+...+.+.|++++|...|++..+..... ....+.      
T Consensus       272 ~~~~G~~~~~~-g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        272 ARAQGLAAVDS-GQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence              001123343 46889999999887752 3367788889999999999999999999988654221 111111      


Q ss_pred             ------HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHH-
Q 046547          211 ------IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEV-  282 (343)
Q Consensus       211 ------~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~-  282 (343)
                            ..-..+.+.|++++|+..|++...  --+.+...+..+...+...|++++|.+.|++..+.  .|+ ...+.. 
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~--~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~~~L  425 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQ--VDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAVRGL  425 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence                  223456788999999999999985  33445667778888999999999999999988763  233 222222 


Q ss_pred             -----------------------------------------HHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHH
Q 046547          283 -----------------------------------------VVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEG  321 (343)
Q Consensus       283 -----------------------------------------li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  321 (343)
                                                               +...+...|++++|.+.|++..+.. +-+...+..+...
T Consensus       426 ~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~  504 (1157)
T PRK11447        426 ANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQD  504 (1157)
T ss_pred             HHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence                                                     2233556788899999998887654 2256677788889


Q ss_pred             HhccCChhHHHHHHHHHHhhc
Q 046547          322 LAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       322 ~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      |.+.|++++|...++++.+..
T Consensus       505 ~~~~G~~~~A~~~l~~al~~~  525 (1157)
T PRK11447        505 LRQAGQRSQADALMRRLAQQK  525 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC
Confidence            999999999999999887654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.48  E-value=2e-10  Score=115.38  Aligned_cols=152  Identities=11%  Similarity=-0.024  Sum_probs=109.5

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ..+...|+.++|..+++.     .+.+...+..+...+...|+.++|+..|+...+  .-+.+...+..+...+...|+.
T Consensus       581 ~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~--~~P~~~~a~~~la~~~~~~g~~  653 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT--REPGNADARLGLIEVDIAQGDL  653 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCH
Confidence            344555566666655541     234455667778888888999999999998885  3344677788888899999999


Q ss_pred             HHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC--CC---CHHHHHHHHHHHhccCChhHHH
Q 046547          259 WKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGF--IP---YIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p---~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      ++|.+.++...+.  .|+ ..++..+...+...|++++|.++++++....-  .|   +...+..+...+...|++++|.
T Consensus       654 ~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        654 AAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             HHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999977653  343 34555667778889999999999998876532  22   2345666677888899999999


Q ss_pred             HHHHHHH
Q 046547          333 VVRQRFA  339 (343)
Q Consensus       333 ~~~~~m~  339 (343)
                      +.|++..
T Consensus       732 ~~y~~Al  738 (1157)
T PRK11447        732 ETYKDAM  738 (1157)
T ss_pred             HHHHHHH
Confidence            9888764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.47  E-value=6.7e-10  Score=106.85  Aligned_cols=305  Identities=11%  Similarity=0.020  Sum_probs=206.0

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH--HHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF--SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      +......+...+...|++++|++.+++..... ..+..  ....++...++.+.+...++......|..++  .+..+..
T Consensus        82 ~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~--~~~~la~  158 (765)
T PRK10049         82 NDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKANLLALAYVYKRAGRHWDELRAMTQALPRAPQTQQ--YPTEYVQ  158 (765)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH--HHHHHHH
Confidence            45566677788888889999998888877642 11222  1244555667777777777776665554322  2222222


Q ss_pred             HHhhcCCChH----------------------------------------------HHHHHHHHHHhc-CCCccHHH-H-
Q 046547          108 YTLQSLHPLP----------------------------------------------LALAILQRTLRS-GCVPVPQI-R-  138 (343)
Q Consensus       108 ~~~~~~~~~~----------------------------------------------~a~~~~~~m~~~-~~~p~~~~-~-  138 (343)
                       ++...+..+                                              +|+..++.+.+. .-.|+... + 
T Consensus       159 -~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~  237 (765)
T PRK10049        159 -ALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQ  237 (765)
T ss_pred             -HHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHH
Confidence             233334433                                              444555555432 12232211 1 


Q ss_pred             ---HHHHHHHHhccCchhHHHHHHHHHHhcCCc-cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC---CHhhHHH
Q 046547          139 ---LLLSSAWLERRCQSQSVADILLEMKSIGYH-PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP---DLESYSI  211 (343)
Q Consensus       139 ---~~li~~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~  211 (343)
                         ...+..+...+ ++++|...|+.+.+.+.+ |+. .-..+...|...|++++|..+|+++.+.....   ....+..
T Consensus       238 ~a~~d~l~~Ll~~g-~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~  315 (765)
T PRK10049        238 RARIDRLGALLARD-RYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELAD  315 (765)
T ss_pred             HHHHHHHHHHHHhh-hHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHH
Confidence               11133445554 689999999999887532 332 22225678999999999999999987643211   1345666


Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCC----------CCCc---hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMG----------LMPR---QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~----------~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      +..++...|++++|..+++.+.....          -.|+   ...+..+...+...|+.++|.++++++.... +-+..
T Consensus       316 L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~  394 (765)
T PRK10049        316 LFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQG  394 (765)
T ss_pred             HHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            77788999999999999999985310          1123   2345667788899999999999999998742 33456


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .+..+...+...|++++|++.+++.....  |+ ...+......+.+.|++++|..+++++.+..|
T Consensus       395 l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        395 LRIDYASVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            77888888999999999999999988754  54 66677777789999999999999999987653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.46  E-value=3.9e-10  Score=109.40  Aligned_cols=300  Identities=7%  Similarity=-0.047  Sum_probs=212.9

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchh-cC-CCCChHH---Hhhhhhhccc-------------------------c
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEE-AC-QNPNPFS---FLSNFPQNHR-------------------------I   79 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~-~~p~~~~---~~~~~~~~~~-------------------------~   79 (343)
                      +......+--...+.|+.++|.++++.... .+ ..++...   +..++.....                         .
T Consensus       375 ~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  454 (987)
T PRK09782        375 NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQL  454 (987)
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhh
Confidence            666677777778888999999999998776 22 2232211   1222222222                         1


Q ss_pred             hHHHHHHHHhcCCCCCCC---ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHH
Q 046547           80 KVIDEMLESFIPLRPRSR---PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVA  156 (343)
Q Consensus        80 ~~~~~~~~~~~~~~~~~p---~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~  156 (343)
                      .......+.+....+..|   +...|..+-. ++.. ++.++|...+.+.....  |+......+...+... +++++|.
T Consensus       455 ~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~-~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~-Gr~eeAi  529 (987)
T PRK09782        455 PGIADNCPAIVRLLGDMSPSYDAAAWNRLAK-CYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQV-EDYATAL  529 (987)
T ss_pred             hhhhhhHHHHHHhcccCCCCCCHHHHHHHHH-HHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHC-CCHHHHH
Confidence            111222222222233323   3455555553 4544 78899999888887643  7755433333333355 4799999


Q ss_pred             HHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC
Q 046547          157 DILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM  236 (343)
Q Consensus       157 ~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  236 (343)
                      ..++.+...  .|+...+..+...+.+.|++++|...++...+.. +.+...+..+.......|++++|...+++..+  
T Consensus       530 ~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--  604 (987)
T PRK09782        530 AAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN--  604 (987)
T ss_pred             HHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--
Confidence            999987654  4555556667778899999999999999998764 22333344444555567999999999999985  


Q ss_pred             CCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHH
Q 046547          237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVR  315 (343)
Q Consensus       237 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  315 (343)
                       ..|+...|..+..++.+.|+.++|...+++..+.  .|+ ...++.+-..+...|++++|+..+++..+.. +-+...+
T Consensus       605 -l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~  680 (987)
T PRK09782        605 -IAPSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALI  680 (987)
T ss_pred             -hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence             3467888999999999999999999999999884  454 4566777778999999999999999988754 2367788


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          316 QKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       316 ~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ..+..++...|++++|+..+++..++++
T Consensus       681 ~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        681 RQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            8999999999999999999999987763

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.45  E-value=4.9e-10  Score=99.60  Aligned_cols=282  Identities=12%  Similarity=0.027  Sum_probs=204.7

Q ss_pred             ccCcchHHHHHHHchhcCCCCChHHHh--hhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH-HHHhhcCCChHHHH
Q 046547           44 AKDYQQIPELLGSFEEACQNPNPFSFL--SNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL-SYTLQSLHPLPLAL  120 (343)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~p~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li-~~~~~~~~~~~~a~  120 (343)
                      .|+++.|.+.+....+..-.|.....+  ..-...|+.+.+++.++...+.   .|+...+..+. ...+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~---~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL---ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            599999998888755543233333222  2225667777777777776543   34543332211 12455679999999


Q ss_pred             HHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH-------hhHHHHHHHHHccCcHHHHHH
Q 046547          121 AILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC-------GTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       121 ~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      ..++++.+..  | +......+...|.+.+ ++++|.+++..+.+.+..++.       .+|..++.......+.+...+
T Consensus       174 ~~l~~~~~~~--P~~~~al~ll~~~~~~~g-dw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        174 HGVDKLLEVA--PRHPEVLRLAEQAYIRTG-AWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHhcC--CCCHHHHHHHHHHHHHHH-hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999998865  5 4455667777777775 799999999999988765433       233344444445556677777


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      +++.+-+. .+.+......+..++...|+.++|.+++++...+   +||...  .++.+.+..++.+++.+..+...+. 
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~-  323 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ-  323 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh-
Confidence            77776443 3456778888999999999999999999998853   445422  3455556779999999999998874 


Q ss_pred             CCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          273 CPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       273 ~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                       .|+ ...+..+-..|.+.|++++|.+.|+...+.  .|+..++..+...+.+.|+.++|.+++++-..+
T Consensus       324 -~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        324 -HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             -CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             344 445677888899999999999999999875  599999999999999999999999999976543

>TIGR00540 hemY_coli hemY protein

Probab=99.45  E-value=3.5e-10  Score=101.06  Aligned_cols=292  Identities=13%  Similarity=0.040  Sum_probs=198.5

Q ss_pred             HHHHHHHHh--CccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCCCChh--hHHHH
Q 046547           34 LEETVRAAV--DAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKI--AYDYL  105 (343)
Q Consensus        34 ~~~li~~~~--~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~--~~~~l  105 (343)
                      ...+..++.  ..|+++.|.+.+....+.  .|++..+    .......|+.+.+++.++...+..|   +..  .--..
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p---~~~l~~~~~~  159 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAG---NDNILVEIAR  159 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---cCchHHHHHH
Confidence            334444433  469999999999876554  4554333    3444566888888888877654333   322  22212


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHH---
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSL---  181 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~---  181 (343)
                      .. .....|+++.|...++.+.+..  | +......+...+...+ ++++|.+.+..+.+.+..++......-..++   
T Consensus       160 a~-l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~-d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       160 TR-ILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSG-AWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGL  235 (409)
T ss_pred             HH-HHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            32 4456799999999999999865  5 4456667777777765 7999999999999987544332212222222   


Q ss_pred             HccCcHHHHHHHHHHhhhCCC---CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhH---HHHHHHHHHhC
Q 046547          182 CAIDQLVEAAKVLKGMSSAEC---VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGM---VIKVAAALRAN  255 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~---~~~li~~~~~~  255 (343)
                      ...+..+++.+.+..+.+...   +.+...+..+...+...|+.++|.+++++..++   .||...   ...........
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~  312 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKP  312 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCC
Confidence            222333333344444443321   237788888999999999999999999999863   344331   12222223445


Q ss_pred             ccHHHHHHHHHHHHHcCCCCchh---hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          256 REMWKAVEMIEFLERKGCPIGFQ---GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       256 ~~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      ++.+.+.+.++...+.  .|+..   ...++-..+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.
T Consensus       313 ~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~  390 (409)
T TIGR00540       313 EDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAA  390 (409)
T ss_pred             CChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            7888899988887763  45444   445778889999999999999996555556799999999999999999999999


Q ss_pred             HHHHHHH
Q 046547          333 VVRQRFA  339 (343)
Q Consensus       333 ~~~~~m~  339 (343)
                      ++|++-.
T Consensus       391 ~~~~~~l  397 (409)
T TIGR00540       391 AMRQDSL  397 (409)
T ss_pred             HHHHHHH
Confidence            9999754

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.43  E-value=2.8e-09  Score=101.52  Aligned_cols=300  Identities=14%  Similarity=0.066  Sum_probs=206.3

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCC--CChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH-
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQN--PNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL-  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li-  106 (343)
                      .+.+--..+-...+.|+++.|++.|++..+..-.  |.+..++.++...|+...+...++...     .|+...+..++ 
T Consensus        33 ~~~~~y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~-----~p~n~~~~~lla  107 (822)
T PRK14574         33 MADTQYDSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ-----SSMNISSRGLAS  107 (822)
T ss_pred             chhHHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc-----cCCCCCHHHHHH
Confidence            3444334445567889999999999998764321  223445666667788888888888765     22333333333 


Q ss_pred             -HHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc
Q 046547          107 -SYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI  184 (343)
Q Consensus       107 -~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~  184 (343)
                       ...+...|++++|+++|+++.+..  |+ ...+..+...+...+ +.++|++.++.+...  .|+...+-.++..+...
T Consensus       108 lA~ly~~~gdyd~Aiely~kaL~~d--P~n~~~l~gLa~~y~~~~-q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~  182 (822)
T PRK14574        108 AARAYRNEKRWDQALALWQSSLKKD--PTNPDLISGMIMTQADAG-RGGVVLKQATELAER--DPTVQNYMTLSYLNRAT  182 (822)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHhhcC-CHHHHHHHHHHhccc--CcchHHHHHHHHHHHhc
Confidence             126777799999999999998855  43 444555556666664 689999999999775  56655664443344445


Q ss_pred             CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH----------------------------------
Q 046547          185 DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK----------------------------------  230 (343)
Q Consensus       185 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~----------------------------------  230 (343)
                      ++..+|++.++++.+.. +-+...+..+..++.+.|-.+.|.++..                                  
T Consensus       183 ~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~  261 (822)
T PRK14574        183 DRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSET  261 (822)
T ss_pred             chHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccch
Confidence            66666999999998864 2345556666666666665444444333                                  


Q ss_pred             --------------HHHhcCCCCCch-hHH----HHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc
Q 046547          231 --------------EMVLNMGLMPRQ-GMV----IKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR  291 (343)
Q Consensus       231 --------------~m~~~~~~~p~~-~~~----~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  291 (343)
                                    .+....+-.|.. ..|    -=.+-++...++..++.+.|+.+...|.+....+-..+.++|...+
T Consensus       262 ~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~  341 (822)
T PRK14574        262 ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRR  341 (822)
T ss_pred             hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcC
Confidence                          222211222321 111    2235567788999999999999998887655667788999999999


Q ss_pred             cHhHHHHHHHHHhHCC-----CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          292 EYILAGKTVMGMTERG-----FIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ++++|+.++.++....     ..++......|.-+|...+++++|..+++++.+
T Consensus       342 ~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        342 LPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             CcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            9999999999986643     223455568899999999999999999999986

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.40  E-value=4.2e-09  Score=100.32  Aligned_cols=301  Identities=13%  Similarity=0.033  Sum_probs=180.0

Q ss_pred             HHHHHHHhCccCcchHHHHHHHchhcCCCCC-hHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcC
Q 046547           35 EETVRAAVDAKDYQQIPELLGSFEEACQNPN-PFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSL  113 (343)
Q Consensus        35 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~  113 (343)
                      ..+...+...|+++.|+++++++.+..  |+ +..+..+.......+..+++++.+.++.+..|+...+-.++ ..+...
T Consensus       106 lalA~ly~~~gdyd~Aiely~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~la-yL~~~~  182 (822)
T PRK14574        106 ASAARAYRNEKRWDQALALWQSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLS-YLNRAT  182 (822)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHH-HHHHhc
Confidence            333556777788888888888777643  22 22222222333333444455555444455555655553333 244344


Q ss_pred             CChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhH--------------------------------------
Q 046547          114 HPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQS--------------------------------------  154 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~--------------------------------------  154 (343)
                      ++..+|++.++++.+..  |+ ...+..+..++.+.+ -...                                      
T Consensus       183 ~~~~~AL~~~ekll~~~--P~n~e~~~~~~~~l~~~~-~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~  259 (822)
T PRK14574        183 DRNYDALQASSEAVRLA--PTSEEVLKNHLEILQRNR-IVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRS  259 (822)
T ss_pred             chHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC-CcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhccccccc
Confidence            55556888888887753  43 223333333332222 1111                                      


Q ss_pred             ----------HHHHHHHHHh-cCCccCH-hhH----HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc
Q 046547          155 ----------VADILLEMKS-IGYHPDC-GTC----NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST  218 (343)
Q Consensus       155 ----------a~~~~~~m~~-~g~~~~~-~~~----~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  218 (343)
                                |+.-++.+.. .+-.|.. ..|    --.+-++...|++.++.+.|+.+...|.+....+--++.++|..
T Consensus       260 ~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~  339 (822)
T PRK14574        260 ETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYID  339 (822)
T ss_pred             chhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHh
Confidence                      2222222221 1111221 111    12345566778888888888888888766556677788888888


Q ss_pred             CCChhHHHHHHHHHHhcCC----CCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC-----------CCch--h-hH
Q 046547          219 ARKTNDAVEMMKEMVLNMG----LMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGC-----------PIGF--Q-GY  280 (343)
Q Consensus       219 ~~~~~~a~~~~~~m~~~~~----~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----------~p~~--~-~~  280 (343)
                      .+++++|+.+++++....+    ..++......|..+|..++++++|..+++.+.+.--           .||.  . .+
T Consensus       340 ~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~  419 (822)
T PRK14574        340 RRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQ  419 (822)
T ss_pred             cCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHH
Confidence            8888888888888865211    233444457788888888888888888888876210           1221  1 23


Q ss_pred             HHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          281 EVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       281 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..++..+...|+..+|++.++++.... +-|......+-+.+...|...+|.+.++....+.
T Consensus       420 ~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~  480 (822)
T PRK14574        420 TLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA  480 (822)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC
Confidence            445666788888888888888886653 3367777777778888888888888886665543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.39  E-value=8.1e-10  Score=90.66  Aligned_cols=201  Identities=10%  Similarity=0.006  Sum_probs=132.4

Q ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 046547          136 QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGA  215 (343)
Q Consensus       136 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  215 (343)
                      ..+..+...+...+ ++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        32 ~~~~~la~~~~~~~-~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        32 KIRVQLALGYLEQG-DLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHCC-CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            34444445555544 5777777777766542 2335566666677777777777777777776543 2344556666777


Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      +...|++++|.+.++..............+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            777778888888777776521122234456666777777888888888888776642 1234566677777778888888


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      |...+++..+. .+.+...+..+...+...|+.++|..+.+.+.+.
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            88888877665 2345566667777777788888888887777654

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.39  E-value=5.1e-12  Score=115.07  Aligned_cols=218  Identities=15%  Similarity=0.123  Sum_probs=159.4

Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH
Q 046547           92 LRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus        92 ~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      ..+..|+.+||.++|. -||..|+.+.|- +|.-|.-.....+...|+.++.+....+ +.+.+.           .|.+
T Consensus        18 ~~gi~PnRvtyqsLia-rYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~An-d~Enpk-----------ep~a   83 (1088)
T KOG4318|consen   18 ISGILPNRVTYQSLIA-RYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEAN-DAENPK-----------EPLA   83 (1088)
T ss_pred             HhcCCCchhhHHHHHH-HHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccc-cccCCC-----------CCch
Confidence            3577889999999995 788889999888 8888887777778888999988765554 455543           7889


Q ss_pred             hhHHHHHHHHHccCcHHH---HHHHHHHhh----hCCC-----------------CCCHhhHHHHHHHHhcCCChhHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVE---AAKVLKGMS----SAEC-----------------VPDLESYSIVIGAMSTARKTNDAVE  227 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~---a~~~~~~m~----~~~~-----------------~~~~~~~~~ll~~~~~~~~~~~a~~  227 (343)
                      .||+.|+.+|...||+..   +.+.++...    ..|+                 -||..+   .+.-.+..|-++.+++
T Consensus        84 Dtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLK  160 (1088)
T ss_pred             hHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHH
Confidence            999999999999999764   222222221    1221                 222221   1111112222222222


Q ss_pred             ------------------------------HHHHHHhcCCC-CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc
Q 046547          228 ------------------------------MMKEMVLNMGL-MPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG  276 (343)
Q Consensus       228 ------------------------------~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  276 (343)
                                                    +.....  ... .|+..+|.+++.+-..+|+.+.|..++.+|++.|++.+
T Consensus       161 ll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~ck--sl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  161 LLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCK--SLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             HHhhCCcccccchHHHHHHHhccCCchHHHHHHHHH--HhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence                                          222222  122 58999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHH
Q 046547          277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA  331 (343)
Q Consensus       277 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  331 (343)
                      .+-|..|+-+   .+...-+..++.-|.+.|+.|+..|+.-.+..+.+.|....+
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~  290 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYG  290 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhc
Confidence            9988888877   888889999999999999999999999888888776654443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.38  E-value=1.6e-09  Score=96.29  Aligned_cols=257  Identities=9%  Similarity=-0.049  Sum_probs=192.7

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH-----hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHH
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF-----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSY  108 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~  108 (343)
                      |.....+..+.|+++.|.+.+.++.+.  .|+....     .......|+.+.+...++...+..|.  +......+.. 
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~--~~~al~ll~~-  195 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR--HPEVLRLAEQ-  195 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CHHHHHHHHH-
Confidence            444455558899999999999998764  4554322     34556778888888888887665554  3455666665 


Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHH-------HHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQ-------IRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSL  181 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~  181 (343)
                      .+...|++++|.+++..+.+.+..++..       +|..++...... .+.+...++++.+.+. .+.++.....+...+
T Consensus       196 ~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~-~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l  273 (398)
T PRK10747        196 AYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMAD-QGSEGLKRWWKNQSRK-TRHQVALQVAMAEHL  273 (398)
T ss_pred             HHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHH
Confidence            6778899999999999999887654332       223333322222 2345566666666443 355778888899999


Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHH
Q 046547          182 CAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKA  261 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a  261 (343)
                      ...|+.++|.+++++..+.  .|+..  -.++.+....++.+++++..+...+  ..+-|.....++-..+.+.+++++|
T Consensus       274 ~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A  347 (398)
T PRK10747        274 IECDDHDTAQQIILDGLKR--QYDER--LVLLIPRLKTNNPEQLEKVLRQQIK--QHGDTPLLWSTLGQLLMKHGEWQEA  347 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCChHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999998874  45543  2245566677999999999999985  4555666788999999999999999


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          262 VEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       262 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .+.|+...+  ..|+..+|..+...+.+.|+.++|.+++++-..
T Consensus       348 ~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        348 SLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999987  569999999999999999999999999997643

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.31  E-value=2.4e-09  Score=91.30  Aligned_cols=57  Identities=18%  Similarity=0.236  Sum_probs=38.2

Q ss_pred             hhhhchhhhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHH
Q 046547           10 RSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFS   68 (343)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   68 (343)
                      +.+...+-.+.+.|+.........++.+-..|.+.|++++|+.-|+...+.  .|+..+
T Consensus       255 kaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a  311 (840)
T KOG2003|consen  255 KAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIA  311 (840)
T ss_pred             HHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHh
Confidence            344555566667777665556666777667777888888888888766543  566654

>TIGR00540 hemY_coli hemY protein

Probab=99.29  E-value=9.2e-09  Score=91.98  Aligned_cols=262  Identities=11%  Similarity=0.017  Sum_probs=182.7

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH-----HHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF-----SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      .+-.......+.|+++.|.+.+++..+.  .|+..     ++..+....++.+.+...++.+.+..|..  ......+..
T Consensus       120 ~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~--~~~l~ll~~  195 (409)
T TIGR00540       120 NLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRH--KEVLKLAEE  195 (409)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC--HHHHHHHHH
Confidence            3445567778889999999999987654  24432     23566667888888888888877655543  345555554


Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHH---HhccCchhHHHHHHHHHHhcCC---ccCHhhHHHHHHHH
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAW---LERRCQSQSVADILLEMKSIGY---HPDCGTCNYLVSSL  181 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~---~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~ll~~~  181 (343)
                       .+...|+++.|.+.+..+.+.++.++......-..++   ...+. .+++.+.+..+.+...   +.+...+..+...+
T Consensus       196 -~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~-~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l  273 (409)
T TIGR00540       196 -AYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAM-ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHL  273 (409)
T ss_pred             -HHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH-HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHH
Confidence             6778899999999999999987543332212112222   22211 2223334444443321   23778888899999


Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhh---HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch--hHHHHHHHHHHhCc
Q 046547          182 CAIDQLVEAAKVLKGMSSAECVPDLES---YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ--GMVIKVAAALRANR  256 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~~~~~~~  256 (343)
                      ...|+.++|.+++++..+..  ||...   .....-.....++.+.+.+.++...+.  .+-|.  ....++-..+.+.|
T Consensus       274 ~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~  349 (409)
T TIGR00540       274 IDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHG  349 (409)
T ss_pred             HHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcc
Confidence            99999999999999998864  44332   122222334457788899999887753  23333  56678889999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      ++++|.+.|+........|+...+..+...+.+.|+.++|.++|++..
T Consensus       350 ~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       350 EFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             cHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999964444467999999999999999999999999999754

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.28  E-value=5.9e-09  Score=85.48  Aligned_cols=199  Identities=10%  Similarity=-0.019  Sum_probs=155.3

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                      ..+..+.. .+...|++++|.+.+++..+.. +.+...+..+...+...+ ++++|.+.+++..+.. +.+...+..+..
T Consensus        32 ~~~~~la~-~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~-~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        32 KIRVQLAL-GYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLG-ELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHH-HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC-CHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            44555554 6667899999999999988754 223455566666666664 7999999999988764 335567788888


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECV-PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      .+...|++++|.+.+++....... .....+..+...+...|++++|...+++...  ..+.+...+..+...+...|++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQ--IDPQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCChHHHHHHHHHHHHcCCH
Confidence            999999999999999999875322 2345677788889999999999999999885  3334566788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+++.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999998876 344556777788888899999999999887754

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.24  E-value=1.2e-07  Score=79.97  Aligned_cols=282  Identities=14%  Similarity=0.044  Sum_probs=205.4

Q ss_pred             ccCcchHHHHHHHchhcCCCCChHHH--hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHH
Q 046547           44 AKDYQQIPELLGSFEEACQNPNPFSF--LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALA  121 (343)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~p~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~  121 (343)
                      .|+|.+|..+...-.+.+-.|-....  ..+-...|+....+..+....+..+ .++...+-+.-. .....|+.+.|..
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~-~~~l~v~ltrar-lll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAG-DDTLAVELTRAR-LLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCC-CchHHHHHHHHH-HHHhCCCchhHHH
Confidence            58999999999886666544544333  3444456666777777777655322 334444444444 5556799999999


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH-------hhHHHHHHHHHccCcHHHHHHHH
Q 046547          122 ILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC-------GTCNYLVSSLCAIDQLVEAAKVL  194 (343)
Q Consensus       122 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~  194 (343)
                      -++++.+.+-. .+........+|.+.| ++..+..++..|.+.|.-.+.       .+|+.++.-....+..+.-...|
T Consensus       175 ~v~~ll~~~pr-~~~vlrLa~r~y~~~g-~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         175 NVDQLLEMTPR-HPEVLRLALRAYIRLG-AWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHhCcC-ChHHHHHHHHHHHHhc-cHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            99998886633 4455677888888876 699999999999998876654       46777777777777767666677


Q ss_pred             HHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH-cCC
Q 046547          195 KGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER-KGC  273 (343)
Q Consensus       195 ~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~  273 (343)
                      +..-.. .+.+...-.+++.-+..+|+.++|.++..+...+ +..|+.    ...-.+.+.++.+.-.+..+.-.+ .+.
T Consensus       253 ~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~  326 (400)
T COG3071         253 KNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPE  326 (400)
T ss_pred             HhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCC
Confidence            665432 3344555567788899999999999999998875 766662    223345677777777777776554 344


Q ss_pred             CCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          274 PIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       274 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      .|  -.+.+|-..|.+.+.+.+|...|+...+  ..|+..+|+.+-+++.+.|+..+|.+++++-.
T Consensus       327 ~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         327 DP--LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             Ch--hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            44  6677888889999999999999996665  46899999999999999999999999988754

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.23  E-value=1e-08  Score=87.65  Aligned_cols=272  Identities=11%  Similarity=0.056  Sum_probs=194.1

Q ss_pred             HHHhCccCcchHHHHHHHchhcCCCCChHHH--hhhhh---hcccchHHHHHHHHhcCCCCCCCChhhHHHHH-----HH
Q 046547           39 RAAVDAKDYQQIPELLGSFEEACQNPNPFSF--LSNFP---QNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL-----SY  108 (343)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--~~~~~---~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li-----~~  108 (343)
                      ..+.+.|+++.|+++++-+.....+.....-  +..+.   .-.+...+..--+....+       .-||..-     ..
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~-------dryn~~a~~nkgn~  499 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNI-------DRYNAAALTNKGNI  499 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcc-------cccCHHHhhcCCce
Confidence            4577899999999999988765432222221  11111   111223333333332222       2233221     11


Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      ++ ..|++++|...|.+.....-.-....||+=+.+ -.. +..++|++.|-.+... +..+..+.--+-+.|-...+..
T Consensus       500 ~f-~ngd~dka~~~ykeal~ndasc~ealfniglt~-e~~-~~ldeald~f~klh~i-l~nn~evl~qianiye~led~a  575 (840)
T KOG2003|consen  500 AF-ANGDLDKAAEFYKEALNNDASCTEALFNIGLTA-EAL-GNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPA  575 (840)
T ss_pred             ee-ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccH-HHh-cCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHH
Confidence            23 358999999999999887655555667776653 333 4689999998777542 2335556666777888888999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      .|++++-.... -++.|..+.+-|...|-+.|+-.+|.+.+-+--+  -++-+..|...|...|....-++++...|++.
T Consensus       576 qaie~~~q~~s-lip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~eka  652 (840)
T KOG2003|consen  576 QAIELLMQANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKA  652 (840)
T ss_pred             HHHHHHHHhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99998865543 2555788899999999999999999998766542  56668889999999999999999999999986


Q ss_pred             HHcCCCCchhhHHHHHHHH-HhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          269 ERKGCPIGFQGYEVVVEGC-LECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      .-  +.|+..-|..+|..| .+.|++.+|.++++.... .++-|..+...|++.+...|.
T Consensus       653 al--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr-kfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  653 AL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             Hh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH-hCccchHHHHHHHHHhccccc
Confidence            54  789999999988775 568999999999998865 467789999999998888874

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.22  E-value=1.1e-07  Score=92.63  Aligned_cols=285  Identities=11%  Similarity=0.009  Sum_probs=190.2

Q ss_pred             cCcchHHHHHHHchhcCCCC-ChHHH---hhhhhhcccchHHHHHHHHhcCCCC-CCCChhhHHHHHHHHhhcCCC---h
Q 046547           45 KDYQQIPELLGSFEEACQNP-NPFSF---LSNFPQNHRIKVIDEMLESFIPLRP-RSRPKIAYDYLLSYTLQSLHP---L  116 (343)
Q Consensus        45 ~~~~~a~~~~~~m~~~~~~p-~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~~~~---~  116 (343)
                      +...++...++.|-..  .| +....   .......|+.+.+..+++......+ ..++...-.-++. .+.+.+.   .
T Consensus       356 ~~~~~~~~~~~~~y~~--~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~-~~~~~~~~~~~  432 (987)
T PRK09782        356 RNKAEALRLARLLYQQ--EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLAS-LLESHPYLATP  432 (987)
T ss_pred             CchhHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHH-HHHhCCcccch
Confidence            4555555555555443  12 22211   3444567778888888888765322 2223334445554 4544444   2


Q ss_pred             HHHHHH----------------------HHHHHh-cCC-Cc--cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC
Q 046547          117 PLALAI----------------------LQRTLR-SGC-VP--VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD  170 (343)
Q Consensus       117 ~~a~~~----------------------~~~m~~-~~~-~p--~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~  170 (343)
                      .++..+                      .+.... .+. ++  +...|..+-..+.. + +.++|...+.+....  .|+
T Consensus       433 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~-~~~eAi~a~~~Al~~--~Pd  508 (987)
T PRK09782        433 AKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-T-LPGVALYAWLQAEQR--QPD  508 (987)
T ss_pred             HHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-C-CcHHHHHHHHHHHHh--CCc
Confidence            222222                      222211 112 22  44555555554444 4 577899977777664  466


Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ......+...+...|++++|...|+++...  .|+...+..+..++...|+.++|...+++.... . +++...+..+..
T Consensus       509 ~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l-~-P~~~~l~~~La~  584 (987)
T PRK09782        509 AWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR-G-LGDNALYWWLHA  584 (987)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-CccHHHHHHHHH
Confidence            444333344456899999999999997654  445555667778889999999999999999863 3 333344444445


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhH
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKL  330 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  330 (343)
                      ...+.|++++|...+++..+  ..|+...|..+...+.+.|++++|+..+++..... +-+...+..+...+...|++++
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~ee  661 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQ  661 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            55567999999999999987  45777888899999999999999999999988765 3357788888889999999999


Q ss_pred             HHHHHHHHHhhcC
Q 046547          331 ATVVRQRFAELKS  343 (343)
Q Consensus       331 a~~~~~~m~~~~~  343 (343)
                      |+..+++..++.|
T Consensus       662 Ai~~l~~AL~l~P  674 (987)
T PRK09782        662 SREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999887653

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.22  E-value=6.9e-09  Score=92.46  Aligned_cols=278  Identities=13%  Similarity=0.046  Sum_probs=151.5

Q ss_pred             CcchHHHHHHHchhcCCCCChH-HH---hhhhhhcccchHHHHHHHHhcCCCC-CCCChhhHHHHHHHHhhcCCChHHHH
Q 046547           46 DYQQIPELLGSFEEACQNPNPF-SF---LSNFPQNHRIKVIDEMLESFIPLRP-RSRPKIAYDYLLSYTLQSLHPLPLAL  120 (343)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~p~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~~~~~~~a~  120 (343)
                      ++++|...|..+...  .++.. ..   -.++........++..++...+..| ...+...|++.+- -+.+    +-++
T Consensus       334 ~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LW-HLq~----~v~L  406 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLW-HLQD----EVAL  406 (638)
T ss_pred             HHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHH-HHHh----hHHH
Confidence            345666666663332  22222 21   2233333344455555555554444 2234566777663 2211    2233


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhh
Q 046547          121 AILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSS  199 (343)
Q Consensus       121 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  199 (343)
                      .++.+=.-.--+-.+.+|-++-+.|.-+ ++.+.|++.|++..+.  .| ...+|+.+-.-+.....+|+|...|+....
T Consensus       407 s~Laq~Li~~~~~sPesWca~GNcfSLQ-kdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~  483 (638)
T KOG1126|consen  407 SYLAQDLIDTDPNSPESWCALGNCFSLQ-KDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG  483 (638)
T ss_pred             HHHHHHHHhhCCCCcHHHHHhcchhhhh-hHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc
Confidence            3333211111223445666666655444 3567777777766653  34 456666666666667777777777765543


Q ss_pred             CCCCCCHhhHHH---HHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc
Q 046547          200 AECVPDLESYSI---VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG  276 (343)
Q Consensus       200 ~~~~~~~~~~~~---ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  276 (343)
                          .|...||+   +-..|.+.++++.|+-.|+...+  --+-+.+....+...+-+.|+.|+|++++++.....-+ |
T Consensus       484 ----~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n  556 (638)
T KOG1126|consen  484 ----VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-N  556 (638)
T ss_pred             ----CCchhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-C
Confidence                44445544   34556677777777777777652  22224444555555566677777777777776653221 2


Q ss_pred             hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       277 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +.+---....+...+++++|+..++++++-  .| +..+|-.+...|.+.|+.+.|..-|.-+.+++
T Consensus       557 ~l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  557 PLCKYHRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             chhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            222222344455667777777777777653  34 45556666777777777777777776666655

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.22  E-value=3.9e-09  Score=94.02  Aligned_cols=265  Identities=9%  Similarity=-0.021  Sum_probs=200.0

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcC--CCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHH
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEAC--QNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYT  109 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~  109 (343)
                      =+...+-.+|...+++++|..+|+......  ..-+...|-..+....+.-...-+-+.+....+.  ...+|.++=. |
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~--sPesWca~GN-c  430 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPN--SPESWCALGN-C  430 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCC--CcHHHHHhcc-h
Confidence            456778888999999999999999988532  1334556655555554443334444444443443  3578888886 8


Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH---HHHHHccC
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL---VSSLCAID  185 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l---l~~~~~~~  185 (343)
                      +.-+++.+.|++.|++..+  +.| ...+|+.+-+-+.... .+|+|...|+...    ..|+..||+.   ...|.+.+
T Consensus       431 fSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~e-e~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqe  503 (638)
T KOG1126|consen  431 FSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATE-EFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQE  503 (638)
T ss_pred             hhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhH-HHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccc
Confidence            9999999999999999988  446 7788888877777765 6899999998764    5567777765   45688999


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      +++.|.-.|++..+.+. -+.+....+...+-+.|+.|+|++++++...  --+-|+..---.+..+...++.++|+..+
T Consensus       504 k~e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~--ld~kn~l~~~~~~~il~~~~~~~eal~~L  580 (638)
T KOG1126|consen  504 KLEFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIH--LDPKNPLCKYHRASILFSLGRYVEALQEL  580 (638)
T ss_pred             hhhHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHh--cCCCCchhHHHHHHHHHhhcchHHHHHHH
Confidence            99999999999887542 3566677778888999999999999999884  22234444445566677889999999999


Q ss_pred             HHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC
Q 046547          266 EFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTVMGMTERGFIPY  311 (343)
Q Consensus       266 ~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  311 (343)
                      +++++  +.|+.. .|-.+...|.+.|+.+.|+.-|..+.+.+-++.
T Consensus       581 EeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  581 EELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            99988  667654 666777889999999999999998887654443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.20  E-value=1.3e-07  Score=79.73  Aligned_cols=267  Identities=12%  Similarity=0.024  Sum_probs=200.9

Q ss_pred             HHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           31 LRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      .-.|.....+..+.|+.+.+-..+.+.-+..-.++....   ...+...++..-+.+-+..+..+.|.  +.........
T Consensus       118 ~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr--~~~vlrLa~r  195 (400)
T COG3071         118 VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPR--HPEVLRLALR  195 (400)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcC--ChHHHHHHHH
Confidence            455777888889999999999999988765334444433   45666677666666666666665554  4567777777


Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCCccH-------HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCVPVP-------QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                       ++.+.|++.....++..|.+.|+--|.       .+|+.++.-....+ ..+.-...|+...++ .+-++..-..++.-
T Consensus       196 -~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~-~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~  272 (400)
T COG3071         196 -AYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDN-GSEGLKTWWKNQPRK-LRNDPELVVAYAER  272 (400)
T ss_pred             -HHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccc-cchHHHHHHHhccHH-hhcChhHHHHHHHH
Confidence             778889999999999999999976555       45666666533333 233334456655443 45567777788889


Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK  260 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~  260 (343)
                      +.+.|+.++|.++.++-.+.+..|+..    ..-.+.+.++...-++..++-....+.  ++..+.+|=..|.+.+.|.+
T Consensus       273 li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~k~~~w~k  346 (400)
T COG3071         273 LIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLALKNKLWGK  346 (400)
T ss_pred             HHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHhhHHHH
Confidence            999999999999999999988777622    233566778888888888877754444  44778899999999999999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP  310 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  310 (343)
                      |...|+...+  ..|+..+|+.+-++|.+.|+..+|.+..++..-.-.+|
T Consensus       347 A~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         347 ASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            9999997776  67999999999999999999999999999866443333

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.19  E-value=5.2e-08  Score=88.10  Aligned_cols=288  Identities=14%  Similarity=0.076  Sum_probs=203.3

Q ss_pred             HHHHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhh--
Q 046547           38 VRAAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ--  111 (343)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~--  111 (343)
                      ...+...|++++|++.++.-..  ..+|..++    ...+...|+.+.++..+..+....   |+...|...+..+..  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN---Pdn~~Yy~~L~~~~g~~   85 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN---PDNYDYYRGLEEALGLQ   85 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHhhh
Confidence            4456778999999999976433  35666665    577788999999999999887653   455555544432441  


Q ss_pred             ---cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchh-HHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcH
Q 046547          112 ---SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQ-SVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       112 ---~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~-~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~  187 (343)
                         ...+.+...++++++...-  |.......+.-.++. |..+. .+..++..+..+|+++   +|+.|-..|....+.
T Consensus        86 ~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~-g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~  159 (517)
T PF12569_consen   86 LQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLE-GDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKA  159 (517)
T ss_pred             cccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCC-HHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHH
Confidence               1235788889999987654  555554444333333 32343 4556777778888644   567776677766666


Q ss_pred             HHHHHHHHHhhhC----C----------CCCCH--hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc-hhHHHHHHH
Q 046547          188 VEAAKVLKGMSSA----E----------CVPDL--ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR-QGMVIKVAA  250 (343)
Q Consensus       188 ~~a~~~~~~m~~~----~----------~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~  250 (343)
                      +-..+++......    +          -.|+.  .++..+...|-..|+.++|+++.+...+.   .|+ +..|..-.+
T Consensus       160 ~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~Kar  236 (517)
T PF12569_consen  160 AIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKAR  236 (517)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHH
Confidence            6666666665432    1          13443  35566777888999999999999998852   354 677888899


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHH--------HHHHHHHHH
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK--------VRQKVVEGL  322 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--------~~~~li~~~  322 (343)
                      .+-+.|++.+|.+.++..++.... |...=+-....+.+.|++++|.+++......+..|...        -......+|
T Consensus       237 ilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~  315 (517)
T PF12569_consen  237 ILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAY  315 (517)
T ss_pred             HHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHH
Confidence            999999999999999998875433 66666677888999999999999999988777555221        123455689


Q ss_pred             hccCChhHHHHHHHHHHh
Q 046547          323 AGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       323 ~~~g~~~~a~~~~~~m~~  340 (343)
                      .+.|++..|.+.|..+.+
T Consensus       316 ~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  316 LRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            999999999998877654

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.18  E-value=4e-08  Score=91.26  Aligned_cols=214  Identities=11%  Similarity=-0.002  Sum_probs=136.7

Q ss_pred             ChHHHHHHHHHHHhcCCCccHH-HHHHHHHHHHh--------ccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC
Q 046547          115 PLPLALAILQRTLRSGCVPVPQ-IRLLLSSAWLE--------RRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID  185 (343)
Q Consensus       115 ~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~--------~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~  185 (343)
                      ++++|...|++..+.  .|+.. .|..+-.++..        ..+++++|...+++..+.. +-+...+..+-..+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            467888888888764  35443 33333222221        1123677888888877653 334566777777777888


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch-hHHHHHHHHHHhCccHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ-GMVIKVAAALRANREMWKAVEM  264 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~  264 (343)
                      ++++|...|++..+.+ +.+...+..+...+...|++++|+..+++..+-   .|+. ..+..+...+...|++++|...
T Consensus       353 ~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        353 EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            8888888888887754 223556777778888888888888888888742   3332 2333344456667888888888


Q ss_pred             HHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          265 IEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       265 ~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      +++..+.. .|+ ...+..+-..+...|+.++|...+.++...  .|+ ....+.+...|...|  +.|...++.+.+
T Consensus       429 ~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        429 GDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            88876543 233 334556666777888888888888776543  233 333445555666666  466666666544

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.18  E-value=3.8e-08  Score=80.63  Aligned_cols=217  Identities=13%  Similarity=0.068  Sum_probs=101.2

Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH------hhHHHHHHHHHccCcH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC------GTCNYLVSSLCAIDQL  187 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~ll~~~~~~~~~  187 (343)
                      .+.++|.+.|-+|.+.  .|.+.--+.-+..+.+..|.++.|+++.+.+.+   .||.      ...-.|-.-|...|-+
T Consensus        49 ~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~---spdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          49 NQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLE---SPDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             cCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhc---CCCCchHHHHHHHHHHHHHHHHhhhh
Confidence            3455666666665552  122222222223333333455566665555544   2221      1122233344455555


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc----hhHHHHHHHHHHhCccHHHHHH
Q 046547          188 VEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR----QGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       188 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      |.|..+|..+.+.|. .-....-.|+..|-...+|++|+++-+++.. .+-.+.    ...|.-|...+....+.+.|..
T Consensus       124 DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k-~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~  201 (389)
T COG2956         124 DRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVK-LGGQTYRVEIAQFYCELAQQALASSDVDRARE  201 (389)
T ss_pred             hHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-cCCccchhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            666666655554332 1223344555555555666666655555543 222221    1223444444444455555555


Q ss_pred             HHHHHHHcCCCCchhhHH-HHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          264 MIEFLERKGCPIGFQGYE-VVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       264 ~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      ++.+..+.  .|+..--+ .+-+.+...|+++.|.+.|+...+.+..--..+...|..+|...|+.++...++.++.
T Consensus       202 ~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~  276 (389)
T COG2956         202 LLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAM  276 (389)
T ss_pred             HHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            55555442  12222111 2233355555666666666555555433334455555556666666655555555544

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.17  E-value=2.9e-08  Score=85.00  Aligned_cols=220  Identities=10%  Similarity=-0.040  Sum_probs=171.9

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCV--PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~  187 (343)
                      .-...|+++|+.+|++.++...-  -|..+|.-++  |.+..   ...+.++-+-...--+--+.|+.++-+-|+-.++.
T Consensus       272 ~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~---~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eH  346 (559)
T KOG1155|consen  272 SYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKND---KSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEH  346 (559)
T ss_pred             HhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhh---hHHHHHHHHHHHHhccCCccceeeehhHHHHHHhH
Confidence            33557888888888888876311  2556676665  23332   12233333222211233457888888899999999


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          188 VEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       188 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      ++|...|+...+.+. -....|+.+-.-|....+...|++-++...+  -.+.|-..|-.|-++|.-.+...=|+-.|++
T Consensus       347 EKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqk  423 (559)
T KOG1155|consen  347 EKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQK  423 (559)
T ss_pred             HHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHH
Confidence            999999999988652 2467788888999999999999999999984  5667889999999999999999999999998


Q ss_pred             HHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          268 LERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       268 m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ..+  ++| |...|.+|-+.|.+.++.++|++-|+.....|- .+...+..|.+.|-+.++.++|.+.|++..+
T Consensus       424 A~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  424 ALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            877  555 677999999999999999999999999988763 3567889999999999999999999988765

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.16  E-value=1.1e-08  Score=93.78  Aligned_cols=256  Identities=12%  Similarity=0.043  Sum_probs=162.5

Q ss_pred             hhhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCC
Q 046547           16 RPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPR   95 (343)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (343)
                      ..++..+...+-.|+..||.++|..||..|+.+.|- +|..|.-.....+-..|..........+..         -.+.
T Consensus        10 tnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~---------Enpk   79 (1088)
T KOG4318|consen   10 TNFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDA---------ENPK   79 (1088)
T ss_pred             chHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccc---------cCCC
Confidence            356666777777899999999999999999999998 988887655444444443333332222211         1345


Q ss_pred             CCChhhHHHHHHHHhhcCCChHHHHHHHHH-HH-------hcCCCccHHHHHHHHHHHHhccCchhHHHH---------H
Q 046547           96 SRPKIAYDYLLSYTLQSLHPLPLALAILQR-TL-------RSGCVPVPQIRLLLSSAWLERRCQSQSVAD---------I  158 (343)
Q Consensus        96 ~p~~~~~~~li~~~~~~~~~~~~a~~~~~~-m~-------~~~~~p~~~~~~~li~~~~~~~~~~~~a~~---------~  158 (343)
                      .|...+|..|+. +|+..||+.. ++..++ |.       ..|+..-..-|...+++  ..+ -...+..         +
T Consensus        80 ep~aDtyt~Ll~-ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c--~p~-~lpda~n~illlv~egl  154 (1088)
T KOG4318|consen   80 EPLADTYTNLLK-AYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHC--CPH-SLPDAENAILLLVLEGL  154 (1088)
T ss_pred             CCchhHHHHHHH-HHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhccc--Ccc-cchhHHHHHHHHHHHHH
Confidence            678899999996 8999998655 222222 22       23332222222222221  111 1111211         1


Q ss_pred             HHHHHhcC-CccCHhhHHH---HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          159 LLEMKSIG-YHPDCGTCNY---LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       159 ~~~m~~~g-~~~~~~~~~~---ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      +....+.+ ..|...-++.   +++-+..  +.....++....+...-.|++.+|.+++.+-..+|+.+.|..++.+|.+
T Consensus       155 waqllkll~~~Pvsa~~~p~~vfLrqnv~--~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAWNAPFQVFLRQNVV--DNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHHHHHhhCCcccccchHHHHHHHhcc--CCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            11222211 1222221221   2333222  2233344444333322269999999999999999999999999999998


Q ss_pred             cCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc
Q 046547          235 NMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE  292 (343)
Q Consensus       235 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  292 (343)
                      + |++.+..-|-.|+-+   .++..-+..+++-|.+.|+.|+..|+..-+..+.++|.
T Consensus       233 ~-gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  233 K-GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             c-CCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            6 999999888888765   88888999999999999999999999988877777655

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.14  E-value=1.7e-07  Score=86.56  Aligned_cols=300  Identities=15%  Similarity=0.120  Sum_probs=154.9

Q ss_pred             HHHHHHHhCccCcchHHHHHHHchhcCC-CCChH-HHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhc
Q 046547           35 EETVRAAVDAKDYQQIPELLGSFEEACQ-NPNPF-SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQS  112 (343)
Q Consensus        35 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  112 (343)
                      ...-..+++ |++++|.+++.+.....- .|-++ |....+...|+.+..-...-..-++.|.  |...|-.+-. ....
T Consensus       144 ~eAN~lfar-g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~--d~e~W~~lad-ls~~  219 (895)
T KOG2076|consen  144 GEANNLFAR-GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK--DYELWKRLAD-LSEQ  219 (895)
T ss_pred             HHHHHHHHh-CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC--ChHHHHHHHH-HHHh
Confidence            334444555 999999999998876532 22222 2244555566554444433333344443  3456666665 6667


Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh----hHHHHHHHHHccCcHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG----TCNYLVSSLCAIDQLV  188 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~----~~~~ll~~~~~~~~~~  188 (343)
                      .|+++.|.-.|.+..+..  |+..-+.-=-..++++.|+...|.+-|.++.+...+.|..    +--.++..+...++-+
T Consensus       220 ~~~i~qA~~cy~rAI~~~--p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  220 LGNINQARYCYSRAIQAN--PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             cccHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            788888888888887744  4443322222234454556777777777776643222221    2223344555566667


Q ss_pred             HHHHHHHHhhhC-CCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc--------------------------CCCCCc
Q 046547          189 EAAKVLKGMSSA-ECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN--------------------------MGLMPR  241 (343)
Q Consensus       189 ~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------------------------~~~~p~  241 (343)
                      .|.+.++..... +-..+...+++++..+.+...++.|......+...                          .++.++
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~  377 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYD  377 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCcc
Confidence            777776665542 23344556666677777777777776666665531                          011112


Q ss_pred             hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC--chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          242 QGMVIKVAAALRANREMWKAVEMIEFLERKGCPI--GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       242 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      ..++ -+.-++.+.+..+....+.....+..+.|  +...|--+..+|...|++.+|+++|..+......-+...|-.+.
T Consensus       378 l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  378 LRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             chhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence            2220 11122223333333333333333333222  22344444555555555555555555555443333344555555


Q ss_pred             HHHhccCChhHHHHHHHHHHhh
Q 046547          320 EGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       320 ~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .+|...|.+++|.+.|+....+
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~  478 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLIL  478 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhc
Confidence            5555555555555555555443

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.08  E-value=1.3e-06  Score=71.88  Aligned_cols=284  Identities=10%  Similarity=0.036  Sum_probs=194.2

Q ss_pred             ccCcchHHHHHHHchhcCCCCChH----HHhhhhhhcccchHHHHHHHHhcCCCCCCCCh---hhHHHHHHHHhhcCCCh
Q 046547           44 AKDYQQIPELLGSFEEACQNPNPF----SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPK---IAYDYLLSYTLQSLHPL  116 (343)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~p~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~---~~~~~li~~~~~~~~~~  116 (343)
                      ..+.++|.++|-+|.+.  .|..+    |.-+++...|.++.+-.+-+.+.. +|..+..   ...-.|-. =|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~-spdlT~~qr~lAl~qL~~-Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLE-SPDLTFEQRLLALQQLGR-DYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhc-CCCCchHHHHHHHHHHHH-HHHHhhhh
Confidence            46889999999999863  22222    335777788888888888887765 2322211   11112222 24567999


Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH----hhHHHHHHHHHccCcHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC----GTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      |.|..+|..+.+.|.. -......|+..| +..+++++|+++-+++.+.|-.+..    ..|..+-..+....+++.|..
T Consensus       124 DRAE~~f~~L~de~ef-a~~AlqqLl~IY-Q~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~  201 (389)
T COG2956         124 DRAEDIFNQLVDEGEF-AEGALQQLLNIY-QATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARE  201 (389)
T ss_pred             hHHHHHHHHHhcchhh-hHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            9999999999886532 223445666655 4456899999999999887655542    345666666667889999999


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      ++.+..+...+ .+..--.+-+.....|+++.|.+.++.+.+. +..--..+-..|..+|...|+.++....+..+.+..
T Consensus       202 ~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         202 LLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            99998876421 2333335567788999999999999999975 555556778899999999999999999999988754


Q ss_pred             CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhcc---CChhHHHHHHHHHH
Q 046547          273 CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV---GEWKLATVVRQRFA  339 (343)
Q Consensus       273 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~  339 (343)
                      ..++  .-..+-+.-....-.+.|..++.+-..+  +|+...+..||..-...   |.+.+..-++..|.
T Consensus       280 ~g~~--~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mv  345 (389)
T COG2956         280 TGAD--AELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMV  345 (389)
T ss_pred             CCcc--HHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHH
Confidence            3333  3333333333444456666666655544  59999999999865543   44566666666654

>PRK12370 invasion protein regulator; Provisional

Probab=99.07  E-value=1.7e-07  Score=87.19  Aligned_cols=214  Identities=12%  Similarity=-0.026  Sum_probs=145.2

Q ss_pred             CCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      .+++++|...+++..+..  | +...+..+-..+...+ ++++|...+++..+.+ +.+...+..+...+...|++++|.
T Consensus       317 ~~~~~~A~~~~~~Al~ld--P~~~~a~~~lg~~~~~~g-~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi  392 (553)
T PRK12370        317 QNAMIKAKEHAIKATELD--HNNPQALGLLGLINTIHS-EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEAL  392 (553)
T ss_pred             chHHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcc-CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            355889999999998854  5 4445555544445554 7999999999998864 334567888888999999999999


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ..+++..+.... +...+..++..+...|++++|...+++....  ..| +...+..+..++...|+.++|...+.++..
T Consensus       393 ~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~  469 (553)
T PRK12370        393 QTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEIST  469 (553)
T ss_pred             HHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence            999999876432 2223334455567789999999999998752  234 344577788888899999999999988765


Q ss_pred             cCCCCchh-hHHHHHHHHHhcccHhHHHHHHHHHhHC-CCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          271 KGCPIGFQ-GYEVVVEGCLECREYILAGKTVMGMTER-GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       271 ~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .  .|+.. ..+.+...|...|  +.|...++++.+. +-.|...-+..+  .|.-.|+-+.+..+ +++.+
T Consensus       470 ~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~--~~~~~g~~~~~~~~-~~~~~  534 (553)
T PRK12370        470 Q--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPL--VLVAHGEAIAEKMW-NKFKN  534 (553)
T ss_pred             c--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHH--HHHHHhhhHHHHHH-HHhhc
Confidence            3  34433 3444555677777  4777777776554 222322222333  34455665555554 55544

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=3.2e-07  Score=78.80  Aligned_cols=220  Identities=10%  Similarity=0.081  Sum_probs=122.1

Q ss_pred             HHhCccCcchHHHHHHHchhcCC--CCChHHH-hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCCh
Q 046547           40 AAVDAKDYQQIPELLGSFEEACQ--NPNPFSF-LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPL  116 (343)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~  116 (343)
                      +....+|+++|+.+|+++....-  --|..+| +.++.+..+.++ .-+-+....+....|  .|+.++-+ +++-.++.
T Consensus       271 ~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL-s~LA~~v~~idKyR~--ETCCiIaN-YYSlr~eH  346 (559)
T KOG1155|consen  271 ASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL-SYLAQNVSNIDKYRP--ETCCIIAN-YYSLRSEH  346 (559)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH-HHHHHHHHHhccCCc--cceeeehh-HHHHHHhH
Confidence            34445677777777777665422  2244455 233333332221 111111112222222  33333333 45555666


Q ss_pred             HHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLK  195 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  195 (343)
                      ++|...|++..+.+  |.... |+.+-+-|.... ....|.+-++...+-. +.|-..|--|..+|.-.+.+.-|+-.|+
T Consensus       347 EKAv~YFkRALkLN--p~~~~aWTLmGHEyvEmK-Nt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfq  422 (559)
T KOG1155|consen  347 EKAVMYFKRALKLN--PKYLSAWTLMGHEYVEMK-NTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQ  422 (559)
T ss_pred             HHHHHHHHHHHhcC--cchhHHHHHhhHHHHHhc-ccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHH
Confidence            77777777766633  44433 333334555544 3566777776666542 3455666666677766677777777777


Q ss_pred             HhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          196 GMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       196 ~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +..... +-|...|.+|-.+|.+.++.++|++-|.....  .-..+...+..|.+.|-+.++.++|...|+..++
T Consensus       423 kA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~--~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  423 KALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAIL--LGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHh--ccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            665532 23566777777777777777777777777664  2223456677777777777777777766665543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.05  E-value=2e-07  Score=83.59  Aligned_cols=240  Identities=14%  Similarity=0.098  Sum_probs=170.1

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhc-----C-CCccHHHHHH-HHHHHHhccCchhHHHHHHHHHHhc-----C-C
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRS-----G-CVPVPQIRLL-LSSAWLERRCQSQSVADILLEMKSI-----G-Y  167 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~-----~-~~p~~~~~~~-li~~~~~~~~~~~~a~~~~~~m~~~-----g-~  167 (343)
                      +...+- ..|...|+++.|..++....+.     | ..|...+..- +-..|...+ .+++|..+|+++...     | .
T Consensus       201 ~~~~La-~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~-k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  201 TLRNLA-EMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLG-KYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHH-HHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhc-cHHHHHHHHHHHHHHHHHhcCCC
Confidence            343344 4788889999999999987653     2 1344444322 334455554 688999998888532     2 1


Q ss_pred             cc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhh-----CCC-CCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC--C
Q 046547          168 HP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSS-----AEC-VPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNM--G  237 (343)
Q Consensus       168 ~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~  237 (343)
                      .| -..+++.|-..|++.|++++|...++...+     .|. .|. ..-++.+...++..+++++|..++....+-.  -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            12 235677777889999999998877766532     121 222 2346778888999999999999888755311  1


Q ss_pred             CCC----chhHHHHHHHHHHhCccHHHHHHHHHHHHHc------CCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          238 LMP----RQGMVIKVAAALRANREMWKAVEMIEFLERK------GCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       238 ~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..+    -..+++.|-..|.+.|++++|.+++++....      +..+. ...++.|-..|.+.+++.+|.++|.+....
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            222    2467999999999999999999999987642      11222 346778888899999999999999875543


Q ss_pred             ----CC-CC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          307 ----GF-IP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       307 ----g~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                          |. .| ...+|..|...|.+.|+++.|.++.+...+++
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~  480 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAR  480 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence                21 12 35689999999999999999999998887653

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.04  E-value=1.8e-07  Score=86.97  Aligned_cols=288  Identities=12%  Similarity=0.046  Sum_probs=141.7

Q ss_pred             hhhhhhchhhhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhc---CCCCChH-------HHh--hhhhh
Q 046547            8 SCRSLVNFRPCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA---CQNPNPF-------SFL--SNFPQ   75 (343)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~-------~~~--~~~~~   75 (343)
                      .+.++..+...+.........+.....|.+-......|++..|.+.|++....   ...++..       -|+  .+.-.
T Consensus       429 ~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~  508 (1018)
T KOG2002|consen  429 PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEE  508 (1018)
T ss_pred             hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHh
Confidence            44445555555544444444455666777777777777777777777665543   1122221       232  22223


Q ss_pred             cccchHHHHHHHHhcCCCCCCCCh-hhHHHHHHHHhhcCCChHHHHHHHHHHHhcC-CCccHHHHHHHHH-HHHhccCch
Q 046547           76 NHRIKVIDEMLESFIPLRPRSRPK-IAYDYLLSYTLQSLHPLPLALAILQRTLRSG-CVPVPQIRLLLSS-AWLERRCQS  152 (343)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~-~~~~~~~~~  152 (343)
                      .++...++++........|   .- ..|--+.. .....++..+|...+.+..... -.|+..+   +++ .+.+.. .+
T Consensus       509 l~~~~~A~e~Yk~Ilkehp---~YId~ylRl~~-ma~~k~~~~ea~~~lk~~l~~d~~np~ars---l~G~~~l~k~-~~  580 (1018)
T KOG2002|consen  509 LHDTEVAEEMYKSILKEHP---GYIDAYLRLGC-MARDKNNLYEASLLLKDALNIDSSNPNARS---LLGNLHLKKS-EW  580 (1018)
T ss_pred             hhhhhHHHHHHHHHHHHCc---hhHHHHHHhhH-HHHhccCcHHHHHHHHHHHhcccCCcHHHH---HHHHHHHhhh-hh
Confidence            4455566666665543322   32 22222221 2223345566666666654322 2233322   222 233322 34


Q ss_pred             hHHHHHHHHHHhcC-CccCHhhHHHHHHHHHc------------cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC
Q 046547          153 QSVADILLEMKSIG-YHPDCGTCNYLVSSLCA------------IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA  219 (343)
Q Consensus       153 ~~a~~~~~~m~~~g-~~~~~~~~~~ll~~~~~------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  219 (343)
                      ..|.+-|+...+.- ..+|+.+.-.|-+.|.+            .+..++|+++|.+..+.. +-|...-|-+--.++..
T Consensus       581 ~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~k  659 (1018)
T KOG2002|consen  581 KPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEK  659 (1018)
T ss_pred             cccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhc
Confidence            45555444443221 12333333333332321            123455566666555432 33555555566666666


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHH
Q 046547          220 RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGK  298 (343)
Q Consensus       220 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~  298 (343)
                      |++.+|..+|.+..+. .. -+..+|-.+..+|+..|++..|+++|+...+. .-.-+....+.|-+++.+.|.+.+|.+
T Consensus       660 g~~~~A~dIFsqVrEa-~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  660 GRFSEARDIFSQVREA-TS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             cCchHHHHHHHHHHHH-Hh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            6666666666666652 22 23334556666666666666666666654433 223344455566666666666666666


Q ss_pred             HHHHHhHC
Q 046547          299 TVMGMTER  306 (343)
Q Consensus       299 ~~~~m~~~  306 (343)
                      .+......
T Consensus       738 ~ll~a~~~  745 (1018)
T KOG2002|consen  738 ALLKARHL  745 (1018)
T ss_pred             HHHHHHHh
Confidence            66555444

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=3.7e-10  Score=61.71  Aligned_cols=32  Identities=16%  Similarity=0.251  Sum_probs=18.8

Q ss_pred             CCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          307 GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       307 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      |+.||..||++||.+||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55555555555555555555555555555555

>PF12854 PPR_1: PPR repeat

Probab=98.99  E-value=6.1e-10  Score=60.86  Aligned_cols=32  Identities=31%  Similarity=0.531  Sum_probs=16.1

Q ss_pred             CCccCHhhHHHHHHHHHccCcHHHHHHHHHHh
Q 046547          166 GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGM  197 (343)
Q Consensus       166 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  197 (343)
                      |+.||..|||+||.+||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555444

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.96  E-value=8.2e-07  Score=80.47  Aligned_cols=258  Identities=14%  Similarity=0.003  Sum_probs=181.4

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHH-hc
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWL-ER  148 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~  148 (343)
                      +.++...|+.+.+-+.++.   .....+|...+.-....++.+.|+.++|..+|..+.+.+  |+...|-..+.... -.
T Consensus        11 ~~il~e~g~~~~AL~~L~~---~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~   85 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEK---NEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQ   85 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHh---hhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhh
Confidence            5566666665555554444   345566776666666558889999999999999999977  88877765554433 11


Q ss_pred             ----cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH-HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChh
Q 046547          149 ----RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV-EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTN  223 (343)
Q Consensus       149 ----~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~  223 (343)
                          ..+.+...++++++...  -|.......+.-.+..-..+. .+...+..+...|+++   +|+.|-..|....+.+
T Consensus        86 ~~~~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   86 LQLSDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAA  160 (517)
T ss_pred             cccccccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHH
Confidence                12356677888888664  355555544443444333443 4556677788888754   5677777777666666


Q ss_pred             HHHHHHHHHHhcC-------------CCCCch--hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHH
Q 046547          224 DAVEMMKEMVLNM-------------GLMPRQ--GMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGC  287 (343)
Q Consensus       224 ~a~~~~~~m~~~~-------------~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~  287 (343)
                      -..+++.......             .-+|+.  .++.-+...|-..|+.++|++++++.++.  .|+ +..|..-.+.|
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Karil  238 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARIL  238 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH
Confidence            6666666655310             123444  34466677788999999999999999884  566 45777777889


Q ss_pred             HhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          288 LECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       288 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      -+.|++.+|.+.++.....+. -|...=+.....+.++|+.++|.+++..+.+
T Consensus       239 Kh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr  290 (517)
T PF12569_consen  239 KHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTR  290 (517)
T ss_pred             HHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcC
Confidence            999999999999999988774 3777778888999999999999999887654

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.91  E-value=5.2e-07  Score=78.08  Aligned_cols=221  Identities=10%  Similarity=-0.050  Sum_probs=169.0

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      .|+.-.|..-|+........++.. |.-+-..|.... +.++..+.|....+.+ +-++.+|..=-..+.-.+++++|..
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~-~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADEN-QSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhh-ccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHH
Confidence            478888999999988765444431 444444566765 6788899998887754 3456778777777788899999999


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc-
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK-  271 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-  271 (343)
                      =|++.++.. +-+...|-.+..+..+.++++++...|++...  .++-.+..|+-....+...+++++|.+.|+...+. 
T Consensus       416 DF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  416 DFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            999988754 23567787888888899999999999999995  77778889999999999999999999999988753 


Q ss_pred             ----CCCCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          272 ----GCPIG--FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       272 ----g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                          ++..+  ..+-..++..- -.+++..|.+++.+..+.+-+ ....|.+|...-.+.|+.++|+++|++-..+
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             cccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence                11111  22222333322 348999999999999876522 4567999999999999999999999986543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.89  E-value=4.8e-07  Score=74.51  Aligned_cols=233  Identities=12%  Similarity=-0.002  Sum_probs=180.7

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHH-HHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCN-YLV  178 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~ll  178 (343)
                      .-|..-|..|+.+.|.+.+|.+.|+.-.+.-  |-+.||..|-..|-+. ++...|+.++.+-.+.  .|-.+||- -+-
T Consensus       223 wwWk~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ri-dQP~~AL~~~~~gld~--fP~~VT~l~g~A  297 (478)
T KOG1129|consen  223 WWWKQQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRI-DQPERALLVIGEGLDS--FPFDVTYLLGQA  297 (478)
T ss_pred             HHHHHHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHh-ccHHHHHHHHhhhhhc--CCchhhhhhhhH
Confidence            3455566568889999999999999987754  6667888888887665 5789999999887764  45445553 344


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      +.+-..++.++|.++++...+.. ..+.....++..+|.-.++.+-|+++++.+.+ .|+. ++..|+.+--+|.-.+++
T Consensus       298 Ri~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLq-mG~~-speLf~NigLCC~yaqQ~  374 (478)
T KOG1129|consen  298 RIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQ-MGAQ-SPELFCNIGLCCLYAQQI  374 (478)
T ss_pred             HHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHH-hcCC-ChHHHhhHHHHHHhhcch
Confidence            56667789999999999887653 34666777788888899999999999999997 5875 667888888888999999


Q ss_pred             HHHHHHHHHHHHcCCCCchh--hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 046547          259 WKAVEMIEFLERKGCPIGFQ--GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQ  336 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  336 (343)
                      |.++.-|.+....--.|+..  .|=.+-...+..|++..|.+-|.-....+ .-+...++.|.---.+.|+.++|..+++
T Consensus       375 D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~  453 (478)
T KOG1129|consen  375 DLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLN  453 (478)
T ss_pred             hhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHH
Confidence            99999999887654444433  34445555677899999999999877665 2356788888888889999999999998


Q ss_pred             HHHhh
Q 046547          337 RFAEL  341 (343)
Q Consensus       337 ~m~~~  341 (343)
                      ...+.
T Consensus       454 ~A~s~  458 (478)
T KOG1129|consen  454 AAKSV  458 (478)
T ss_pred             Hhhhh
Confidence            76654

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.89  E-value=3.1e-06  Score=72.26  Aligned_cols=196  Identities=11%  Similarity=-0.047  Sum_probs=115.3

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCcc-CHhhHHHHHHHHHccCcH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHP-DCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~ll~~~~~~~~~  187 (343)
                      .+...|+++.|...|++..+.. +.+...|+.+-..+...+ ++++|...|+...+.  .| +..+|..+...+...|++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g-~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~  148 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAG-NFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGGRY  148 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCH
Confidence            4566788888888888877743 123455666655555554 688888888887764  34 345666677777778888


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          188 VEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       188 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      ++|.+.|+...+..  |+..........+...++.++|...|.....  ...|+...+ .+..  ...|+...+ +.+..
T Consensus       149 ~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~~~~~~~~-~~~~--~~lg~~~~~-~~~~~  220 (296)
T PRK11189        149 ELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYE--KLDKEQWGW-NIVE--FYLGKISEE-TLMER  220 (296)
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hCCccccHH-HHHH--HHccCCCHH-HHHHH
Confidence            88888888877643  4332222222233456678888888866553  333433222 2222  223444333 23444


Q ss_pred             HHHc---CC--CC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHH
Q 046547          268 LERK---GC--PI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQK  317 (343)
Q Consensus       268 m~~~---g~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (343)
                      +.+.   ..  .| ....|..+-..+.+.|++++|...|++..+.+ +||..-+..
T Consensus       221 ~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~  275 (296)
T PRK11189        221 LKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRY  275 (296)
T ss_pred             HHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHH
Confidence            4321   11  11 23467777777888888888888888877655 335444443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.88  E-value=2.9e-07  Score=77.65  Aligned_cols=210  Identities=17%  Similarity=0.073  Sum_probs=132.6

Q ss_pred             HHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHH
Q 046547           82 IDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLE  161 (343)
Q Consensus        82 ~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~  161 (343)
                      ...++.....  ...|.......+-. ++....+-+.++.-+++....+..++..++..+........+++++|+++++.
T Consensus        51 ~~~vl~ei~~--~~~~~l~av~~la~-y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~  127 (290)
T PF04733_consen   51 YDSVLSEIKK--SSSPELQAVRLLAE-YLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK  127 (290)
T ss_dssp             HHHHHHHS-T--TSSCCCHHHHHHHH-HHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT
T ss_pred             hhHHHHHhcc--CCChhHHHHHHHHH-HHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc
Confidence            4455555432  22556555555554 45444455666666655544443333344444443333334578888887754


Q ss_pred             HHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH----hcCCChhHHHHHHHHHHhcCC
Q 046547          162 MKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM----STARKTNDAVEMMKEMVLNMG  237 (343)
Q Consensus       162 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~~~~~~a~~~~~~m~~~~~  237 (343)
                      -      .+.......+..|.+.++++.|.+.++.|.+..  .|. +...+..++    ...+.+.+|.-+|+++.+  .
T Consensus       128 ~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~  196 (290)
T PF04733_consen  128 G------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSD--K  196 (290)
T ss_dssp             T------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--C
T ss_pred             c------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--c
Confidence            2      356667778888999999999999999998753  343 333344443    334578999999999874  5


Q ss_pred             CCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccH-hHHHHHHHHHhHC
Q 046547          238 LMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREY-ILAGKTVMGMTER  306 (343)
Q Consensus       238 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~  306 (343)
                      ..+++.+.|.+..++...|++++|.+++.+..+..- -+..+...++-.....|+. +.+.+++.+++..
T Consensus       197 ~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  197 FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            678888899999999999999999999998765432 2455666677777777777 6677888888764

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=98.86  E-value=1.4e-05  Score=74.90  Aligned_cols=301  Identities=11%  Similarity=-0.025  Sum_probs=198.6

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHch--hcCCCCChHHH-hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH-
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFE--EACQNPNPFSF-LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL-  105 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~--~~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l-  105 (343)
                      +.-.+-.-.......|++..|+.+|....  .....||+..- ...+...+..+.+..+++.+.++.|.  ++.++-.| 
T Consensus       163 Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp~--~v~alv~L~  240 (1018)
T KOG2002|consen  163 NILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDPT--CVSALVALG  240 (1018)
T ss_pred             chHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcChh--hHHHHHHHH
Confidence            33334333444556789999999999855  35557777654 45666778888888888888777552  22222111 


Q ss_pred             -HHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCc--cCHhhHHHHHHHHH
Q 046547          106 -LSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYH--PDCGTCNYLVSSLC  182 (343)
Q Consensus       106 -i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~ll~~~~  182 (343)
                       +...+.....+..+...+...-... .-++...+.|-+.|.-.+ ++..+..+...+...-..  .-...|-.+-.+|-
T Consensus       241 ~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~-dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~H  318 (1018)
T KOG2002|consen  241 EVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKK-DYERVWHLAEHAIKNTENKSIKAESFYQLGRSYH  318 (1018)
T ss_pred             HHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcc-cHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence             1112223334666777776654322 224445556666665554 799999988888654311  12356778889999


Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhh--HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc----
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLES--YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR----  256 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~----  256 (343)
                      ..|++++|...|-+..+.  .|+..+  +--|...+.+.|+.+.+...|+....  ..+-+..|..+|-..|+..+    
T Consensus       319 a~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k--~~p~~~etm~iLG~Lya~~~~~~~  394 (1018)
T KOG2002|consen  319 AQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLK--QLPNNYETMKILGCLYAHSAKKQE  394 (1018)
T ss_pred             hhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHH--hCcchHHHHHHHHhHHHhhhhhhH
Confidence            999999999999776554  455433  44567889999999999999999885  45555666666666666664    


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh----HCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT----ERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      ..++|..++.+..+.- ..|...|-.+-..+. .++...++.+|....    ..+-.+.+...|.+..-....|++.+|.
T Consensus       395 ~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e-~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~  472 (1018)
T KOG2002|consen  395 KRDKASNVLGKVLEQT-PVDSEAWLELAQLLE-QTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKAL  472 (1018)
T ss_pred             HHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH-hcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHH
Confidence            4566666666665532 235556665555554 444444476666543    4555677889999999999999999999


Q ss_pred             HHHHHHHh
Q 046547          333 VVRQRFAE  340 (343)
Q Consensus       333 ~~~~~m~~  340 (343)
                      ..|.....
T Consensus       473 ~~f~~A~~  480 (1018)
T KOG2002|consen  473 EHFKSALG  480 (1018)
T ss_pred             HHHHHHhh
Confidence            99987654

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=98.82  E-value=1.9e-05  Score=73.43  Aligned_cols=301  Identities=12%  Similarity=0.008  Sum_probs=206.6

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH-HH---hhhhhhcccchHHHHHHHHhcCCCCCCCCh-hhHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF-SF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPK-IAYD  103 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~-~~~~  103 (343)
                      .....|-.+-..|-..|+.+++...+-  ......|... -|   .......+.+..+.--+...++..|.  +. ..|.
T Consensus       171 ~~~~ay~tL~~IyEqrGd~eK~l~~~l--lAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~--n~~~~~e  246 (895)
T KOG2076|consen  171 RNPIAYYTLGEIYEQRGDIEKALNFWL--LAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPS--NWELIYE  246 (895)
T ss_pred             cchhhHHHHHHHHHHcccHHHHHHHHH--HHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc--chHHHHH
Confidence            355678999999999999988887654  3333444433 33   23334556666666666666655442  32 2333


Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHH----HHHHHHHhccCchhHHHHHHHHHHh-cCCccCHhhHHHHH
Q 046547          104 YLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRL----LLSSAWLERRCQSQSVADILLEMKS-IGYHPDCGTCNYLV  178 (343)
Q Consensus       104 ~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~----~li~~~~~~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~ll  178 (343)
                      -..  .|.+.|+...|..-|.++.+..-+.|..-+-    ..++.+...+. -+.|.+.++.... .+-..+...++++.
T Consensus       247 rs~--L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~-~e~a~~~le~~~s~~~~~~~~ed~ni~a  323 (895)
T KOG2076|consen  247 RSS--LYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNE-RERAAKALEGALSKEKDEASLEDLNILA  323 (895)
T ss_pred             HHH--HHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHhhccccccccHHHHHH
Confidence            322  5778899999999999998864322222222    23445555554 4778777776655 33345667889999


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCC---------------------------CCCHhhHHHHHHHHhcCCChhHHHHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAEC---------------------------VPDLESYSIVIGAMSTARKTNDAVEMMKE  231 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~---------------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  231 (343)
                      ..|.+..+++.|......+.....                           .++..++ -++-++......+...-+...
T Consensus       324 el~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~  402 (895)
T KOG2076|consen  324 ELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHF  402 (895)
T ss_pred             HHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHH
Confidence            999999999999988888766222                           2222231 122344445555555555555


Q ss_pred             HHhcCCC--CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          232 MVLNMGL--MPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       232 m~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      ...+ .+  .-+...|.-+..+|...|++.+|+.+|..+...-..-+...|-.+-.+|...|.+++|.+.|+...... +
T Consensus       403 l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p  480 (895)
T KOG2076|consen  403 LVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-P  480 (895)
T ss_pred             HHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-C
Confidence            5553 53  345677999999999999999999999999876554567788889999999999999999999988653 2


Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          310 PYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       310 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      -+...-.+|-.-+-+.|+.++|.+.++.|.
T Consensus       481 ~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  481 DNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             CchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            245555667778899999999999998764

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.82  E-value=2.2e-07  Score=76.47  Aligned_cols=222  Identities=9%  Similarity=-0.009  Sum_probs=131.8

Q ss_pred             hhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchh
Q 046547           74 PQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQ  153 (343)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~  153 (343)
                      .+.|-...+++-++.-..   ..|-+.||-.|-+ .|.+..++..|+.++.+-.+  ..|-.+||..=+.-.....++.+
T Consensus       234 lrLgm~r~AekqlqssL~---q~~~~dTfllLsk-vY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam~~~~  307 (478)
T KOG1129|consen  234 LRLGMPRRAEKQLQSSLT---QFPHPDTFLLLSK-VYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAMEQQE  307 (478)
T ss_pred             HHhcChhhhHHHHHHHhh---cCCchhHHHHHHH-HHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHHHhHH
Confidence            344444445554444332   1234455555554 66666777777777776655  34666666554443334444567


Q ss_pred             HHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHH
Q 046547          154 SVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMV  233 (343)
Q Consensus       154 ~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  233 (343)
                      +|.++++...+.. +.++.....+-.+|.-.++++-|+..++++.+.|+. +...|+.+--+|...+++|-++.-|....
T Consensus       308 ~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAl  385 (478)
T KOG1129|consen  308 DALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRAL  385 (478)
T ss_pred             HHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHH
Confidence            7777777665542 334555555666666777777777777777777753 55666666666777777777777666655


Q ss_pred             hcCCCCCch--hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          234 LNMGLMPRQ--GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       234 ~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .- --.|+.  .+|-.+-...+..|++..|.+.|+-.....- -....+|.|--.-.+.|+++.|..++....+
T Consensus       386 st-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  386 ST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             hh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            41 222322  2344555555667777777777776554321 2345666666666677777777777776554

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.81  E-value=1.1e-05  Score=63.55  Aligned_cols=189  Identities=11%  Similarity=0.025  Sum_probs=108.7

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccH-HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVP-QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      +-..|+...|..-+++..+..  |+. .+|..+-..| +..++.+.|.+.|+...+.. +-+..+.|..-..+|..|+++
T Consensus        45 YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Y-q~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~  120 (250)
T COG3063          45 YLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYY-QKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPE  120 (250)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHH-HHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChH
Confidence            445567777777777766643  433 3333333333 33345666777666665532 223455666666666777777


Q ss_pred             HHHHHHHHhhhCCC-CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAEC-VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       189 ~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      +|...|++....-. .--..||..+.-+..+.|+++.|...|+.-.+  --+-...+.-.+.....+.|+.-.|..+++.
T Consensus       121 eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~  198 (250)
T COG3063         121 EAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPARLYLER  198 (250)
T ss_pred             HHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHHHHHHHH
Confidence            77777766655321 11244566666666666777777777766653  2222334455566666666777777766666


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          268 LERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       268 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ....+. ++..+....|+.--..|+.+.+-++=.++..
T Consensus       199 ~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         199 YQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            665544 5666666666666666666666655554443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.75  E-value=0.00011  Score=64.57  Aligned_cols=301  Identities=8%  Similarity=-0.073  Sum_probs=160.5

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCC-CCChH--HH--hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHH---H
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQ-NPNPF--SF--LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDY---L  105 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~---l  105 (343)
                      |..+...+...|+.+.+...+.......- .++..  .+  .......++.+.+.+..+......|.  |...++.   +
T Consensus         9 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~--~~~a~~~~~~~   86 (355)
T cd05804           9 HAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR--DLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--cHHHHHHhHHH
Confidence            44444555556667776555555443211 22221  12  22334556666666666655443342  2333331   1


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHH-HHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRL-LLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI  184 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~  184 (343)
                      .. .....+..+.+.+.+..  ..+..|+..... .+-..+... |++++|.+.+++..+.. +.+...+..+-..+...
T Consensus        87 ~~-~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~-G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          87 FG-LGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEA-GQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HH-hcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            11 11223455555555554  222334443333 222334444 46889999999888753 33456777788888899


Q ss_pred             CcHHHHHHHHHHhhhCCC-CCCH--hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHH-H--HHHHHHHhCccH
Q 046547          185 DQLVEAAKVLKGMSSAEC-VPDL--ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMV-I--KVAAALRANREM  258 (343)
Q Consensus       185 ~~~~~a~~~~~~m~~~~~-~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~--~li~~~~~~~~~  258 (343)
                      |++++|...+++...... .|+.  ..|-.+...+...|++++|..++++........+..... +  .++.-+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            999999999888776432 2332  235567788888999999999999876321111222211 1  223333333432


Q ss_pred             HHHHHH--HHHHHHcCCCCchhhHH--HHHHHHHhcccHhHHHHHHHHHhHCCCC------C--CHHHHHHHHHHHhccC
Q 046547          259 WKAVEM--IEFLERKGCPIGFQGYE--VVVEGCLECREYILAGKTVMGMTERGFI------P--YIKVRQKVVEGLAGVG  326 (343)
Q Consensus       259 ~~a~~~--~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~------p--~~~~~~~li~~~~~~g  326 (343)
                      +.+.+.  +..............+.  ....++...|+.+.|..+++.+......      .  .....-..-.++...|
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g  321 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEG  321 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcC
Confidence            222222  11111111111112222  4566678888999999999887653221      1  1222222233456889


Q ss_pred             ChhHHHHHHHHHHhh
Q 046547          327 EWKLATVVRQRFAEL  341 (343)
Q Consensus       327 ~~~~a~~~~~~m~~~  341 (343)
                      ++++|.+.+.+...+
T Consensus       322 ~~~~A~~~L~~al~~  336 (355)
T cd05804         322 NYATALELLGPVRDD  336 (355)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999988876543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.75  E-value=2.1e-05  Score=67.16  Aligned_cols=217  Identities=11%  Similarity=-0.039  Sum_probs=120.5

Q ss_pred             CChHHHHHHHHHHHhcC-CCccH--HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHH
Q 046547          114 HPLPLALAILQRTLRSG-CVPVP--QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEA  190 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~-~~p~~--~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a  190 (343)
                      +..+.++.-+.++.... ..|+.  ..|..+-..+...| +.++|...|++..+.. +.+...|+.+-..+...|++++|
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g-~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLG-LRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            45566666666665432 22222  22333333444443 5777777777776643 23456777777777777888888


Q ss_pred             HHHHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       191 ~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      ...|+...+..  | +..+|..+..++...|++++|.+.|+...+.   .|+..........+...++.++|...+.+..
T Consensus       118 ~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        118 YEAFDSVLELD--PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            77777776543  3 3456666677777777788887777777642   2332211121222334566777777776544


Q ss_pred             HcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC---CC--CC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          270 RKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER---GF--IP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .. ..|+... ..+.  ....|+...+ +.+..+.+.   ..  .| ....|..+...+.+.|++++|...|++..+..
T Consensus       193 ~~-~~~~~~~-~~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        193 EK-LDKEQWG-WNIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             hh-CCccccH-HHHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            32 2222211 1222  2234444443 244444321   11  11 23467777777777788888887777766553

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=98.75  E-value=3e-05  Score=69.89  Aligned_cols=150  Identities=9%  Similarity=-0.070  Sum_probs=85.5

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHH
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAV  262 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  262 (343)
                      +.|++-.|..+++.-.-.+ +-+...|-..|..-.+.|+.+.|..++.+..+  .++.+...|..-|....+.++-....
T Consensus       731 k~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~  807 (913)
T KOG0495|consen  731 KDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSI  807 (913)
T ss_pred             HhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHH
Confidence            3344444444444443332 12334444444555555555555554444442  34444444444444444443322222


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          263 EMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       263 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +-+++     ..-|.+..-.+-..|....++++|.+.|.+....+ +-+-.+|..+..-+.+.|.-++-.+++.+...-
T Consensus       808 DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  808 DALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            22221     22345555566667888888999999999988765 234567888888899999888888888877653

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.73  E-value=1e-06  Score=74.44  Aligned_cols=213  Identities=16%  Similarity=0.093  Sum_probs=141.5

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH-HHHHHccCcHHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL-VSSLCAIDQLVEA  190 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-l~~~~~~~~~~~a  190 (343)
                      ..|+.+.+   +.+..... .|.......+. .|+....+-+.+..-+++....+..++..++..+ -..+...|++++|
T Consensus        47 Alg~~~~v---l~ei~~~~-~~~l~av~~la-~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~A  121 (290)
T PF04733_consen   47 ALGQYDSV---LSEIKKSS-SPELQAVRLLA-EYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEA  121 (290)
T ss_dssp             HTT-HHHH---HHHS-TTS-SCCCHHHHHHH-HHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHH
T ss_pred             HcCChhHH---HHHhccCC-ChhHHHHHHHH-HHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHH
Confidence            34766544   44444433 67766665554 4455433344555555444433333222233333 2456678999999


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----CccHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----NREMWKAVEMIE  266 (343)
Q Consensus       191 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~  266 (343)
                      ++++..-      .+.......+..|.+.+++|.|.+.++.|.+   ...| .+...+..++..    ..++.+|..+|+
T Consensus       122 L~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~  191 (290)
T PF04733_consen  122 LKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDED-SILTQLAEAWVNLATGGEKYQDAFYIFE  191 (290)
T ss_dssp             HCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHH
T ss_pred             HHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCc-HHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            9887642      4567778889999999999999999999984   2333 455556666554    346899999999


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCCh-hHHHHHHHHHHhh
Q 046547          267 FLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEW-KLATVVRQRFAEL  341 (343)
Q Consensus       267 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~  341 (343)
                      ++.+. ..++..+.+.+..+....|++++|.+++.+..+.+ +-+..+...++......|+. +.+.+++.+++..
T Consensus       192 El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  192 ELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            98764 56788899999999999999999999999987665 33677777888888888877 6778888887754

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.68  E-value=6.6e-05  Score=66.04  Aligned_cols=226  Identities=12%  Similarity=0.001  Sum_probs=138.4

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHH-HHHHHHHHHHhc---cCchhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHc
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQ-IRLLLSSAWLER---RCQSQSVADILLEMKSIGYHPD-CGTCNYLVSSLCA  183 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~---~~~~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~  183 (343)
                      .+...|++++|.+.+++..+..  |+.. .+.. ...+...   .+..+.+.+.+..  .....|+ ......+...+..
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY--PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHH
Confidence            3445689999999999988753  4433 3332 1111111   1234455555544  1122333 2334455567888


Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch--hHHHHHHHHHHhCccHHHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ--GMVIKVAAALRANREMWKA  261 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~~~~~~~~~~~a  261 (343)
                      .|++++|...+++..+.. +.+...+..+...+...|++++|..++++........|+.  ..|..+...+...|++++|
T Consensus       127 ~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         127 AGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             cCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999998864 3346678888899999999999999999987521112333  3455788889999999999


Q ss_pred             HHHHHHHHHcCC-CCchhhH-H--HHHHHHHhcccHhHHHHH--HHHHhHCCC--CCCHHHHHHHHHHHhccCChhHHHH
Q 046547          262 VEMIEFLERKGC-PIGFQGY-E--VVVEGCLECREYILAGKT--VMGMTERGF--IPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       262 ~~~~~~m~~~g~-~p~~~~~-~--~li~~~~~~g~~~~a~~~--~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      ..++++...... .+..... +  .++.-+...|..+.+.++  +........  ............++...|+.+.|.+
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            999999864322 1212111 1  223334444443333332  111111111  1112222356778889999999999


Q ss_pred             HHHHHHh
Q 046547          334 VRQRFAE  340 (343)
Q Consensus       334 ~~~~m~~  340 (343)
                      +++.+..
T Consensus       286 ~L~~l~~  292 (355)
T cd05804         286 LLAALKG  292 (355)
T ss_pred             HHHHHHH
Confidence            9998865

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.67  E-value=3.5e-05  Score=60.77  Aligned_cols=199  Identities=9%  Similarity=-0.031  Sum_probs=159.9

Q ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHh
Q 046547          138 RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMS  217 (343)
Q Consensus       138 ~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  217 (343)
                      ..-|--+|...| +...|..-+++..++. +-+..+|..+-..|-+.|+.+.|.+-|++..+... -+..+.|.--.-+|
T Consensus        38 rlqLal~YL~~g-d~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC  114 (250)
T COG3063          38 RLQLALGYLQQG-DYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHCC-CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHH
Confidence            344455778876 6889999999998864 33467888888899999999999999999887542 24566777777788


Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILA  296 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a  296 (343)
                      ..|++++|...|+.........--..+|..+--+..+.|+.+.|...|++..+.  .|+ ..+.-.+.....+.|++-.|
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHH
Confidence            999999999999999876444444568888888889999999999999998874  233 34566677888899999999


Q ss_pred             HHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          297 GKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       297 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..+++.....+. ++.......|+---+.|+.+.+.+.=.++.++-
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f  237 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF  237 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            999999888775 888888888998889999999988777766553

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.65  E-value=1.4e-05  Score=71.94  Aligned_cols=245  Identities=14%  Similarity=0.071  Sum_probs=158.6

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhh
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ  111 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~  111 (343)
                      .+...+...|...|+++.|..+++.....            +             .....  -..|.+.+.---+.-++.
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~------------l-------------~k~~G--~~hl~va~~l~~~a~~y~  252 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRI------------L-------------EKTSG--LKHLVVASMLNILALVYR  252 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHH------------H-------------HHccC--ccCHHHHHHHHHHHHHHH
Confidence            45556888888999999999999876542            0             00000  011222211111223566


Q ss_pred             cCCChHHHHHHHHHHHhc-----C-CCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHh-----cCCc-cCH-hhHHHH
Q 046547          112 SLHPLPLALAILQRTLRS-----G-CVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKS-----IGYH-PDC-GTCNYL  177 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~-----~-~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~-----~g~~-~~~-~~~~~l  177 (343)
                      ..+++++|..+|+++..-     | ..|. ..+++.|-..|++.| ++++|...++...+     .|.. |.+ ..++.+
T Consensus       253 ~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~G-Kf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~  331 (508)
T KOG1840|consen  253 SLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQG-KFAEAEEYCERALEIYEKLLGASHPEVAAQLSEL  331 (508)
T ss_pred             HhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccC-ChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHH
Confidence            778888888888887632     2 1222 233444555677765 58777766655432     1222 222 236667


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhC---CCCCC----HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC-----CCCCc-hhH
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSA---ECVPD----LESYSIVIGAMSTARKTNDAVEMMKEMVLNM-----GLMPR-QGM  244 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~---~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~p~-~~~  244 (343)
                      ...++..+++++|..++....+.   -..++    ..+|+.|-..|...|++++|.+++++...+.     +..+. ...
T Consensus       332 ~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~  411 (508)
T KOG1840|consen  332 AAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKP  411 (508)
T ss_pred             HHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHH
Confidence            77788889999998888765431   12222    4678999999999999999999999877531     12222 456


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHH----cCC-CCc-hhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLER----KGC-PIG-FQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~----~g~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      ++.|-..|.+.++.++|.++|.+...    -|. .|+ ..+|..|...|...|++++|.++.+...
T Consensus       412 l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  412 LNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            78888889888999988888887542    232 233 3578889999999999999999888765

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=7.4e-05  Score=66.24  Aligned_cols=284  Identities=8%  Similarity=-0.010  Sum_probs=187.0

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchh-cCCCCChHHH-hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEE-ACQNPNPFSF-LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      .+.+....-...+...+++.+..++++...+ .++.++...+ +..+...|+...+-.+-..+....|.  ...+|-++-
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~--~a~sW~aVg  319 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS--KALSWFAVG  319 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC--CCcchhhHH
Confidence            4566677777788889999999999998776 4445555544 56666666655554444444443332  346666666


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID  185 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~  185 (343)
                      - +|-..|..++|.+.|.+...-.  |. ...|-..-++|.-.+ .-+.|...+...-+. ++-..-.+-.+---|.+.+
T Consensus       320 ~-YYl~i~k~seARry~SKat~lD--~~fgpaWl~fghsfa~e~-EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  320 C-YYLMIGKYSEARRYFSKATTLD--PTFGPAWLAFGHSFAGEG-EHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             H-HHHHhcCcHHHHHHHHHHhhcC--ccccHHHHHHhHHhhhcc-hHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhc
Confidence            4 3444588999999999875422  22 234666666666665 467777776665442 1111112222334577788


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC-CCC----CchhHHHHHHHHHHhCccHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM-GLM----PRQGMVIKVAAALRANREMWK  260 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~----p~~~~~~~li~~~~~~~~~~~  260 (343)
                      .++.|.+.|.+.... .+-|....+-+--.....+.+.+|..+|+...... .+.    --..+++.|--+|.+.+..++
T Consensus       395 n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            888999888877653 23356667766666666788888888888766310 111    133457777788888899999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHh
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLA  323 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  323 (343)
                      |+..++...... +-+..+|.++--.|...|+++.|.+.|.+..  .+.||..+...++..+.
T Consensus       474 AI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  474 AIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHH
Confidence            999988877643 3367788888888888999999999888765  56687766666665443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.62  E-value=1.3e-05  Score=66.17  Aligned_cols=180  Identities=13%  Similarity=-0.009  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC----HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH--hhHH
Q 046547          137 IRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD----CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL--ESYS  210 (343)
Q Consensus       137 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~  210 (343)
                      .+-.+...+...+ ++++|...+++....  .|+    ..++..+..++.+.|++++|...++++.+.......  .++.
T Consensus        35 ~~~~~g~~~~~~~-~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        35 ELYEEAKEALDSG-DYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             HHHHHHHHHHHcC-CHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            3334444444543 466666666666543  222    124455556666666666666666666553311111  1233


Q ss_pred             HHHHHHhcC--------CChhHHHHHHHHHHhcCCCCCch-hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHH
Q 046547          211 IVIGAMSTA--------RKTNDAVEMMKEMVLNMGLMPRQ-GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYE  281 (343)
Q Consensus       211 ~ll~~~~~~--------~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  281 (343)
                      .+-.++...        |+.++|.+.|+.+...   .|+. ..+..+... ..   ...      ...        ...-
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~-~~---~~~------~~~--------~~~~  170 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM-DY---LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH-HH---HHH------HHH--------HHHH
Confidence            333333332        4556666666666532   2222 122111111 00   000      000        0011


Q ss_pred             HHHHHHHhcccHhHHHHHHHHHhHCCC-CC-CHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          282 VVVEGCLECREYILAGKTVMGMTERGF-IP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       282 ~li~~~~~~g~~~~a~~~~~~m~~~g~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .+...|.+.|++++|...+++..+..- .| ....+..+..++.+.|++++|..+++.+..
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344568889999999999999887631 12 457788999999999999999999888764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=98.61  E-value=0.00014  Score=65.71  Aligned_cols=299  Identities=11%  Similarity=0.019  Sum_probs=196.8

Q ss_pred             HHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH-HHhhh---hhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           31 LRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF-SFLSN---FPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      ..++..-...|.+.+.++-|..+|......  .|... .|..+   =..+|..+.++.+++......|.  ....|-...
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk--ae~lwlM~a  591 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK--AEILWLMYA  591 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc--chhHHHHHH
Confidence            345666777777777788888887765543  33332 33222   23566677777777776543332  223343333


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ  186 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~  186 (343)
                      + -.-..|++..|..++.+..+..-. +...|-.-+.--... .+++.|..+|.+...  ..|+...|..-++.-.-.+.
T Consensus       592 k-e~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en-~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~  666 (913)
T KOG0495|consen  592 K-EKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFEN-DELERARDLLAKARS--ISGTERVWMKSANLERYLDN  666 (913)
T ss_pred             H-HHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhcc-ccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhh
Confidence            3 333458888899888888775422 444555555543343 468888888887765  46777777776666667788


Q ss_pred             HHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      .++|.+++++..+.  -|+ ...|-.+-..+-+.++++.|...|..-..  .++-....|-.|...=-+.|++-+|..++
T Consensus       667 ~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~il  742 (913)
T KOG0495|consen  667 VEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSIL  742 (913)
T ss_pred             HHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHH
Confidence            88888888877764  233 34566666667777777777777776552  45555666777777667777888888888


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC----C-------------------------CCCCHHHHH
Q 046547          266 EFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER----G-------------------------FIPYIKVRQ  316 (343)
Q Consensus       266 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-------------------------~~p~~~~~~  316 (343)
                      +..+-++- -+...|-..|+.=.+.|+.+.|..+..+..+.    |                         ..-|+++.-
T Consensus       743 drarlkNP-k~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVll  821 (913)
T KOG0495|consen  743 DRARLKNP-KNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLL  821 (913)
T ss_pred             HHHHhcCC-CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHH
Confidence            87765542 35667777888888888888777766655432    1                         223566666


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          317 KVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       317 ~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .+...+....+++.|.+.|++-.+..|
T Consensus       822 aia~lfw~e~k~~kar~Wf~Ravk~d~  848 (913)
T KOG0495|consen  822 AIAKLFWSEKKIEKAREWFERAVKKDP  848 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence            777778888889999999988876653

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.56  E-value=0.00024  Score=64.06  Aligned_cols=297  Identities=14%  Similarity=0.052  Sum_probs=169.7

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcCC-CCChHHH---------hhhhhhcccchHHHHHHHHhcCCCCCCCChhh
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEACQ-NPNPFSF---------LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIA  101 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  101 (343)
                      ..|.....+.--.|+...|..+++....... .|+...+         +..+...   +..+++++.+....+..-|...
T Consensus       144 a~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~---g~~q~ale~L~~~e~~i~Dkla  220 (700)
T KOG1156|consen  144 ASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEA---GSLQKALEHLLDNEKQIVDKLA  220 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHc---ccHHHHHHHHHhhhhHHHHHHH
Confidence            3467777777778999999999998886553 5666655         2222233   3356666666554444334444


Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHH-hccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          102 YDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWL-ERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       102 ~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                      +--.-...+.+.+++++|..++..+....  ||..-|...+.... +.....+....+|....+. ++.....-..=++.
T Consensus       221 ~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~-y~r~e~p~Rlplsv  297 (700)
T KOG1156|consen  221 FEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEK-YPRHECPRRLPLSV  297 (700)
T ss_pred             HhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc-CcccccchhccHHH
Confidence            43333335667789999999999998865  88888776655433 2332233333566655432 11111111111112


Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh---cCC----------CCCchhH--H
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL---NMG----------LMPRQGM--V  245 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~----------~~p~~~~--~  245 (343)
                      .....-.+...+++..+.+.|+++-   +..+..-|-.....+-..++.-.+..   ..|          -+|+...  +
T Consensus       298 l~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~  374 (700)
T KOG1156|consen  298 LNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTL  374 (700)
T ss_pred             hCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHH
Confidence            2222334445566677777777553   33333333222221111111111111   001          1444433  4


Q ss_pred             HHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc
Q 046547          246 IKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAG  324 (343)
Q Consensus       246 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  324 (343)
                      -.++..+-+.|+++.|...++...+  ..|+.. -|-.=.+.+...|++++|..++++..+-+ .||...=..-..-..+
T Consensus       375 y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLr  451 (700)
T KOG1156|consen  375 YFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLR  451 (700)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHH
Confidence            4556677788888888888887765  345433 34333466788888888888888887766 4565554466677778


Q ss_pred             cCChhHHHHHHHHHHh
Q 046547          325 VGEWKLATVVRQRFAE  340 (343)
Q Consensus       325 ~g~~~~a~~~~~~m~~  340 (343)
                      +.+.++|.++...+.+
T Consensus       452 An~i~eA~~~~skFTr  467 (700)
T KOG1156|consen  452 ANEIEEAEEVLSKFTR  467 (700)
T ss_pred             ccccHHHHHHHHHhhh
Confidence            8888888887776654

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.55  E-value=2.4e-05  Score=68.08  Aligned_cols=212  Identities=10%  Similarity=-0.000  Sum_probs=146.6

Q ss_pred             HHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCC-CccHHHHHHHHHHHHhccCchhHHHHHHH
Q 046547           82 IDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGC-VPVPQIRLLLSSAWLERRCQSQSVADILL  160 (343)
Q Consensus        82 ~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~~a~~~~~  160 (343)
                      ..+-++..+.+.+..++...+.++   .+....+.++..+.|++..+.+- .||......=+..+  . .++++|..=|+
T Consensus       345 a~~d~~~~I~l~~~~~~lyI~~a~---~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~fl--L-~q~e~A~aDF~  418 (606)
T KOG0547|consen  345 AQEDFDAAIKLDPAFNSLYIKRAA---AYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFL--L-QQYEEAIADFQ  418 (606)
T ss_pred             hhhhHHHHHhcCcccchHHHHHHH---HHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHH--H-HHHHHHHHHHH
Confidence            333444444445554454444443   45677888999999999887542 34544444444432  2 25888888888


Q ss_pred             HHHhcCCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc----
Q 046547          161 EMKSIGYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN----  235 (343)
Q Consensus       161 ~m~~~g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----  235 (343)
                      +.+..  .| +...|--+--+..+.++++++...|++.++. ++--...|+.....+...+++++|.+.|+...+-    
T Consensus       419 Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~  495 (606)
T KOG0547|consen  419 KAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPRE  495 (606)
T ss_pred             HHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcccc
Confidence            88764  34 3455666666667889999999999999875 4556788999999999999999999999998741    


Q ss_pred             CCCCCch--hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          236 MGLMPRQ--GMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       236 ~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .++..+.  .+--+++.. .-.+++..|..++++..+  +.|- ...|..|-..-.+.|+.++|+++|++-..
T Consensus       496 ~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  496 HLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            0111122  222222222 234899999999999887  4453 45888999999999999999999997643

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.54  E-value=0.0003  Score=60.28  Aligned_cols=235  Identities=11%  Similarity=-0.036  Sum_probs=135.4

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL  177 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  177 (343)
                      |+.....+-+ ++...|+.+.|...|++...  +.|+..+-.-+-..+....++.+....+...+.... +-+...|-.-
T Consensus       231 NvhLl~~lak-~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  231 NEHLMMALGK-CLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             cHHHHHHHhh-hhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            4566666665 67777888999888888765  346554422222222222234555555544443321 1222223222


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      ........++..|+.+-++..+... -+...|-.--..+...+++++|.-.|+..+.  --+-+...|..|+.+|...|+
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhch
Confidence            3333445555556555555544321 1222232222344455566666666665541  222344556666666666655


Q ss_pred             HHHHH------------------------------------HHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHH
Q 046547          258 MWKAV------------------------------------EMIEFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       258 ~~~a~------------------------------------~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~  300 (343)
                      +.+|.                                    ++++.-..  +.|+-. ..+.+...+...|+..++..++
T Consensus       384 ~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            55554                                    33333222  334432 4556666788899999999999


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      +....  ..||....+.|.+.+.....+.+|.+.|....+++|
T Consensus       462 e~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  462 EKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             HHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence            88764  468999999999999999999999999988776653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.50  E-value=2.4e-07  Score=51.18  Aligned_cols=31  Identities=13%  Similarity=0.118  Sum_probs=12.9

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCC
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPI  275 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  275 (343)
                      ||++|.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            4444444444444444444444444444443

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.49  E-value=2.3e-07  Score=51.23  Aligned_cols=33  Identities=33%  Similarity=0.508  Sum_probs=17.6

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD  205 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~  205 (343)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.47  E-value=0.00026  Score=60.67  Aligned_cols=264  Identities=11%  Similarity=0.015  Sum_probs=180.4

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH----HHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF----SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDY  104 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  104 (343)
                      -+++....+.+.+...|+.++|...|++....  .|...    .|..++...|+.+..+.+...+..........+....
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            36777888999999999999999999976543  45444    3567778888888888887777654322212222221


Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHH-HHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHc
Q 046547          105 LLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSS-AWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCA  183 (343)
Q Consensus       105 li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~-~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~  183 (343)
                      -+  .+ ...+++.|+.+-++..+..  |...---++-. .+...+ ..++|.--|+...... +-+...|.-|+.+|..
T Consensus       308 ~~--l~-~~K~~~rAL~~~eK~I~~~--~r~~~alilKG~lL~~~~-R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA  380 (564)
T KOG1174|consen  308 QL--LY-DEKKFERALNFVEKCIDSE--PRNHEALILKGRLLIALE-RHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLA  380 (564)
T ss_pred             hh--hh-hhhhHHHHHHHHHHHhccC--cccchHHHhccHHHHhcc-chHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHh
Confidence            12  22 2367999999998887643  44333222222 333444 5788888888776532 3567899999999999


Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHH-HHHh-cCCChhHHHHHHHHHHhcCCCCCch-hHHHHHHHHHHhCccHHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPDLESYSIVI-GAMS-TARKTNDAVEMMKEMVLNMGLMPRQ-GMVIKVAAALRANREMWK  260 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-~~~~-~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~  260 (343)
                      .|++.+|.-+-....+. .+.+..+.+.+- ..+. ...--++|.++++.-.   .+.|+- ...+.+...+...|..+.
T Consensus       381 ~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D  456 (564)
T KOG1174|consen  381 QKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKD  456 (564)
T ss_pred             hchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccch
Confidence            99999988665554332 223344443331 1121 2223478888888765   345653 446777788889999999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +..+++....  ..||....+.|-+.+...+.+.+|++.|......+
T Consensus       457 ~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  457 IIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            9999998776  57899999999999999999999999998776543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.45  E-value=3.8e-07  Score=50.01  Aligned_cols=31  Identities=10%  Similarity=0.097  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCC
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCP  274 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  274 (343)
                      +|+++|.+|++.|+++.|.++|++|.+.|++
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            3444444444444444444444444444443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.44  E-value=4.6e-06  Score=73.28  Aligned_cols=124  Identities=10%  Similarity=0.041  Sum_probs=89.6

Q ss_pred             CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC--CCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchh
Q 046547          166 GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA--ECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG  243 (343)
Q Consensus       166 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~  243 (343)
                      +.+.+......+++.+....+++.+..++.+....  ....-..|..++++.|...|..+.++.+++.=.. +|+-||..
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~-yGiF~D~~  139 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQ-YGIFPDNF  139 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhh-cccCCChh
Confidence            44556667777777777777778888777777654  2222234556788888888888888888877665 68888888


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      ++|.||..+.+.|++..|.++...|...+...+..|+..-+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888888888888877766666667777666666554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.42  E-value=3.6e-05  Score=70.17  Aligned_cols=222  Identities=14%  Similarity=0.037  Sum_probs=147.4

Q ss_pred             CChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHH
Q 046547           97 RPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNY  176 (343)
Q Consensus        97 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  176 (343)
                      |....-..++...+.+.|-...|..++++...         |.-.|.+|+..| +.++|..+..+..+  -+||+..|..
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg-~~~kaeei~~q~le--k~~d~~lyc~  462 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLG-QHGKAEEINRQELE--KDPDPRLYCL  462 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhc-ccchHHHHHHHHhc--CCCcchhHHH
Confidence            33344444444456667778888888887643         455566777766 67788888777766  3778888888


Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      +......-.-+++|.++++..-..       .-..+-....+.++++++.+.|+.-.+-  -+.-..+|-.+=.+..+.+
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHh
Confidence            877776666677887777654332       1111222223367777777777765532  1223445666666667777


Q ss_pred             cHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 046547          257 EMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                      ++..|.+.|..-..  ..|| ...||.+-.+|.+.|+-.+|...+++..+.+ .-+...|...+....+.|.+++|.+.+
T Consensus       534 k~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             hhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHH
Confidence            88888888877665  4454 4478888888888888888888888877766 344566777777778888888888888


Q ss_pred             HHHHhhc
Q 046547          336 QRFAELK  342 (343)
Q Consensus       336 ~~m~~~~  342 (343)
                      .++.+++
T Consensus       611 ~rll~~~  617 (777)
T KOG1128|consen  611 HRLLDLR  617 (777)
T ss_pred             HHHHHhh
Confidence            8776653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.42  E-value=0.0016  Score=60.18  Aligned_cols=86  Identities=16%  Similarity=-0.009  Sum_probs=65.2

Q ss_pred             hCccHHHHHHHHHHHHHcCCCCch-hhHHHHHHHHHhcccHhHHHH--HHHHHhHCCCCCCHHHHHHHHHHHhccCChhH
Q 046547          254 ANREMWKAVEMIEFLERKGCPIGF-QGYEVVVEGCLECREYILAGK--TVMGMTERGFIPYIKVRQKVVEGLAGVGEWKL  330 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~--~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  330 (343)
                      ..|++++|.+.|.....  +.|+. .+.+++-..+.+.|+...|..  ++.++.+.+ +.+...|-.+...+-+.|+.+.
T Consensus       696 ~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~  772 (799)
T KOG4162|consen  696 VKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQ  772 (799)
T ss_pred             HHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHH
Confidence            34555566665555443  45553 367788888889998888887  888888776 4478889999999999999999


Q ss_pred             HHHHHHHHHhhc
Q 046547          331 ATVVRQRFAELK  342 (343)
Q Consensus       331 a~~~~~~m~~~~  342 (343)
                      |.+.|.-..++.
T Consensus       773 Aaecf~aa~qLe  784 (799)
T KOG4162|consen  773 AAECFQAALQLE  784 (799)
T ss_pred             HHHHHHHHHhhc
Confidence            999998877664

>PLN02789 farnesyltranstransferase

Probab=98.41  E-value=0.0009  Score=57.49  Aligned_cols=227  Identities=7%  Similarity=-0.051  Sum_probs=149.1

Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ  186 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~  186 (343)
                      +.+...+..++|+...+++.+  +.|+..+ |+..-..+...+..+++++..++++.+.. +-+..+|+.--..+.+.|+
T Consensus        45 a~l~~~e~serAL~lt~~aI~--lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         45 AVYASDERSPRALDLTADVIR--LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHcCCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCc
Confidence            466677888999999999887  3466554 33222233333335788899988887754 2334456655444555554


Q ss_pred             --HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC---cc----
Q 046547          187 --LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN---RE----  257 (343)
Q Consensus       187 --~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---~~----  257 (343)
                        .+++..+++++.+... -|-.+|+....++...|+++++++.++++.+. . +-+...|+.....+.+.   |.    
T Consensus       122 ~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        122 DAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             hhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhcccccccccc
Confidence              3677888888886543 36778888888888889999999999999863 3 33455666655555443   22    


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc----ccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccC-------
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC----REYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVG-------  326 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-------  326 (343)
                      .++..+...++.... +-|...|+.+-..+...    ++..+|.+.+.+..+.+ ..+......|++.|+...       
T Consensus       199 ~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~  276 (320)
T PLN02789        199 RDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFR  276 (320)
T ss_pred             HHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhh
Confidence            245677776666532 22455777776666662    44567888888876644 336677888888888643       


Q ss_pred             -----------ChhHHHHHHHHHHhhc
Q 046547          327 -----------EWKLATVVRQRFAELK  342 (343)
Q Consensus       327 -----------~~~~a~~~~~~m~~~~  342 (343)
                                 ..++|.++++.+.+.+
T Consensus       277 ~~~~~~~~~~~~~~~a~~~~~~l~~~d  303 (320)
T PLN02789        277 DTVDTLAEELSDSTLAQAVCSELEVAD  303 (320)
T ss_pred             hhhhccccccccHHHHHHHHHHHHhhC
Confidence                       3477888888886544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.40  E-value=6.9e-06  Score=72.18  Aligned_cols=126  Identities=13%  Similarity=0.048  Sum_probs=104.7

Q ss_pred             hcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhc--CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC
Q 046547          128 RSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSI--GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD  205 (343)
Q Consensus       128 ~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~  205 (343)
                      ..+.+.+......+++.. ....+++.+..++......  ....-..|.+++++.|.+.|..++++.++..=...|+-||
T Consensus        59 ~~~~~vS~~dld~fvn~~-~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D  137 (429)
T PF10037_consen   59 ERKKPVSSLDLDIFVNNV-ESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPD  137 (429)
T ss_pred             hcCCCCcHHHHHHHHhhc-CCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCC
Confidence            345566777778888774 4445788899888888754  3333345678999999999999999999999999999999


Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN  255 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  255 (343)
                      ..|||.||+.+.+.|++..|.++...|..+ +...+..|+..-+.+|.+.
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            999999999999999999999999999975 7778888888888887776

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.39  E-value=5.2e-07  Score=49.45  Aligned_cols=32  Identities=19%  Similarity=0.206  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP  204 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  204 (343)
                      +|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.38  E-value=0.00047  Score=67.45  Aligned_cols=232  Identities=13%  Similarity=0.020  Sum_probs=170.5

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc--H---HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhh
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV--P---QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGT  173 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~---~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  173 (343)
                      ...|-..|. .....++.+.|.++.++.... +.+.  .   -.|.++++.--.-| .-+...++|++..+..  -....
T Consensus      1458 Si~WI~YMa-f~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG-~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1458 SILWIRYMA-FHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYG-TEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             chHHHHHHH-HHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhC-cHHHHHHHHHHHHHhc--chHHH
Confidence            567777785 667788999999999998743 2221  1   23445554322333 4577889999998752  23456


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC--chhHHHHHHHH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP--RQGMVIKVAAA  251 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~  251 (343)
                      |..|...|.+.+++++|.++++.|.+.-- -....|...+..+.+.++-+.|.+++.+...  -++-  ......-.+..
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~--~lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALK--SLPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHh--hcchhhhHHHHHHHHHH
Confidence            88899999999999999999999987532 4677888899999999999999999999874  3322  34445556666


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC--HHHHHHHHHHHhccCChh
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY--IKVRQKVVEGLAGVGEWK  329 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~  329 (343)
                      -.+.|+.+++..+|+.....- +--...|+..|+.=.+.|+.+.+..+|++....++.|-  -..|..+++.=-..|+-.
T Consensus      1610 EFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            678999999999999887642 22456899999999999999999999999999998874  345666666555567766


Q ss_pred             HHHHHHHHHH
Q 046547          330 LATVVRQRFA  339 (343)
Q Consensus       330 ~a~~~~~~m~  339 (343)
                      .++.+=.+..
T Consensus      1689 ~vE~VKarA~ 1698 (1710)
T KOG1070|consen 1689 NVEYVKARAK 1698 (1710)
T ss_pred             hHHHHHHHHH
Confidence            6555544433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.37  E-value=0.00023  Score=57.48  Aligned_cols=148  Identities=13%  Similarity=0.020  Sum_probs=90.4

Q ss_pred             hccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHh----cCCCh
Q 046547          147 ERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMS----TARKT  222 (343)
Q Consensus       147 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~----~~~~~  222 (343)
                      ..++++++|++..+..    -  +......=...+.+..+++-|.+.+++|.+-   -+..|.+-|..+++    ..+..
T Consensus       119 ~~~~~~deAl~~~~~~----~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  119 MHDGDFDEALKALHLG----E--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             hcCCChHHHHHHHhcc----c--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhh
Confidence            3345678887777652    1  2222333334456667778888888888764   24445554444443    34567


Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccH-hHHHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREY-ILAGKTVM  301 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~  301 (343)
                      .+|.-+|++|.+  ..+|+..+-+.+..++...|++++|..++++...+.-. +..|...+|-.-...|.. +...+.+.
T Consensus       190 qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~  266 (299)
T KOG3081|consen  190 QDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLS  266 (299)
T ss_pred             hhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            788888888874  56777778888888888888888888888887765433 344444444443344433 44455666


Q ss_pred             HHhHC
Q 046547          302 GMTER  306 (343)
Q Consensus       302 ~m~~~  306 (343)
                      +++..
T Consensus       267 QLk~~  271 (299)
T KOG3081|consen  267 QLKLS  271 (299)
T ss_pred             HHHhc
Confidence            65543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.36  E-value=8.7e-05  Score=59.22  Aligned_cols=129  Identities=10%  Similarity=0.035  Sum_probs=98.8

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH-HhCcc--HH
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL-RANRE--MW  259 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~-~~~~~--~~  259 (343)
                      ..++.+++...++...+.. +.|...|..+...|...|++++|...|+....  -.+-+...+..+..++ ...|+  .+
T Consensus        51 ~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         51 SQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQ--LRGENAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             CchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcH
Confidence            4677788888887776654 45788899999999999999999999999885  3344667777777764 56676  59


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHH
Q 046547          260 KAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQ  316 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  316 (343)
                      +|.+++++..+..-. +...+..+-..+.+.|++++|...|+++.+.. .|+..-+.
T Consensus       128 ~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~  182 (198)
T PRK10370        128 QTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRTQ  182 (198)
T ss_pred             HHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHHH
Confidence            999999998885422 55677778888899999999999999988764 45554443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.36  E-value=0.0015  Score=57.22  Aligned_cols=153  Identities=8%  Similarity=-0.015  Sum_probs=99.5

Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH----hcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM----STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      ..+++.+.++|....+ =++....||+-+=-.|    .+..++..|.+++....   |.-|-..+|...|..=.+.+++|
T Consensus       379 ~ed~ertr~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efD  454 (677)
T KOG1915|consen  379 AEDVERTRQVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFD  454 (677)
T ss_pred             hhhHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHH
Confidence            3455555555555554 2333344444332222    34566777777777765   66777788888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          260 KAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI-PYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      .+..+++...+.+- -|..+|.-....=...|+.+.|..+|+-.++.... -....|.+.|+-=...|.++.|..+++++
T Consensus       455 RcRkLYEkfle~~P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerl  533 (677)
T KOG1915|consen  455 RCRKLYEKFLEFSP-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERL  533 (677)
T ss_pred             HHHHHHHHHHhcCh-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHH
Confidence            88888888887542 25566666666666788888888888887765211 11233444444445678899999988887


Q ss_pred             Hhh
Q 046547          339 AEL  341 (343)
Q Consensus       339 ~~~  341 (343)
                      .+.
T Consensus       534 L~r  536 (677)
T KOG1915|consen  534 LDR  536 (677)
T ss_pred             HHh
Confidence            664

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.33  E-value=0.00024  Score=69.45  Aligned_cols=201  Identities=13%  Similarity=0.039  Sum_probs=157.2

Q ss_pred             ccH-HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC-----HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 046547          133 PVP-QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD-----CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL  206 (343)
Q Consensus       133 p~~-~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  206 (343)
                      |++ ..|-..|....+.+ +.++|.++.++.... +.+.     ...|.++++.-..-|.-+...++|++..+..  -.-
T Consensus      1455 PNSSi~WI~YMaf~Lels-EiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~ 1530 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELS-EIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAY 1530 (1710)
T ss_pred             CCcchHHHHHHHHHhhhh-hhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chH
Confidence            544 44666676666665 689999999988653 3222     2467777777777788889999999998752  225


Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhh---HHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQG---YEVV  283 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~---~~~l  283 (343)
                      ..|..|...|.+.+.+++|.++++.|.++.+  -....|...+..+.++++.+.|..++.+..+  .-|...+   ..-.
T Consensus      1531 ~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~--~lPk~eHv~~Iskf 1606 (1710)
T KOG1070|consen 1531 TVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALK--SLPKQEHVEFISKF 1606 (1710)
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHh--hcchhhhHHHHHHH
Confidence            5689999999999999999999999997555  5677899999999999999999999999876  3444222   2233


Q ss_pred             HHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          284 VEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       284 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++.=.+.|+.+.+..+|+.....-- --...|+..|+.=.+.|+.+.++.+|++..+++
T Consensus      1607 AqLEFk~GDaeRGRtlfEgll~ayP-KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1607 AQLEFKYGDAERGRTLFEGLLSAYP-KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             HHHHhhcCCchhhHHHHHHHHhhCc-cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            3444578999999999999877642 246789999999999999999999999998775

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.33  E-value=0.0013  Score=55.29  Aligned_cols=313  Identities=14%  Similarity=0.061  Sum_probs=194.8

Q ss_pred             hhhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHH--H--hhhhhhcccchHHHHHHHHhcCC
Q 046547           17 PCLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFS--F--LSNFPQNHRIKVIDEMLESFIPL   92 (343)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~   92 (343)
                      .++....+..+..++.---.+-+.+.-.|++.+|+..|....+-  .|+...  |  ...+...|+.+-+-.=+....++
T Consensus        24 ~~~e~a~~~~~~advekhlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel  101 (504)
T KOG0624|consen   24 LFLEGAESTASPADVEKHLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL  101 (504)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc
Confidence            33333333333233333445667788889999999998876543  333321  1  34445555543322222222222


Q ss_pred             CCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCc----cH--------HHHH--HHHHHHHhccCchhHHHHH
Q 046547           93 RPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVP----VP--------QIRL--LLSSAWLERRCQSQSVADI  158 (343)
Q Consensus        93 ~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p----~~--------~~~~--~li~~~~~~~~~~~~a~~~  158 (343)
                         .||-..-..-=...+.+.|.++.|..=|+...++...-    +.        ..++  ..+..+.. +|+...|+..
T Consensus       102 ---KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~-~GD~~~ai~~  177 (504)
T KOG0624|consen  102 ---KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASG-SGDCQNAIEM  177 (504)
T ss_pred             ---CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhc-CCchhhHHHH
Confidence               33432222111134557899999999999998765211    11        1111  11222233 3578888888


Q ss_pred             HHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCC
Q 046547          159 LLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGL  238 (343)
Q Consensus       159 ~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~  238 (343)
                      +..+.+.. +=|+..|..--.+|...|++.+|+.=++...+..- -++.++--+-..+...|+.+.++...++..   .+
T Consensus       178 i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---Kl  252 (504)
T KOG0624|consen  178 ITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECL---KL  252 (504)
T ss_pred             HHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHH---cc
Confidence            88887742 23667777778899999999999877766654432 245555556667778899999988888876   44


Q ss_pred             CCchhH----HHHH---------HHHHHhCccHHHHHHHHHHHHHcCCCCchh---hHHHHHHHHHhcccHhHHHHHHHH
Q 046547          239 MPRQGM----VIKV---------AAALRANREMWKAVEMIEFLERKGCPIGFQ---GYEVVVEGCLECREYILAGKTVMG  302 (343)
Q Consensus       239 ~p~~~~----~~~l---------i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~  302 (343)
                      .||-..    |..|         +......++|-++.+-.+...+..-.....   .+..+-.+|...|++.+|++.-.+
T Consensus       253 dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  253 DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            566432    2221         223445677777777777766543221222   344566778889999999999998


Q ss_pred             HhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          303 MTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       303 m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..+.  .|| ..++--=..+|.-..++|+|+.=|+...++.
T Consensus       333 vL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  333 VLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            8764  354 7777777789999999999999999887765

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.32  E-value=0.00018  Score=59.32  Aligned_cols=183  Identities=11%  Similarity=-0.041  Sum_probs=116.3

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccH----HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH--h
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVP----QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC--G  172 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~  172 (343)
                      ...+-.+.. .+...|+++.|...|++.....  |+.    .++..+...+...+ ++++|...++++.+.......  .
T Consensus        33 ~~~~~~~g~-~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~-~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        33 AEELYEEAK-EALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSG-DYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             HHHHHHHHH-HHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHCcCCCchHH
Confidence            334444443 4556799999999999987743  432    34455556666665 699999999999875322111  1


Q ss_pred             hHHHHHHHHHcc--------CcHHHHHHHHHHhhhCCCCCCHh-hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchh
Q 046547          173 TCNYLVSSLCAI--------DQLVEAAKVLKGMSSAECVPDLE-SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG  243 (343)
Q Consensus       173 ~~~~ll~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~  243 (343)
                      ++..+-.++.+.        |+.++|.+.|+.+....  |+.. .+..+.... .         .......         
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---------~~~~~~~---------  167 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---------LRNRLAG---------  167 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---------HHHHHHH---------
Confidence            344445555544        78899999999988753  4432 222221110 0         0001110         


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcC--CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKG--CPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..-.+...+.+.|++++|...+....+..  -+.....+..+..++.+.|++++|..+++.+...
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            11245566888899999999999887642  1123457778888899999999999988887654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=0.00014  Score=64.64  Aligned_cols=246  Identities=10%  Similarity=-0.007  Sum_probs=175.2

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhh---hcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFP---QNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      +....+..-|..+...|+...-..+=.+|.+.- +..+.+|..+-+   ..++...+.+-+.....+.+.-  ...|-.+
T Consensus       276 fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~f--gpaWl~f  352 (611)
T KOG1173|consen  276 FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTF--GPAWLAF  352 (611)
T ss_pred             CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccc--cHHHHHH
Confidence            455567777889999998888887777776542 334456643333   3466667777666665554421  2445555


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhc--C-CCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHH
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRS--G-CVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLC  182 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~--~-~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~  182 (343)
                      -+ .++..|.-++|...+...-+-  | ..|.  .|.. + -|...+ ..+.|.+.|.+.... .+.|+...+.+--...
T Consensus       353 gh-sfa~e~EhdQAmaaY~tAarl~~G~hlP~--LYlg-m-ey~~t~-n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay  425 (611)
T KOG1173|consen  353 GH-SFAGEGEHDQAMAAYFTAARLMPGCHLPS--LYLG-M-EYMRTN-NLKLAEKFFKQALAI-APSDPLVLHELGVVAY  425 (611)
T ss_pred             hH-HhhhcchHHHHHHHHHHHHHhccCCcchH--HHHH-H-HHHHhc-cHHHHHHHHHHHHhc-CCCcchhhhhhhheee
Confidence            54 677788999999999887542  1 1222  1222 2 234444 588999999988764 3557788888877778


Q ss_pred             ccCcHHHHHHHHHHhhhC----C--CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          183 AIDQLVEAAKVLKGMSSA----E--CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      ..+.+.+|..+|+..+..    +  ...-..+++.|-.+|.+.+..++|+..++....  -.+-|..++.++--.|...|
T Consensus       426 ~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~--l~~k~~~~~asig~iy~llg  503 (611)
T KOG1173|consen  426 TYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALL--LSPKDASTHASIGYIYHLLG  503 (611)
T ss_pred             hHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHH--cCCCchhHHHHHHHHHHHhc
Confidence            889999999999887621    1  111234688999999999999999999999985  56678899999999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL  288 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  288 (343)
                      +++.|.+.|++..-  +.|+..+-..++..+.
T Consensus       504 nld~Aid~fhKaL~--l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  504 NLDKAIDHFHKALA--LKPDNIFISELLKLAI  533 (611)
T ss_pred             ChHHHHHHHHHHHh--cCCccHHHHHHHHHHH
Confidence            99999999998765  7888877777766544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.28  E-value=0.00031  Score=57.65  Aligned_cols=26  Identities=8%  Similarity=0.005  Sum_probs=15.7

Q ss_pred             hhhHHHHHHHHHhcccHhHHHHHHHH
Q 046547          277 FQGYEVVVEGCLECREYILAGKTVMG  302 (343)
Q Consensus       277 ~~~~~~li~~~~~~g~~~~a~~~~~~  302 (343)
                      ..||..++-.||+..-++.|-+++-+
T Consensus       310 ~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  310 PETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             hHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            34666666666666666666666554

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.27  E-value=0.00058  Score=55.19  Aligned_cols=89  Identities=15%  Similarity=0.062  Sum_probs=42.2

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 046547          214 GAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE  289 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  289 (343)
                      ..+.+..+++-|.+.++.|.+-    -+..|.+.|..++.+    .+++..|.-+|++|-++ ..|+..+-+-...++..
T Consensus       145 qI~lk~~r~d~A~~~lk~mq~i----ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~  219 (299)
T KOG3081|consen  145 QILLKMHRFDLAEKELKKMQQI----DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQ  219 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcc----chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHH
Confidence            3344444555555555555431    233444444444433    23455555555555432 34444555555555555


Q ss_pred             cccHhHHHHHHHHHhHCC
Q 046547          290 CREYILAGKTVMGMTERG  307 (343)
Q Consensus       290 ~g~~~~a~~~~~~m~~~g  307 (343)
                      .|++++|..++++..++.
T Consensus       220 ~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  220 LGRYEEAESLLEEALDKD  237 (299)
T ss_pred             hcCHHHHHHHHHHHHhcc
Confidence            555555555555555443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.26  E-value=0.0025  Score=55.85  Aligned_cols=99  Identities=9%  Similarity=0.016  Sum_probs=43.2

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHH
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYT  109 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~  109 (343)
                      +-..+..=.+.+++..|..+|+.....  -|.+.-+    +..=-..|++.-+.++++.-...   .|+...|++.|+ .
T Consensus       110 WlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w---~P~eqaW~sfI~-f  183 (677)
T KOG1915|consen  110 WLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEW---EPDEQAWLSFIK-F  183 (677)
T ss_pred             HHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC---CCcHHHHHHHHH-H
Confidence            333444444444444444444443321  2333221    22222334444444444443322   345555666654 3


Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHHHHHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQIRLL  140 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  140 (343)
                      =.+-+.++.|..++++.+-  +.|+..+|.-
T Consensus       184 ElRykeieraR~IYerfV~--~HP~v~~wik  212 (677)
T KOG1915|consen  184 ELRYKEIERARSIYERFVL--VHPKVSNWIK  212 (677)
T ss_pred             HHHhhHHHHHHHHHHHHhe--ecccHHHHHH
Confidence            3344555556666655544  2355444433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.26  E-value=2.2e-05  Score=54.64  Aligned_cols=39  Identities=13%  Similarity=0.248  Sum_probs=17.6

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCC-CCCHhhHHHHHHHHh
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAEC-VPDLESYSIVIGAMS  217 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~  217 (343)
                      ..+...+++.....+|+.+++.|+ .|+..+|+.++.+.+
T Consensus        33 ~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~   72 (120)
T PF08579_consen   33 NSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIA   72 (120)
T ss_pred             HHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            333333444444444444444444 444444444444443

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.24  E-value=1.6e-05  Score=55.34  Aligned_cols=68  Identities=21%  Similarity=0.356  Sum_probs=43.4

Q ss_pred             chhHHHHHHHHHHhcCC-ccCHhhHHHHHHHHHccC--------cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc
Q 046547          151 QSQSVADILLEMKSIGY-HPDCGTCNYLVSSLCAID--------QLVEAAKVLKGMSSAECVPDLESYSIVIGAMST  218 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  218 (343)
                      ++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|++|...+++|+..||+.++..+.+
T Consensus        40 d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   40 DYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             chHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            56667777777777777 677777777777665532        233455666666666666666666666665543

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.24  E-value=0.0036  Score=56.90  Aligned_cols=289  Identities=10%  Similarity=-0.016  Sum_probs=180.7

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcc-------cchHHHHHHHHhcCCCCCC----------
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNH-------RIKVIDEMLESFIPLRPRS----------   96 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~----------   96 (343)
                      +-...+-|-+.|+.+.|..+|++..... -|.+.-+....|..+       +.+.+-++.+....+ |..          
T Consensus       390 w~~faklYe~~~~l~~aRvifeka~~V~-y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v-P~~~~~~~yd~~~  467 (835)
T KOG2047|consen  390 WVEFAKLYENNGDLDDARVIFEKATKVP-YKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV-PTNPELEYYDNSE  467 (835)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhcCC-ccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC-CCchhhhhhcCCC
Confidence            5666777888999999999999876543 233433333333222       233333344433322 111          


Q ss_pred             -------CChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCcc
Q 046547           97 -------RPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHP  169 (343)
Q Consensus        97 -------p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~  169 (343)
                             .+...|+.+++ +-...|-++....+++++.+..+-.....-|-.  .+.....-++++.+++++-...=-.|
T Consensus       468 pvQ~rlhrSlkiWs~y~D-leEs~gtfestk~vYdriidLriaTPqii~NyA--mfLEeh~yfeesFk~YErgI~LFk~p  544 (835)
T KOG2047|consen  468 PVQARLHRSLKIWSMYAD-LEESLGTFESTKAVYDRIIDLRIATPQIIINYA--MFLEEHKYFEESFKAYERGISLFKWP  544 (835)
T ss_pred             cHHHHHHHhHHHHHHHHH-HHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHH--HHHHhhHHHHHHHHHHHcCCccCCCc
Confidence                   12334556665 555667888899999999876543222222222  23455566788888887655443344


Q ss_pred             CH-hhHHHHHHHHHc---cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH--hcCCChhHHHHHHHHHHhcCCCCCch-
Q 046547          170 DC-GTCNYLVSSLCA---IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM--STARKTNDAVEMMKEMVLNMGLMPRQ-  242 (343)
Q Consensus       170 ~~-~~~~~ll~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~p~~-  242 (343)
                      +. ..|+..+.-+.+   ...++.|..+|++..+ |++|.-.-+--|+.+-  -..|-...|+.+++....  ++++.. 
T Consensus       545 ~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~  621 (835)
T KOG2047|consen  545 NVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQR  621 (835)
T ss_pred             cHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHH
Confidence            43 356666655544   3478999999999998 7777644333333332  234778889999999874  676654 


Q ss_pred             -hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHH---HHHhcccHhHHHHHHHHHhHC-CCCCCHHHHHH
Q 046547          243 -GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVE---GCLECREYILAGKTVMGMTER-GFIPYIKVRQK  317 (343)
Q Consensus       243 -~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~---~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~  317 (343)
                       ..||+.|.-....=.+.....+|++.++  .-|+...-...|+   .=++.|.++.|..++..-.+- .-..+..-|.+
T Consensus       622 l~myni~I~kaae~yGv~~TR~iYekaIe--~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~t  699 (835)
T KOG2047|consen  622 LDMYNIYIKKAAEIYGVPRTREIYEKAIE--SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDT  699 (835)
T ss_pred             HHHHHHHHHHHHHHhCCcccHHHHHHHHH--hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHH
Confidence             5688888876666567777888888887  3677665444443   356789999999998764432 22235666777


Q ss_pred             HHHHHhccCChhHHH
Q 046547          318 VVEGLAGVGEWKLAT  332 (343)
Q Consensus       318 li~~~~~~g~~~~a~  332 (343)
                      .=.-=.+.|+-+...
T Consensus       700 wk~FEvrHGnedT~k  714 (835)
T KOG2047|consen  700 WKEFEVRHGNEDTYK  714 (835)
T ss_pred             HHHHHHhcCCHHHHH
Confidence            777777888844433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.22  E-value=0.00037  Score=66.93  Aligned_cols=215  Identities=10%  Similarity=0.004  Sum_probs=113.4

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcC-----------
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIG-----------  166 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g-----------  166 (343)
                      +...+..|+. .+...+++++|.++.+...+  ..|+...+-.+...+....++.+++..+  .+.+.-           
T Consensus        30 n~~a~~~Li~-~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         30 KFKELDDLID-AYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             hHHHHHHHHH-HHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHH
Confidence            3567777776 66567888888888886665  3466655444443333333344444333  221110           


Q ss_pred             -------CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC
Q 046547          167 -------YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLM  239 (343)
Q Consensus       167 -------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  239 (343)
                             ..-+...+-.+..+|-+.|+.++|..+|+++.+.. +-|..+.|.+...|... ++++|.+++...... -  
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-~--  179 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-F--  179 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-H--
Confidence                   01111344455566666677777777777777665 34566777777777777 777777777776642 0  


Q ss_pred             CchhHHHHHHHH---HHh--CccHHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHH
Q 046547          240 PRQGMVIKVAAA---LRA--NREMWKAVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK  313 (343)
Q Consensus       240 p~~~~~~~li~~---~~~--~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  313 (343)
                      .+..-|+.+...   ++.  ..+.+.-.++.+.+... |..--..++-.+-..|-..++++++..+++.+.+..- -|..
T Consensus       180 i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~-~n~~  258 (906)
T PRK14720        180 IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDN-KNNK  258 (906)
T ss_pred             HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCC-cchh
Confidence            111112222211   111  12233333333333322 2222333444455556666677777777777666542 2444


Q ss_pred             HHHHHHHHHh
Q 046547          314 VRQKVVEGLA  323 (343)
Q Consensus       314 ~~~~li~~~~  323 (343)
                      ...-++.+|.
T Consensus       259 a~~~l~~~y~  268 (906)
T PRK14720        259 AREELIRFYK  268 (906)
T ss_pred             hHHHHHHHHH
Confidence            5555555555

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.22  E-value=0.00027  Score=56.89  Aligned_cols=127  Identities=9%  Similarity=-0.012  Sum_probs=70.5

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      ...+..+....+.|++..|...|.+.... -++|..+|+.+--+|-+.|+++.|..-|.+..+  =..-+...+|.|.-.
T Consensus       101 ~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~--L~~~~p~~~nNlgms  177 (257)
T COG5010         101 ELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALE--LAPNEPSIANNLGMS  177 (257)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHH--hccCCchhhhhHHHH
Confidence            34444555566666666666666665543 245566666666666666666666666666553  222233445555555


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMG  302 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  302 (343)
                      +.-.|+.+.|..++......+.. |...-..|.......|++++|.++-..
T Consensus       178 ~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         178 LLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhccc
Confidence            66666666666666665544322 333444455555566666666655443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.21  E-value=0.001  Score=56.00  Aligned_cols=26  Identities=8%  Similarity=0.018  Sum_probs=20.7

Q ss_pred             HHHHHHhCccCcchHHHHHHHchhcC
Q 046547           36 ETVRAAVDAKDYQQIPELLGSFEEAC   61 (343)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~   61 (343)
                      .+..++.+.|++++|+.++..+....
T Consensus        62 Wia~C~fhLgdY~~Al~~Y~~~~~~~   87 (557)
T KOG3785|consen   62 WIAHCYFHLGDYEEALNVYTFLMNKD   87 (557)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHhccC
Confidence            35566778899999999999877644

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.20  E-value=9.5e-05  Score=55.93  Aligned_cols=125  Identities=13%  Similarity=0.074  Sum_probs=69.7

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc---hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh--hHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR---QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ--GYEV  282 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~  282 (343)
                      .|..++..+ ..++...+...++.+..+  .+.+   ....-.+...+...|++++|...|+...+....|+..  ..-.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            344444444 356666666666666643  2222   1222233455666677777777777766654222211  2223


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          283 VVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      |...+...|++++|+..++......+  ....+....+.|.+.|++++|...|++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            45556677777777777765433322  334556666777777777777777664

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.19  E-value=2.6e-06  Score=45.48  Aligned_cols=29  Identities=34%  Similarity=0.508  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCC
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAE  201 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  201 (343)
                      +|+.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.18  E-value=0.001  Score=63.01  Aligned_cols=200  Identities=14%  Similarity=0.042  Sum_probs=135.3

Q ss_pred             hhHHHHHHHHhhcCCChHHH-HHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLA-LAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a-~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      .+.-.++.+..+..|..++| .+++.+..+            ++....... ...+++--+....+ ....++..+-.|-
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~La   93 (694)
T PRK15179         28 PTILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVH-KPAAALPELLDYVR-RYPHTELFQVLVA   93 (694)
T ss_pred             cHHHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhc-chHhhHHHHHHHHH-hccccHHHHHHHH
Confidence            44455555566666666665 344444433            222222221 12222222222222 2455678888888


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      ....+.|..++|..+++...+.  .|+ ......+..++.+.+++++|....++...  .-+-+......+-.++.+.|+
T Consensus        94 ~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~a~~l~~~g~  169 (694)
T PRK15179         94 RALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLEAKSWDEIGQ  169 (694)
T ss_pred             HHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHHHHHHHHhcc
Confidence            8889999999999999988874  455 45566778888999999999999999884  444455667788888889999


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      +++|..+|++....+ .-+..++..+-..+-..|+.++|...|++..+.- .|....|+..+
T Consensus       170 ~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        170 SEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             hHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            999999999988732 2235677778888889999999999999887652 34455555443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.16  E-value=3e-06  Score=45.19  Aligned_cols=29  Identities=10%  Similarity=0.171  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      +|+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34444444444444444444444444433

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.14  E-value=0.00022  Score=62.60  Aligned_cols=111  Identities=11%  Similarity=0.087  Sum_probs=48.7

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHH
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAV  262 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  262 (343)
                      ..++++.|.++|+++.+..  |+.  ...+...+...++-.+|++++++...  ..+-|..........|.+.++.+.|.
T Consensus       181 ~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~--~~p~d~~LL~~Qa~fLl~k~~~~lAL  254 (395)
T PF09295_consen  181 LTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALK--ENPQDSELLNLQAEFLLSKKKYELAL  254 (395)
T ss_pred             hcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHH
Confidence            3444555555555544432  222  22244444444444445444444442  22223333333344444444455555


Q ss_pred             HHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHHH
Q 046547          263 EMIEFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       263 ~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~  301 (343)
                      .+.+++.+  ..|+.. +|..|..+|.+.|+++.|+..++
T Consensus       255 ~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLN  292 (395)
T PF09295_consen  255 EIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALN  292 (395)
T ss_pred             HHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHh
Confidence            55544444  233322 44444445555555555544444

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.13  E-value=0.00013  Score=64.06  Aligned_cols=117  Identities=15%  Similarity=0.116  Sum_probs=87.2

Q ss_pred             HhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHH
Q 046547          146 LERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDA  225 (343)
Q Consensus       146 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a  225 (343)
                      ++..+.++.|.++++++.+..  |+  ....+...+...++-.+|.+++.+..... +-+......-...+.+.++.+.|
T Consensus       179 l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lA  253 (395)
T PF09295_consen  179 LSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELA  253 (395)
T ss_pred             HhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            344456889999999988764  44  34457777777888888988888887542 33555566666778888999999


Q ss_pred             HHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          226 VEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       226 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      +.+.+++..  -.+-+..+|..|..+|.+.|+++.|+..++.+-
T Consensus       254 L~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  254 LEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999874  333344589999999999999999998888654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.13  E-value=0.0096  Score=59.43  Aligned_cols=231  Identities=10%  Similarity=-0.039  Sum_probs=115.3

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccH----HHHHHHHHHHHhccCchhHHHHHHHHHHhc----CC-ccCHhhHHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVP----QIRLLLSSAWLERRCQSQSVADILLEMKSI----GY-HPDCGTCNYLVS  179 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~~~~~~ll~  179 (343)
                      .+...|+++.|...+++..+.--..+.    ...+.+-..+... +++++|...+++....    |- .+...++..+-.
T Consensus       461 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~-G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        461 VAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCK-GELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            344567788888777776542111111    1222222233333 4577777777666432    11 111223444555


Q ss_pred             HHHccCcHHHHHHHHHHhhh----CCCC--C-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCCchhHHHHHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSS----AECV--P-DLESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMPRQGMVIKVA  249 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~----~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p~~~~~~~li  249 (343)
                      .+...|+++.|...+++...    .|..  + ....+..+...+...|++++|...+++...-   .+.......+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            66777888888777766543    2211  1 1233444455566668888887777765431   11111223344455


Q ss_pred             HHHHhCccHHHHHHHHHHHHHc----CCCCchhhH--HHHHHHHHhcccHhHHHHHHHHHhHCCCCCC---HHHHHHHHH
Q 046547          250 AALRANREMWKAVEMIEFLERK----GCPIGFQGY--EVVVEGCLECREYILAGKTVMGMTERGFIPY---IKVRQKVVE  320 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~  320 (343)
                      ..+...|+.+.|.+.+......    +..+.....  ...+..+...|+.+.|..++...........   ...+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            5666778888887777766432    110000000  0112333445666666666555433211111   111334555


Q ss_pred             HHhccCChhHHHHHHHHHHh
Q 046547          321 GLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       321 ~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ++...|+.++|...+++...
T Consensus       700 ~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66667777777777666543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.11  E-value=0.00014  Score=54.79  Aligned_cols=92  Identities=10%  Similarity=-0.042  Sum_probs=53.6

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC
Q 046547          176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN  255 (343)
Q Consensus       176 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  255 (343)
                      .....+...|++++|...|+...... +.+...|..+..++...|++++|...|+....  --+.+...+..+-.++...
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~--l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM--LDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHc
Confidence            34455556666666666666655443 22455556666666666666666666666653  3334555566666666666


Q ss_pred             ccHHHHHHHHHHHHH
Q 046547          256 REMWKAVEMIEFLER  270 (343)
Q Consensus       256 ~~~~~a~~~~~~m~~  270 (343)
                      |+.++|...|....+
T Consensus       106 g~~~eAi~~~~~Al~  120 (144)
T PRK15359        106 GEPGLAREAFQTAIK  120 (144)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            666666666666555

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.10  E-value=0.0084  Score=59.84  Aligned_cols=302  Identities=11%  Similarity=-0.028  Sum_probs=177.2

Q ss_pred             HHHHhCccCcchHHHHHHHchhcCC------CCChHHH-----hhhhhhcccchHHHHHHHHhcCCCCCCCC---hhhHH
Q 046547           38 VRAAVDAKDYQQIPELLGSFEEACQ------NPNPFSF-----LSNFPQNHRIKVIDEMLESFIPLRPRSRP---KIAYD  103 (343)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~------~p~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~~  103 (343)
                      ...+...|+++++...+......--      .|....-     .......|+.+.+....+......+....   ....+
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            3444567889999888887643210      1111111     12223455666665555554332121111   12233


Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHhcCC---Ccc--HHHHHHHHHHHHhccCchhHHHHHHHHHHh----cCCc--c-CH
Q 046547          104 YLLSYTLQSLHPLPLALAILQRTLRSGC---VPV--PQIRLLLSSAWLERRCQSQSVADILLEMKS----IGYH--P-DC  171 (343)
Q Consensus       104 ~li~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~li~~~~~~~~~~~~a~~~~~~m~~----~g~~--~-~~  171 (343)
                      .+- ..+...|+++.|...+.+.....-   .+.  ..++..+-..+... |+++.|...+++...    .|..  + ..
T Consensus       496 ~lg-~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~-G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        496 VLG-EVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQ-GFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHH-HHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            333 355667999999999998764211   111  12333333344555 479999988777643    2321  1 12


Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCC--CCC--CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCCchhH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAE--CVP--DLESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMPRQGM  244 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p~~~~  244 (343)
                      ..+..+...+...|++++|...+++.....  ..+  ....+..+...+...|+.++|.+.++....-   .+..+....
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            334455566777899999999988875421  112  2344555666788899999999999887531   111111101


Q ss_pred             --HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch---hhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCCC-HHH
Q 046547          245 --VIKVAAALRANREMWKAVEMIEFLERKGCPIGF---QGYEVVVEGCLECREYILAGKTVMGMTER----GFIPY-IKV  314 (343)
Q Consensus       245 --~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~  314 (343)
                        -...+..+...|+.+.|...+............   ..+..+...+...|++++|...+++....    |..++ ..+
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~  733 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRN  733 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHH
Confidence              011234456688999999998775432111111   11345566788899999999999987653    33332 345


Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          315 RQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       315 ~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      ...+..++.+.|+.++|...+.+..++
T Consensus       734 ~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        734 LILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            666777889999999999999987764

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.09  E-value=0.00023  Score=53.66  Aligned_cols=109  Identities=14%  Similarity=-0.088  Sum_probs=83.8

Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .+|++..+.  .|+.  +..+..++...|++++|...|+....  --+.+...|..+..++.+.|++++|...|+...+.
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            345555543  3443  45567788889999999999999874  33457788888999999999999999999998874


Q ss_pred             CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          272 GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      . +.+...+..+-.++...|++++|...|.......
T Consensus        88 ~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         88 D-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3 2356677788888889999999999999887653

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.09  E-value=0.0071  Score=54.45  Aligned_cols=29  Identities=10%  Similarity=0.172  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcC
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEAC   61 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~   61 (343)
                      +...-.+.+.+.+++++|+++++.+.+.+
T Consensus       112 ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen  112 LLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            44555677889999999999999986554

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.08  E-value=0.00019  Score=53.51  Aligned_cols=116  Identities=15%  Similarity=0.005  Sum_probs=82.0

Q ss_pred             HHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          193 VLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       193 ~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .++.....  .| +......+...+...|++++|.+.|+....  ..+.+...+..+...+.+.|++++|...++...+.
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444443  23 334456677778888899999998888875  33446777888888888888899999888887764


Q ss_pred             CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHH
Q 046547          272 GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVR  315 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  315 (343)
                      + +.+...+..+-..|...|++++|.+.|+...+..  |+...+
T Consensus        81 ~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~  121 (135)
T TIGR02552        81 D-PDDPRPYFHAAECLLALGEPESALKALDLAIEIC--GENPEY  121 (135)
T ss_pred             C-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc--cccchH
Confidence            3 3345566666777888899999999888877653  544443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.07  E-value=0.00037  Score=55.63  Aligned_cols=126  Identities=10%  Similarity=0.016  Sum_probs=97.3

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH-hcCCC--hhHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM-STARK--TNDAVE  227 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~~--~~~a~~  227 (343)
                      +.+++...++...+.. +.|...|..+...|...|++++|...|++..+... -+...+..+..++ ...|+  .++|.+
T Consensus        54 ~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~  131 (198)
T PRK10370         54 TPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTRE  131 (198)
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            4567777777766543 56778899999999999999999999999887652 3567777777764 67777  489999


Q ss_pred             HHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHH
Q 046547          228 MMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYE  281 (343)
Q Consensus       228 ~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  281 (343)
                      ++++..+  .-+-+...+..+...+.+.|++++|...|+++.+. ..|+..-+.
T Consensus       132 ~l~~al~--~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~~  182 (198)
T PRK10370        132 MIDKALA--LDANEVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRTQ  182 (198)
T ss_pred             HHHHHHH--hCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHHH
Confidence            9999985  34446778888999999999999999999999875 344544443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.06  E-value=0.0038  Score=50.27  Aligned_cols=187  Identities=13%  Similarity=0.037  Sum_probs=127.0

Q ss_pred             CCChHHHHHHHHHHH---hcC-CCccHHHH-HHHHHHHHhccCchhHHHHHHHHHHhcCCccCH-hhHHHHHHHHHccCc
Q 046547          113 LHPLPLALAILQRTL---RSG-CVPVPQIR-LLLSSAWLERRCQSQSVADILLEMKSIGYHPDC-GTCNYLVSSLCAIDQ  186 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~---~~~-~~p~~~~~-~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~ll~~~~~~~~  186 (343)
                      ..+.++..+++.++.   ..| ..|+..+. -.++-+....+ ..+.|...++.+.+. + |.+ .+-..--.-+-..|+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~-~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTG-RDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhc-chHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhc
Confidence            356788888888775   334 55666653 22333334555 467889999888765 2 332 221111112344688


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIE  266 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  266 (343)
                      +++|.++++.+.+.. +.|..+|---+-..-..|+.-+|++-+.+..+  .+..|...|.-+...|...|++++|.-.++
T Consensus       102 ~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             hhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            899999999988766 55677777667677777888889988888885  788899999999999999999999999999


Q ss_pred             HHHHcCCCCchhh-HHHHHHHHH---hcccHhHHHHHHHHHhHCC
Q 046547          267 FLERKGCPIGFQG-YEVVVEGCL---ECREYILAGKTVMGMTERG  307 (343)
Q Consensus       267 ~m~~~g~~p~~~~-~~~li~~~~---~~g~~~~a~~~~~~m~~~g  307 (343)
                      ++.-  +.|.... +..+-+.+-   ...+.+.|.++|.+..+..
T Consensus       179 E~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  179 ELLL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9886  4554443 334444422   2335667888888776643

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.06  E-value=8.6e-05  Score=58.31  Aligned_cols=89  Identities=17%  Similarity=0.172  Sum_probs=48.7

Q ss_pred             ccHHHHHHHHHHHHhc----cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc----------------CcHHHHHH
Q 046547          133 PVPQIRLLLSSAWLER----RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI----------------DQLVEAAK  192 (343)
Q Consensus       133 p~~~~~~~li~~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~----------------~~~~~a~~  192 (343)
                      .|-.+|..++..|.+.    .|.++-....++.|.+-|+.-|..+|+.||+.+=+.                .+-+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            3445555555555433    233444555555666666666666666665555431                12344566


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARK  221 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~  221 (343)
                      ++++|...|+.||..|+..+++.+++.+.
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            66666666666666666666666655443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.05  E-value=0.0035  Score=51.72  Aligned_cols=189  Identities=11%  Similarity=-0.031  Sum_probs=111.0

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH--------------------
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC--------------------  171 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~--------------------  171 (343)
                      +.|+++.|.+-|+...+.+---....||..+.-| ++ ++++.|++...++.++|++-.+                    
T Consensus       156 kegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~-~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~  233 (459)
T KOG4340|consen  156 KEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SS-RQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTL  233 (459)
T ss_pred             ccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hh-hhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchH
Confidence            6788888888888877654444456778777554 43 3678888888888888875321                    


Q ss_pred             --------hhHHHHHHHHHccCcHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch
Q 046547          172 --------GTCNYLVSSLCAIDQLVEAAKVLKGMSSA-ECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ  242 (343)
Q Consensus       172 --------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~  242 (343)
                              ..+|.=...+.+.|+++.|.+.+-+|--+ ....|.+|...+.-.- ..+++.+..+-+..+.+...+  ..
T Consensus       234 ~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf--P~  310 (459)
T KOG4340|consen  234 VLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF--PP  310 (459)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC--Ch
Confidence                    12222223345667888888777777532 2445666655443221 224444555555555532122  33


Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCC-CCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGC-PIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .||..++-.||++.-++.|-+++.+--..-. -.+...|+.|=..-.-.-..++|++-++.+..
T Consensus       311 ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La~  374 (459)
T KOG4340|consen  311 ETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLAG  374 (459)
T ss_pred             HHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            5788888889999988888888775322111 12344454332222334456777776665543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.05  E-value=0.0003  Score=52.38  Aligned_cols=104  Identities=12%  Similarity=-0.001  Sum_probs=64.6

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      .....+...+...|++++|.+.|+.....+ +.+...+..+...+...|++++|..+++....  ..+.+..++..+-..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~   94 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAA--LDPDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCChHHHHHHHHH
Confidence            334455556666777777777777766543 23555666666667777777777777776653  234445556666666


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGY  280 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  280 (343)
                      +...|++++|...|+...+  ..|+...+
T Consensus        95 ~~~~g~~~~A~~~~~~al~--~~p~~~~~  121 (135)
T TIGR02552        95 LLALGEPESALKALDLAIE--ICGENPEY  121 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHH--hccccchH
Confidence            7777777777777776665  33444443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.04  E-value=0.00076  Score=60.21  Aligned_cols=219  Identities=12%  Similarity=0.045  Sum_probs=147.2

Q ss_pred             cCCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCcc-CHhhHHHHHHHHHccCcHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHP-DCGTCNYLVSSLCAIDQLVE  189 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~ll~~~~~~~~~~~  189 (343)
                      +.|++.+|.=.|+..++..  | +...|..|-....... +-..|+..+.+..+.  .| +....-.|--.|...|.-..
T Consensus       297 ~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE-~E~~ai~AL~rcl~L--dP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  297 KNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENE-NEQNAISALRRCLEL--DPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             hcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhcc-chHHHHHHHHHHHhc--CCccHHHHHHHHHHHhhhhhHHH
Confidence            5688888888888887754  4 3444555444444443 345677777777664  44 34556666667888888888


Q ss_pred             HHHHHHHhhhCCC-----CC---CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHH
Q 046547          190 AAKVLKGMSSAEC-----VP---DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKA  261 (343)
Q Consensus       190 a~~~~~~m~~~~~-----~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a  261 (343)
                      |++.++.=.....     .+   +...-+.  ..+.....+.+..++|-++....+..+|..++..|=-.|--.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            8888877644321     00   1000000  233333445566677777765456556777777777778888999999


Q ss_pred             HHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          262 VEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       262 ~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      .+.|+....  ++|+ ...||.|-..++...+.++|+..|.+.++  ++|+ +++...|.-+|...|.+++|.+.|-...
T Consensus       450 iDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  450 VDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            999998887  6675 45889999999999999999999998876  4564 3344456668899999999998887765


Q ss_pred             hh
Q 046547          340 EL  341 (343)
Q Consensus       340 ~~  341 (343)
                      .+
T Consensus       526 ~m  527 (579)
T KOG1125|consen  526 SM  527 (579)
T ss_pred             Hh
Confidence            54

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.02  E-value=0.01  Score=54.04  Aligned_cols=100  Identities=15%  Similarity=0.103  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHhcccHhHHHHHHHHHhHC----------CCC
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIG---FQGYEVVVEGCLECREYILAGKTVMGMTER----------GFI  309 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----------g~~  309 (343)
                      ..|..+.+.|-..|+++.|..+|++..+-..+--   ..+|..-...=.+..+++.|+++++.....          |-.
T Consensus       388 ~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~  467 (835)
T KOG2047|consen  388 TLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSE  467 (835)
T ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCC
Confidence            3466777777788888888888887665332211   123333334444566677777777655321          111


Q ss_pred             C-------CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          310 P-------YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       310 p-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      |       +...|...++---..|-++....+|+++.+|+
T Consensus       468 pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLr  507 (835)
T KOG2047|consen  468 PVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLR  507 (835)
T ss_pred             cHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHh
Confidence            2       34456666666666788888888888888765

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.00  E-value=0.005  Score=49.62  Aligned_cols=185  Identities=14%  Similarity=0.054  Sum_probs=134.7

Q ss_pred             CchhHHHHHHHHHHh---cC-CccCHh-hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH-hhHHHHHHHHhcCCChh
Q 046547          150 CQSQSVADILLEMKS---IG-YHPDCG-TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL-ESYSIVIGAMSTARKTN  223 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~---~g-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~  223 (343)
                      +..++..+++.++..   .| ..++.. .|.-++-+....|+.+.|..+++.+...-  |.+ .+--.-.--+-..|+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchh
Confidence            346778877777742   34 455553 46677777888999999999999988764  332 22111111234568999


Q ss_pred             HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          224 DAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       224 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      +|+++++.+.++  -+.|..+|.-=+...-..|+.-+|++-+.+..+. +..|...|.-+-..|...|++++|.-.++++
T Consensus       104 ~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  104 EAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            999999999964  3667778877777777788888888888887774 6679999999999999999999999999998


Q ss_pred             hHCCCCC-CHHHHHHHHHHHhc---cCChhHHHHHHHHHHhh
Q 046547          304 TERGFIP-YIKVRQKVVEGLAG---VGEWKLATVVRQRFAEL  341 (343)
Q Consensus       304 ~~~g~~p-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~  341 (343)
                      .-.  .| ++..+..+-+.+.-   ..+.+.|.++|++-.++
T Consensus       181 ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            754  45 44555555554433   33677788888877665

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.99  E-value=0.0039  Score=55.85  Aligned_cols=253  Identities=13%  Similarity=0.061  Sum_probs=168.6

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhc
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLER  148 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~  148 (343)
                      -..+.+.|.+..+--+++..+.-.|.  +...|--|=. .....++=..|+..+.+..+  +.|+... .-.|--.|...
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~--haeAW~~LG~-~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVSytNe  366 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ--HAEAWQKLGI-TQAENENEQNAISALRRCLE--LDPTNLEALMALAVSYTNE  366 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH--HHHHHHHhhh-HhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHHHhhh
Confidence            44455666666666666665543332  4555554442 34455666789999999888  4465543 34444456666


Q ss_pred             cCchhHHHHHHHHHHhcCCcc--------CHhhHHHHHHHHHccCcHHHHHHHHHHhh-hCCCCCCHhhHHHHHHHHhcC
Q 046547          149 RCQSQSVADILLEMKSIGYHP--------DCGTCNYLVSSLCAIDQLVEAAKVLKGMS-SAECVPDLESYSIVIGAMSTA  219 (343)
Q Consensus       149 ~~~~~~a~~~~~~m~~~g~~~--------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~  219 (343)
                      +- -..|.+.++.......+-        +...-+.  ..+.....+....++|-++. ..+..+|..+++.|--.|--.
T Consensus       367 g~-q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls  443 (579)
T KOG1125|consen  367 GL-QNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLS  443 (579)
T ss_pred             hh-HHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcc
Confidence            64 356888887775432110        0000000  22333344556667776665 445557888888888889999


Q ss_pred             CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh--hHHHHHHHHHhcccHhHHH
Q 046547          220 RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ--GYEVVVEGCLECREYILAG  297 (343)
Q Consensus       220 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~~~~a~  297 (343)
                      |++++|.+.|+....  --+-|..+||-|-..++...+.++|+.-|++..+  ++|+.+  =|| |--+|...|.+++|.
T Consensus       444 ~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyN-lgIS~mNlG~ykEA~  518 (579)
T KOG1125|consen  444 GEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYN-LGISCMNLGAYKEAV  518 (579)
T ss_pred             hHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehh-hhhhhhhhhhHHHHH
Confidence            999999999999984  3445778899999999999999999999999988  667643  355 444799999999999


Q ss_pred             HHHHHHhH---C------CCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 046547          298 KTVMGMTE---R------GFIPYIKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       298 ~~~~~m~~---~------g~~p~~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                      +.|-..+.   .      +..++...|.+|=.++.-.++.|.+.+..
T Consensus       519 ~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  519 KHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             HHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence            98876543   2      11234567888877888888887665543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.98  E-value=0.0018  Score=52.25  Aligned_cols=156  Identities=13%  Similarity=-0.057  Sum_probs=104.7

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                      ..+-..+...|+-+....+....... .+-|............+.|++..|...+++...  .-++|..+|+.+--+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            44445566667766666666554322 223444555577777777888888888877773  667777778888878888


Q ss_pred             CccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          255 NREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      .|+++.|..-|.+..+.  .| +...+|.|.-.|.-.|+.+.|..++......+- -|..+-..+.......|++++|..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~  223 (257)
T COG5010         147 LGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAED  223 (257)
T ss_pred             ccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHh
Confidence            88888887777777663  23 334566666667777778888887777766542 255666677777777778777776


Q ss_pred             HHH
Q 046547          334 VRQ  336 (343)
Q Consensus       334 ~~~  336 (343)
                      +-.
T Consensus       224 i~~  226 (257)
T COG5010         224 IAV  226 (257)
T ss_pred             hcc
Confidence            543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.97  E-value=0.0061  Score=52.30  Aligned_cols=111  Identities=22%  Similarity=0.210  Sum_probs=84.8

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVE  285 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~  285 (343)
                      ..+.+..|.-+...|+...|.++-.+.    ++ ||...|-..|.+++..++|++-.++...    .  -++.-|..++.
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~  245 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVE  245 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHH
Confidence            345566677778889888887776554    33 8999999999999999999988776442    1  23488999999


Q ss_pred             HHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          286 GCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      .|.+.|+..+|..+...+      |    +..-+..|.+.|++.+|.+.--+
T Consensus       246 ~~~~~~~~~eA~~yI~k~------~----~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKI------P----DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHCCCHHHHHHHHHhC------C----hHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999988761      1    25557788888998888776443

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.97  E-value=0.011  Score=52.17  Aligned_cols=240  Identities=13%  Similarity=0.031  Sum_probs=155.4

Q ss_pred             HHHHhCcc-CcchHHHHHHHchh---cCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCC-CCCChhhHHHHHHHHhhc
Q 046547           38 VRAAVDAK-DYQQIPELLGSFEE---ACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRP-RSRPKIAYDYLLSYTLQS  112 (343)
Q Consensus        38 i~~~~~~~-~~~~a~~~~~~m~~---~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~  112 (343)
                      |..+.+.| +.....+.|+++..   .+-.|..+...+=+- ..|+..+++-.+.+..... ..|+...+...+...+ .
T Consensus       209 i~~L~raGydp~gM~~ff~rl~~~~~~~~~~p~yl~THPlp-~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~-~  286 (484)
T COG4783         209 ITTLVRAGYDPQGMPEFFERLADQLRYGGQPPEYLLTHPLP-EERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKY-E  286 (484)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHHhcCCCCChHHhcCCCc-hhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHh-c
Confidence            45555665 55566777777662   333333332222111 1233334433333333222 4566777777775322 2


Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      ...-..+..+ ..+... -.-...-|..-+..| ..+ +.++|+..+..+... .+-|+.........+.+.++.++|.+
T Consensus       287 ~~~~~~~~~~-~~~~~~-~~~~aa~YG~A~~~~-~~~-~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e  361 (484)
T COG4783         287 ALPNQQAADL-LAKRSK-RGGLAAQYGRALQTY-LAG-QYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIE  361 (484)
T ss_pred             cccccchHHH-HHHHhC-ccchHHHHHHHHHHH-Hhc-ccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHH
Confidence            2222222222 222222 123344567777654 444 689999999998775 23445555566778999999999999


Q ss_pred             HHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          193 VLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       193 ~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .++++...  .|+ ....-.+-.++.+.|++.+|+.+++....  ..+-|+..|..|.++|...|+..++..-..+    
T Consensus       362 ~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE----  433 (484)
T COG4783         362 RLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLF--NDPEDPNGWDLLAQAYAELGNRAEALLARAE----  433 (484)
T ss_pred             HHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCCCchHHHHHHHHHHHhCchHHHHHHHHH----
Confidence            99999875  455 44455678899999999999999999984  6777889999999999999998887765543    


Q ss_pred             CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          272 GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                                    +|...|+++.|...+....+.
T Consensus       434 --------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         434 --------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             --------------HHHhCCCHHHHHHHHHHHHHh
Confidence                          456788889999888887765

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.96  E-value=0.013  Score=52.92  Aligned_cols=56  Identities=11%  Similarity=0.001  Sum_probs=31.0

Q ss_pred             HHHHHHhcccHhHHHHHHH--------HHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          283 VVEGCLECREYILAGKTVM--------GMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~--------~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      +++.....|+++.|.+++.        .+.+.+..|  .+...++.-+.+.++.+.|..++.+...
T Consensus       382 ~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~  445 (652)
T KOG2376|consen  382 RAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIK  445 (652)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHH
Confidence            3444556667777766666        444444444  3334455556666666666666655443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.94  E-value=0.00083  Score=63.66  Aligned_cols=143  Identities=11%  Similarity=0.012  Sum_probs=89.9

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ...+-.|-. .....|..++|..+++...+  +.||...........++..+.+++|...+++..+.. +-+......+-
T Consensus        86 ~~~~~~La~-i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVAR-ALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHH-HHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            444444443 56667778888888887777  457665544433333333445778888777777642 22344555566


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV  248 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  248 (343)
                      .++.+.|++++|..+|++....+ +-+..++..+-.++-..|+.++|...|+....  ...|...-|+..
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~--~~~~~~~~~~~~  228 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD--AIGDGARKLTRR  228 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hhCcchHHHHHH
Confidence            66777788888888888877632 22356677777777777888888888877764  333444444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.94  E-value=0.00076  Score=62.03  Aligned_cols=132  Identities=13%  Similarity=0.083  Sum_probs=67.3

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHH
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAV  262 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  262 (343)
                      ...+|.+|+.+++.++....  -+.-|..+...|...|+++.|.++|-+.-          .++--|..|.++|+|+.|.
T Consensus       744 ~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHHHH
Confidence            33445555555555544322  23345555556666666666666654421          2344455666666666666


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          263 EMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       263 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      ++-++..  |-......|-+-..-.-+.|++.+|.+++-..   | .|+     ..|..|-+.|..|..+++.++
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            6554432  22223334444444455566666666655322   2 232     235666677777766666553

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.93  E-value=0.00065  Score=51.34  Aligned_cols=128  Identities=10%  Similarity=0.028  Sum_probs=75.6

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch--hHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP--DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ--GMVIK  247 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~--~~~~~  247 (343)
                      ..|..++..+ ..++...+...++.+.+....-  .....-.+...+...|++++|...|+....+ ...|+.  ...-.
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            3455555555 3677777777777777643111  0122223446677778888888888887763 422221  23344


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      |...+...|++++|+..++.......  ....+...-..|.+.|++++|...|+..
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            56667777888888887765333222  2334445556677888888888777653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.92  E-value=0.0092  Score=50.51  Aligned_cols=196  Identities=11%  Similarity=0.024  Sum_probs=112.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHH-HHhccC---chhHHHHHHHHHHhcCCccCH-hhHHH
Q 046547          102 YDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSA-WLERRC---QSQSVADILLEMKSIGYHPDC-GTCNY  176 (343)
Q Consensus       102 ~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~---~~~~a~~~~~~m~~~g~~~~~-~~~~~  176 (343)
                      .|.+|  ++.+.+++.+|..+..++.-  ..|-......+..+ +.+..+   ..+-|.+.|+..-+.+..-|. .--.+
T Consensus       289 lNL~i--YyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  289 LNLII--YYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             hhhee--eecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            34444  45566888888777766532  23333333333221 222211   233455555555455444332 22344


Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHH-HHHHHHHHhC
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMV-IKVAAALRAN  255 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~~~~~  255 (343)
                      +-+++.-..++++++-.+..++..-..-|..-|| +..+++..|+..+|.++|-.+.. ..++ |..+| ..|.++|.++
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~-~~ik-n~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISG-PEIK-NKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcC-hhhh-hhHHHHHHHHHHHHhc
Confidence            5556666677888888777777665555555554 66778888888888888877764 2333 33444 5566777888


Q ss_pred             ccHHHHHHHHHHHHHcCCCCchhhHHHH-HHHHHhcccHhHHHHHHHHHhHCC
Q 046547          256 REMWKAVEMIEFLERKGCPIGFQGYEVV-VEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       256 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ++++.|++++-.+..   +.+..+.-.+ ..-|-+.+++--|.+.|+++...+
T Consensus       442 kkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  442 KKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             CCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            888888776654432   2223333223 344777777777777777665544

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.92  E-value=0.00011  Score=57.79  Aligned_cols=88  Identities=17%  Similarity=0.195  Sum_probs=59.8

Q ss_pred             ccCHhhHHHHHHHHHc-----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC----------------ChhHHH
Q 046547          168 HPDCGTCNYLVSSLCA-----IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR----------------KTNDAV  226 (343)
Q Consensus       168 ~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~  226 (343)
                      ..|..+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.||+.+=+..                +-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            4567788888888765     4678888888899999999999999999998875522                123455


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          227 EMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       227 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      +++++|+. +|+.||..|+..+++.+.+.+
T Consensus       124 ~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  124 DLLEQMEN-NGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHH-cCCCCcHHHHHHHHHHhcccc
Confidence            55555554 355555555555555554443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.91  E-value=0.01  Score=56.96  Aligned_cols=264  Identities=14%  Similarity=0.051  Sum_probs=141.4

Q ss_pred             cCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH-----hhhh--hhcccchHHHHHHHHhcCCCCCCCC
Q 046547           26 RSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF-----LSNF--PQNHRIKVIDEMLESFIPLRPRSRP   98 (343)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-----~~~~--~~~~~~~~~~~~~~~~~~~~~~~p~   98 (343)
                      +...+.+......+++...+-+.+-++++++..-   .|++++=     +.++  .-......+-+-++.+...  +.|+
T Consensus       979 ~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL---~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdny--Da~~ 1053 (1666)
T KOG0985|consen  979 PETQDPEEVSVTVKAFMTADLPNELIELLEKIVL---DNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNY--DAPD 1053 (1666)
T ss_pred             CccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhc---CCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccC--Cchh
Confidence            3344666677778888888888888888877652   2222221     1111  1111122333333333321  1122


Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                        .-+..|     ..+-+++|..+|++..     .+....+.||.-.    +..+.|.+.-+...      .+..|..+-
T Consensus      1054 --ia~iai-----~~~LyEEAF~ifkkf~-----~n~~A~~VLie~i----~~ldRA~efAe~~n------~p~vWsqla 1111 (1666)
T KOG0985|consen 1054 --IAEIAI-----ENQLYEEAFAIFKKFD-----MNVSAIQVLIENI----GSLDRAYEFAERCN------EPAVWSQLA 1111 (1666)
T ss_pred             --HHHHHh-----hhhHHHHHHHHHHHhc-----ccHHHHHHHHHHh----hhHHHHHHHHHhhC------ChHHHHHHH
Confidence              222222     3355777777777643     2344445555432    23555555544432      245677777


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      .+-.+.|.+.+|.+-|-+.      -|...|..+++...+.|.+++-.+++....++ .-.|...  +.||-+|++.++.
T Consensus      1112 kAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl 1182 (1666)
T KOG0985|consen 1112 KAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIFAYAKTNRL 1182 (1666)
T ss_pred             HHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHHHHHHhchH
Confidence            7777777777777655432      25566777888888888888888777766654 5555543  4777788887777


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC--------------------CCCCCHHHHHHH
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER--------------------GFIPYIKVRQKV  318 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------------------g~~p~~~~~~~l  318 (343)
                      .+..+++.       -||......+-+-|...|.++.|.-+|......                    .-.-+..||.-+
T Consensus      1183 ~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~V 1255 (1666)
T KOG0985|consen 1183 TELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEV 1255 (1666)
T ss_pred             HHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHH
Confidence            66554432       244444444444444444444444333311100                    001245566666


Q ss_pred             HHHHhccCChhHHH
Q 046547          319 VEGLAGVGEWKLAT  332 (343)
Q Consensus       319 i~~~~~~g~~~~a~  332 (343)
                      -.+|...+.+.-|.
T Consensus      1256 cfaCvd~~EFrlAQ 1269 (1666)
T KOG0985|consen 1256 CFACVDKEEFRLAQ 1269 (1666)
T ss_pred             HHHHhchhhhhHHH
Confidence            66666666665543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.88  E-value=0.012  Score=56.86  Aligned_cols=242  Identities=8%  Similarity=0.027  Sum_probs=129.3

Q ss_pred             hhhhhccccCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH--h--hhhhhcccchHHHHHHHHhcCCC
Q 046547           18 CLLQFSSLRSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF--L--SNFPQNHRIKVIDEMLESFIPLR   93 (343)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~   93 (343)
                      +.+..-..-+......+..++..+-..+++++|.++.+...+.  .|+...+  .  .++...++.+.+.-+        
T Consensus        18 ~~r~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--------   87 (906)
T PRK14720         18 WTRADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--------   87 (906)
T ss_pred             hhhcccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--------
Confidence            3333333444557788999999999999999999999955543  5555443  1  122222221111111        


Q ss_pred             CCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhh
Q 046547           94 PRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGT  173 (343)
Q Consensus        94 ~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  173 (343)
                                .++. ......++..+..+.+.|.+.+  -+...+-.+..+|-+. ++.+++..++++..+.. +-|+.+
T Consensus        88 ----------~~l~-~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~-g~~~ka~~~yer~L~~D-~~n~~a  152 (906)
T PRK14720         88 ----------NLID-SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKL-NENKKLKGVWERLVKAD-RDNPEI  152 (906)
T ss_pred             ----------hhhh-hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHc-CChHHHHHHHHHHHhcC-cccHHH
Confidence                      2332 3333344444444444444432  2222344444444343 34666777777666654 445566


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH-----hcCCChhHHHHHHHHHHhcCCCCCchhHHHHH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM-----STARKTNDAVEMMKEMVLNMGLMPRQGMVIKV  248 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-----~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  248 (343)
                      .|.+--.|... ++++|.+++.+....-+  +..-|+.+...+     ....+++.-.++.+.+....|..--..++-.+
T Consensus       153 LNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l  229 (906)
T PRK14720        153 VKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDL  229 (906)
T ss_pred             HHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHH
Confidence            66666666666 66666666665544311  111111111110     11123333444444444322333344566667


Q ss_pred             HHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 046547          249 AAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL  288 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  288 (343)
                      -..|-..++|+++..+++...+..-. |.....-++..|.
T Consensus       230 ~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        230 YEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            78888889999999999999885322 4445666666665

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=97.86  E-value=0.0029  Score=58.20  Aligned_cols=210  Identities=14%  Similarity=0.011  Sum_probs=149.4

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ...|.-+|- ||+..|+..+|..+..+-.+  -+||+..|..+....-.. .-+++|.++.+....+       .-..+-
T Consensus       424 lemw~~vi~-CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~-s~yEkawElsn~~sar-------A~r~~~  492 (777)
T KOG1128|consen  424 LEMWDPVIL-CYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDP-SLYEKAWELSNYISAR-------AQRSLA  492 (777)
T ss_pred             HHHHHHHHH-HHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccCh-HHHHHHHHHhhhhhHH-------HHHhhc
Confidence            356777774 88888999999999888777  358888888887764433 3477888887765332       112222


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ......++++++.+.|+.-.+.. +.-..+|-..-.+..+.++++.|.+.|.....  +-+-+...||.+-.+|.+.++-
T Consensus       493 ~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k  569 (777)
T KOG1128|consen  493 LLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKK  569 (777)
T ss_pred             cccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhh
Confidence            22334789999999998766543 22456777777788889999999999999873  4444567799999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC-CCCHHHHHHHHHHHh
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGF-IPYIKVRQKVVEGLA  323 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~  323 (343)
                      .+|...+.+..+-+. -+-..|..-+....+.|.+++|.+.+.++.+... .-|..+...++....
T Consensus       570 ~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  570 KRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             HHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHH
Confidence            999999999887663 3344565666677899999999999998765411 124444444444433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.86  E-value=0.00037  Score=47.55  Aligned_cols=92  Identities=13%  Similarity=0.011  Sum_probs=43.4

Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccC
Q 046547          247 KVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVG  326 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  326 (343)
                      .+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.++...+.. +.+..++..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            34444444555555555555544321 1112333444444555555555555555544432 122234445555555555


Q ss_pred             ChhHHHHHHHHHHh
Q 046547          327 EWKLATVVRQRFAE  340 (343)
Q Consensus       327 ~~~~a~~~~~~m~~  340 (343)
                      ++++|...+++..+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            55555555555443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.83  E-value=0.004  Score=57.55  Aligned_cols=45  Identities=9%  Similarity=-0.011  Sum_probs=22.9

Q ss_pred             HHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHH
Q 046547          281 EVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       281 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      ..+-.-|-..|+...|..-|-+..         -|..-++.|-.++.|++|.++
T Consensus       886 ~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  886 KHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             HHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHH
Confidence            334444555555555555443321         244455556666666666554

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.79  E-value=0.0056  Score=53.90  Aligned_cols=119  Identities=9%  Similarity=-0.051  Sum_probs=74.9

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcccHh
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECREYI  294 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~  294 (343)
                      +...|+.++|+..++.+..  ..+-|..........+.+.++.++|.+.++.+..  ..|+.. ..-.+-.+|.+.|++.
T Consensus       316 ~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHhcCChH
Confidence            3455677777777777663  4444555556666667777777777777777765  345532 2334455677777777


Q ss_pred             HHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          295 LAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      +|.++++...... +-|+..|..|-++|...|+..+|..-..+.-
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            7777777665543 4466677777777777776666666555443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.74  E-value=0.00078  Score=56.97  Aligned_cols=145  Identities=10%  Similarity=0.013  Sum_probs=104.0

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      .+|..+++..-+.+..+.|.++|.+..+.+ +........+++. +...++.+.|.++|+...+  .+..+...|...+.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk--~f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLK--KFPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHH--HHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHH
Confidence            468888899999999999999999998653 3344444444443 3335677779999999985  56667788889999


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCch---hhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHH
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGF---QGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGL  322 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  322 (343)
                      .+.+.++.+.|..+|++.... +.++.   ..|...++.=.+.|+.+.+.++.+++.+.  .|+......+++-|
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            999999999999999998865 33333   48888888888899999999999888764  34444444444444

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.73  E-value=0.049  Score=52.55  Aligned_cols=233  Identities=10%  Similarity=0.088  Sum_probs=145.9

Q ss_pred             chHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHHhccCchhHHH
Q 046547           79 IKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSG--CVPVPQIRLLLSSAWLERRCQSQSVA  156 (343)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~~a~  156 (343)
                      ..+.+++++....-   ..|....+..+. ++...+-..+-++++++..-..  +.-+...-|.||-.-.+.  +...+.
T Consensus       967 RqLiDqVv~tal~E---~~dPe~vS~tVk-AfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika--d~trVm 1040 (1666)
T KOG0985|consen  967 RQLIDQVVQTALPE---TQDPEEVSVTVK-AFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA--DRTRVM 1040 (1666)
T ss_pred             HHHHHHHHHhcCCc---cCChHHHHHHHH-HHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc--ChHHHH
Confidence            45566666665432   224455555665 5666688888899998875321  112222335555444454  345677


Q ss_pred             HHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCC---------------------CCCCHhhHHHHHHH
Q 046547          157 DILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAE---------------------CVPDLESYSIVIGA  215 (343)
Q Consensus       157 ~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---------------------~~~~~~~~~~ll~~  215 (343)
                      ++.+++...+ .|+      +-..+..++-+++|..+|++..-.+                     -.-....|+.+..+
T Consensus      1041 ~YI~rLdnyD-a~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakA 1113 (1666)
T KOG0985|consen 1041 EYINRLDNYD-APD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKA 1113 (1666)
T ss_pred             HHHHHhccCC-chh------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHH
Confidence            7777775432 122      1122333344445555444332110                     01124567777778


Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      -...|.+.+|++-|-+.       -|+..|.-+++...+.|.+++-.+.+...+++.-.|...+  .||-+|++.++..+
T Consensus      1114 QL~~~~v~dAieSyika-------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~e 1184 (1666)
T KOG0985|consen 1114 QLQGGLVKDAIESYIKA-------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTE 1184 (1666)
T ss_pred             HHhcCchHHHHHHHHhc-------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHH
Confidence            77788877777655432       2667899999999999999999999988888777776554  78999999999888


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .++++.       -||......+.+-|...|.++.|.-+|..+..
T Consensus      1185 lE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN 1222 (1666)
T KOG0985|consen 1185 LEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSN 1222 (1666)
T ss_pred             HHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhh
Confidence            777653       36666666677777777777777666655443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.73  E-value=0.026  Score=53.39  Aligned_cols=191  Identities=11%  Similarity=0.007  Sum_probs=80.9

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      +.|..++|..+++.....+.. |..|..++-..|-.. ++.++|..+|+...+.  .|+......+..+|.+.+.+.+-.
T Consensus        55 r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~-~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQ  130 (932)
T KOG2053|consen   55 RLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDL-GKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQ  130 (932)
T ss_pred             HhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHH-hhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666555555443323 445544444443333 3456666666655543  444444445555555555544433


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCC----------hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHH
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARK----------TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKA  261 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a  261 (343)
                      +.=-+|.+. .+-+.+.|=++++.....-.          ..-|.+.++.+.++.|-.-+..-.-.-.-.+-..|++++|
T Consensus       131 kaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~ea  209 (932)
T KOG2053|consen  131 KAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEA  209 (932)
T ss_pred             HHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHH
Confidence            332222221 11122222222222222110          1123444444444322111111111122223345556666


Q ss_pred             HHHHH-HHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          262 VEMIE-FLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       262 ~~~~~-~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      .+++. ...+.-...+...-+.-+..+...+++.+..++-.++..+|
T Consensus       210 l~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  210 LEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            66653 22222222222333344455555666666666666665555

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.72  E-value=0.0014  Score=47.34  Aligned_cols=100  Identities=13%  Similarity=-0.006  Sum_probs=71.2

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCC-CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC--CCCchhhHHHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGL-MPRQGMVIKVAAALRANREMWKAVEMIEFLERKG--CPIGFQGYEVVV  284 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~li  284 (343)
                      ++-.+...+.+.|++++|.+.|..+.....- ......+..+..++.+.|+++.|...++.+....  .......+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4556777788888999999999888753111 1113456668888888899999999998887632  111234566666


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCC
Q 046547          285 EGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ..+.+.|+.++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            77888888899999888888764

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.72  E-value=0.032  Score=49.85  Aligned_cols=88  Identities=14%  Similarity=0.087  Sum_probs=51.9

Q ss_pred             HHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCC-hhhHHHHHHHHhhcCCChH
Q 046547           39 RAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRP-KIAYDYLLSYTLQSLHPLP  117 (343)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~  117 (343)
                      .+....|+++.|...|-+..... .++...|......+...+.+.+.++...+.....|+ ...|+-.=. ++...|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Ga-a~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGA-ALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHH-HHHhcccHH
Confidence            45567788888888887655432 334444543334444445566666555443344445 345666554 444558888


Q ss_pred             HHHHHHHHHHh
Q 046547          118 LALAILQRTLR  128 (343)
Q Consensus       118 ~a~~~~~~m~~  128 (343)
                      +|+..|.+-++
T Consensus        88 eA~~ay~~GL~   98 (539)
T KOG0548|consen   88 EAILAYSEGLE   98 (539)
T ss_pred             HHHHHHHHHhh
Confidence            88888877655

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.69  E-value=0.0007  Score=49.40  Aligned_cols=84  Identities=8%  Similarity=0.016  Sum_probs=59.3

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHh---------------hhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGM---------------SSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m---------------~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                      ..++..+|.++++.|+++...++++..               ......|+..+..+++.+|+..|++..|+++.+...++
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            455666666666666666666665443               12235677888888888888888888888888888877


Q ss_pred             CCCCCchhHHHHHHHHHHh
Q 046547          236 MGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       236 ~~~~p~~~~~~~li~~~~~  254 (343)
                      ++++.+..+|..|++-...
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHH
Confidence            7877777888888775443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.69  E-value=0.00014  Score=49.25  Aligned_cols=81  Identities=10%  Similarity=-0.021  Sum_probs=38.1

Q ss_pred             CccHHHHHHHHHHHHHcCC-CCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          255 NREMWKAVEMIEFLERKGC-PIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      .|+++.|..+++++.+..- .|+...+-.+..+|.+.|++++|..++++ .+.+. .+....-.+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3555666666666554321 11222233345556666666666666655 11111 122333344555666666666666


Q ss_pred             HHHH
Q 046547          334 VRQR  337 (343)
Q Consensus       334 ~~~~  337 (343)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.64  E-value=0.003  Score=45.54  Aligned_cols=100  Identities=10%  Similarity=0.010  Sum_probs=71.2

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCC--CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCCchhHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC--VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMG-LMPRQGMVIKV  248 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~l  248 (343)
                      .++-.+...+.+.|++++|.+.|+.+.+...  ......+..+..++...|+++.|...|+.+..... .+.....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3455666777888888888888888876431  11134566678888888888888888888875311 11124556777


Q ss_pred             HHHHHhCccHHHHHHHHHHHHHc
Q 046547          249 AAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      ..++.+.|+.++|...++++.+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            77888888888888888888775

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.63  E-value=0.027  Score=50.43  Aligned_cols=151  Identities=10%  Similarity=-0.000  Sum_probs=116.6

Q ss_pred             hhHHHHHHHHHHhc-CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          152 SQSVADILLEMKSI-GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       152 ~~~a~~~~~~m~~~-g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                      .+.....++++... .++|+ -+|-.+|+.-.+..-++.|..+|.+..+.+..+ ...++++++.-+|. ++..-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            44555566666443 24444 567778888888888999999999999888777 78888999887765 6678999999


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch--hhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          230 KEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF--QGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +--..+  ..-++.--...+..+...++-..+..+|++....++.|+.  ..|..+|+.=..-|+...+.++-+++...
T Consensus       425 eLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  425 ELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            987753  3334444567788888999999999999999988776654  58999999988999999988888776543

>PLN02789 farnesyltranstransferase

Probab=97.60  E-value=0.038  Score=47.59  Aligned_cols=186  Identities=9%  Similarity=-0.057  Sum_probs=124.3

Q ss_pred             ccCchhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCC--hh
Q 046547          148 RRCQSQSVADILLEMKSIGYHPD-CGTCNYLVSSLCAID-QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARK--TN  223 (343)
Q Consensus       148 ~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~--~~  223 (343)
                      .++..++|+.+..+..+.  .|+ ..+|+.--..+...| ++++++..++++.+...+ +..+|+.--..+.+.|+  .+
T Consensus        49 ~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         49 SDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             cCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhH
Confidence            344577888888888764  343 344554445555666 689999999999876532 34456544444445555  36


Q ss_pred             HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---ccH----hHH
Q 046547          224 DAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC---REY----ILA  296 (343)
Q Consensus       224 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~----~~a  296 (343)
                      +++.+++.+.+  .-+-+..+|+-.-.++.+.|+++++++.++++.+.... |...|+.....+.+.   |..    ++.
T Consensus       126 ~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        126 KELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHH
Confidence            78889988885  33457788888888888999999999999999987654 555666555444443   222    456


Q ss_pred             HHHHHHHhHCCCCCCHHHHHHHHHHHhcc----CChhHHHHHHHHHHh
Q 046547          297 GKTVMGMTERGFIPYIKVRQKVVEGLAGV----GEWKLATVVRQRFAE  340 (343)
Q Consensus       297 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~  340 (343)
                      +++..+++... +-|...|+.+...+...    ++..+|.+++.+..+
T Consensus       203 l~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        203 LKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             HHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            77776666553 23667777777777663    445668888777554

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.59  E-value=0.0016  Score=44.21  Aligned_cols=91  Identities=13%  Similarity=-0.049  Sum_probs=45.2

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      .+...+...|++++|...+++...  -.+.+...+..+...+...+++++|.+.++...+.. +.+..++..+...+...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            344444555555555555555543  122223444455555555555555555555554432 11223444555555555


Q ss_pred             ccHhHHHHHHHHHh
Q 046547          291 REYILAGKTVMGMT  304 (343)
Q Consensus       291 g~~~~a~~~~~~m~  304 (343)
                      |+++.|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            66666655555543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.58  E-value=0.014  Score=54.83  Aligned_cols=164  Identities=13%  Similarity=-0.019  Sum_probs=101.5

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      ..|.+++|+.+|.+-++..          |++-+.+..|.+++|.++-+.=-+-.+   ..||...-..+-..++.+.|+
T Consensus       812 eLgMlEeA~~lYr~ckR~D----------LlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYD----------LLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHH----------HHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHH
Confidence            4577888888888776632          233333444567777766554222111   234544445555566677776


Q ss_pred             HHHHHhhhCC-------------------CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          192 KVLKGMSSAE-------------------CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       192 ~~~~~m~~~~-------------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      +.|++-....                   -..|...|.-.-..+-..|+.|.|+.+|...+.          |-++++..
T Consensus       879 eyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------~fs~VrI~  948 (1416)
T KOG3617|consen  879 EYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------YFSMVRIK  948 (1416)
T ss_pred             HHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------hhhheeeE
Confidence            6665432210                   012334455555566677888888888877652          66778888


Q ss_pred             HhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          253 RANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      |-.|+.++|-++-++-.      |....=.|.+.|-..|++.+|..+|.+..
T Consensus       949 C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             eeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            88899998888877432      33344456778888888888888887653

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.55  E-value=0.075  Score=50.51  Aligned_cols=223  Identities=13%  Similarity=0.142  Sum_probs=131.3

Q ss_pred             HHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCC
Q 046547           40 AAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHP  115 (343)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~  115 (343)
                      .....+++..|+....++...  .|+....    ...+.+.|+.+.+-..++......+.  |..+...+-. +|...++
T Consensus        18 d~ld~~qfkkal~~~~kllkk--~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~--D~~tLq~l~~-~y~d~~~   92 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKK--HPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT--DDLTLQFLQN-VYRDLGK   92 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC--chHHHHHHHH-HHHHHhh
Confidence            344567888888888877754  4555433    34556777777777777665443333  6677777774 8888889


Q ss_pred             hHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC-c--------
Q 046547          116 LPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID-Q--------  186 (343)
Q Consensus       116 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~-~--------  186 (343)
                      .++|..+|+...+.  .|+..-...+..+|.+.. .+.+-.+.--+|-+ .++-++..+=++++...+.- .        
T Consensus        93 ~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~-~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i  168 (932)
T KOG2053|consen   93 LDEAVHLYERANQK--YPSEELLYHLFMAYVREK-SYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPI  168 (932)
T ss_pred             hhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccch
Confidence            99999999988764  466555555555666654 34332222222222 12333444444555444321 1        


Q ss_pred             -HHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHH-HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHH
Q 046547          187 -LVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMK-EMVLNMGLMPRQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       187 -~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~-~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                       ..-|.+.++.+.+.+.+.. ..-.-.-+..+...|++++|.+++. ...++ -...+...-+--+..+...++|.+..+
T Consensus       169 ~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~-l~~~~~~l~~~~~dllk~l~~w~~l~~  247 (932)
T KOG2053|consen  169 LLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEK-LTSANLYLENKKLDLLKLLNRWQELFE  247 (932)
T ss_pred             hHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHhcChHHHHH
Confidence             2335566666665441211 1112222344556778889988884 33332 333344444566777788888888888


Q ss_pred             HHHHHHHcC
Q 046547          264 MIEFLERKG  272 (343)
Q Consensus       264 ~~~~m~~~g  272 (343)
                      +-.++..+|
T Consensus       248 l~~~Ll~k~  256 (932)
T KOG2053|consen  248 LSSRLLEKG  256 (932)
T ss_pred             HHHHHHHhC
Confidence            888888766

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.54  E-value=0.0033  Score=53.22  Aligned_cols=145  Identities=7%  Similarity=-0.026  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHhcC-CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 046547          136 QIRLLLSSAWLERRCQSQSVADILLEMKSIG-YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIG  214 (343)
Q Consensus       136 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  214 (343)
                      .+|..++...-+.+| .+.|..+|.+..+.+ ...+.....++|+.+ ..++.+.|.++|+...+. ...+...+..-++
T Consensus         2 ~v~i~~m~~~~r~~g-~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEG-IEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHH
Confidence            467888887666654 899999999998543 223333333444333 357777899999998765 4556777888889


Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCch---hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQ---GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGC  287 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  287 (343)
                      -+...|+.+.|..+|+....  .+.++.   ..|...++.=.+.|+++.+.++.+++.+  ..|+......+++-|
T Consensus        79 ~l~~~~d~~~aR~lfer~i~--~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~--~~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAIS--SLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE--LFPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCC--TSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH--HTTTS-HHHHHHCCT
T ss_pred             HHHHhCcHHHHHHHHHHHHH--hcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HhhhhhHHHHHHHHh
Confidence            99999999999999999985  444443   5899999999999999999999999987  345555555555444

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.53  E-value=0.00026  Score=47.86  Aligned_cols=81  Identities=11%  Similarity=0.070  Sum_probs=45.8

Q ss_pred             CCChhHHHHHHHHHHhcCCC-CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHH
Q 046547          219 ARKTNDAVEMMKEMVLNMGL-MPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAG  297 (343)
Q Consensus       219 ~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  297 (343)
                      .|+++.|+.+++.+.+. .- .|+...+-.+..+|.+.|++++|..+++. .+.+.. +....-.+..+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~-~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLEL-DPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHH-HCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHH-CCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHH
Confidence            46677777777777753 21 12344444467777777777777777766 221111 1122223455677777777777


Q ss_pred             HHHHH
Q 046547          298 KTVMG  302 (343)
Q Consensus       298 ~~~~~  302 (343)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            77664

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.45  E-value=0.0045  Score=48.05  Aligned_cols=64  Identities=13%  Similarity=-0.115  Sum_probs=36.8

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP--DLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      ...|..+...+...|++++|...|++.......|  ...++..+-..+...|++++|+..++....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555556666666666666665432221  123556666666666666666666666653

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.42  E-value=0.033  Score=49.91  Aligned_cols=149  Identities=9%  Similarity=-0.013  Sum_probs=113.5

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      .+.....+++.+..-..--+.+|...++.--+..-+..|..+|.+..+. +..+ ++.+++++|..+|. ++..-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            4556666666665433223456778888888888889999999999975 7777 88889999998875 5678899999


Q ss_pred             HHHHHcCCCCchhhH-HHHHHHHHhcccHhHHHHHHHHHhHCCCCCC--HHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          266 EFLERKGCPIGFQGY-EVVVEGCLECREYILAGKTVMGMTERGFIPY--IKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       266 ~~m~~~g~~p~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      +-=.++  -+|...| ...+..+...|+-..|..+|++....++.||  ...|..+++-=..-|+...+.++-+++.
T Consensus       425 eLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  425 ELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            863332  2333333 4567778889999999999999998877765  5689999998889999999999887764

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.42  E-value=0.099  Score=47.96  Aligned_cols=66  Identities=12%  Similarity=0.007  Sum_probs=48.4

Q ss_pred             CchhhHH--HHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          275 IGFQGYE--VVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       275 p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      |+...|+  .++..|-+.|+++.|..+++...+.  .|+ +..|..=.+.+...|+.++|..++++..+++
T Consensus       367 PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            4444333  4566788899999999999887754  454 3345444577888999999999999888775

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.39  E-value=0.0013  Score=42.46  Aligned_cols=66  Identities=9%  Similarity=-0.019  Sum_probs=49.2

Q ss_pred             hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccC-ChhHHHHHHHHHHhhcC
Q 046547          277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVG-EWKLATVVRQRFAELKS  343 (343)
Q Consensus       277 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~  343 (343)
                      ..+|..+-..+...|++++|+..|++..+.. +-+...|..+..+|...| ++++|++.+++..++.|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            4566667777788888888888888877764 235667777777888888 68888888888777654

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.37  E-value=0.014  Score=45.47  Aligned_cols=88  Identities=11%  Similarity=-0.084  Sum_probs=52.4

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD--LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVA  249 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  249 (343)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++...  -.+-+...+..+.
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg  113 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE--LNPKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHHHH
Confidence            3455555666667777777777777665432221  34566667777777777777777777664  2222344455555


Q ss_pred             HHHHhCccHHHH
Q 046547          250 AALRANREMWKA  261 (343)
Q Consensus       250 ~~~~~~~~~~~a  261 (343)
                      ..+...|+...+
T Consensus       114 ~~~~~~g~~~~a  125 (172)
T PRK02603        114 VIYHKRGEKAEE  125 (172)
T ss_pred             HHHHHcCChHhH
Confidence            566665554433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.36  E-value=0.02  Score=48.53  Aligned_cols=19  Identities=5%  Similarity=0.011  Sum_probs=12.7

Q ss_pred             HhhcCCChHHHHHHHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTL  127 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~  127 (343)
                      .+...|++++|...|.+..
T Consensus        44 ~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   44 CFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHTT-CHHHHHHHHHHH
T ss_pred             HHHHHhccchhHHHHHHHH
Confidence            5666677787777777764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.35  E-value=0.0036  Score=54.92  Aligned_cols=101  Identities=13%  Similarity=-0.041  Sum_probs=80.1

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcc
Q 046547          213 IGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECR  291 (343)
Q Consensus       213 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g  291 (343)
                      ...+...|++++|++.|++..+  --+-+...|..+..+|.+.|++++|...++...+.  .| +...|..+-.+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            4566778999999999999985  33446778888899999999999999999999874  34 4557888888899999


Q ss_pred             cHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          292 EYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      ++++|...|++....+  |+......++
T Consensus        85 ~~~eA~~~~~~al~l~--P~~~~~~~~l  110 (356)
T PLN03088         85 EYQTAKAALEKGASLA--PGDSRFTKLI  110 (356)
T ss_pred             CHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            9999999999988754  5444444333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.32  E-value=0.0017  Score=41.35  Aligned_cols=57  Identities=14%  Similarity=-0.009  Sum_probs=34.0

Q ss_pred             HHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          285 EGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..+.+.|++++|.+.|++..+.. +-+...+..+..++...|++++|...|++..+..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34556666666666666666554 2245556666666666666666666666665544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.31  E-value=0.0071  Score=46.91  Aligned_cols=113  Identities=14%  Similarity=0.011  Sum_probs=77.2

Q ss_pred             HHHHHHHHHhh-hCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC--chhHHHHHHHHHHhCccHHHHHHH
Q 046547          188 VEAAKVLKGMS-SAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP--RQGMVIKVAAALRANREMWKAVEM  264 (343)
Q Consensus       188 ~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~  264 (343)
                      ..+...+..+. ..+..-....|..+...+...|++++|+..|+..... ...|  ...++..+-..+...|+.++|.+.
T Consensus        16 ~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l-~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         16 TIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRL-EIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             ccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-cccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            33444444442 3333333556777888888899999999999998752 2222  235788888999999999999999


Q ss_pred             HHHHHHcCCCCc-hhhHHHHHHHHH-------hcccHhHHHHHHHHH
Q 046547          265 IEFLERKGCPIG-FQGYEVVVEGCL-------ECREYILAGKTVMGM  303 (343)
Q Consensus       265 ~~~m~~~g~~p~-~~~~~~li~~~~-------~~g~~~~a~~~~~~m  303 (343)
                      ++.....  .|+ ..++..+...+.       ..|+++.|...+++.
T Consensus        95 ~~~Al~~--~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033         95 YFQALER--NPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHh--CcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            9998864  333 345555555566       778888776666554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.29  E-value=0.011  Score=46.05  Aligned_cols=89  Identities=12%  Similarity=-0.068  Sum_probs=58.0

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEV  282 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~  282 (343)
                      ...|..+...+...|++++|...|++.... ...+.  ...+..+...+.+.|++++|...+.+..+.  .| +...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            345666777777888888888888887742 22221  356777777788888888888888877763  33 3344555


Q ss_pred             HHHHHHhcccHhHHH
Q 046547          283 VVEGCLECREYILAG  297 (343)
Q Consensus       283 li~~~~~~g~~~~a~  297 (343)
                      +...|...|+...+.
T Consensus       112 lg~~~~~~g~~~~a~  126 (172)
T PRK02603        112 IAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHcCChHhHh
Confidence            555666666544433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.25  E-value=0.028  Score=51.77  Aligned_cols=60  Identities=10%  Similarity=-0.056  Sum_probs=28.3

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      ..|.++.-.+...|++++|...+++..+.+  |+...|..+-..+...|+.++|.+.+++..
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~  480 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAF  480 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444333344455555555555544422  344444444444555555555555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.23  E-value=0.0094  Score=52.34  Aligned_cols=81  Identities=7%  Similarity=-0.025  Sum_probs=36.9

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ++++|.+.|++..+.. +-+...|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|+..|+
T Consensus        17 ~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~~~~   94 (356)
T PLN03088         17 DFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKAALE   94 (356)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            3455555555554432 1223344444444455555555555555544432 1123344444444555555555555555


Q ss_pred             HHH
Q 046547          231 EMV  233 (343)
Q Consensus       231 ~m~  233 (343)
                      ...
T Consensus        95 ~al   97 (356)
T PLN03088         95 KGA   97 (356)
T ss_pred             HHH
Confidence            544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.22  E-value=0.024  Score=52.23  Aligned_cols=84  Identities=10%  Similarity=-0.092  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 046547          258 MWKAVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQ  336 (343)
Q Consensus       258 ~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  336 (343)
                      +..+.+........ ....+...|.++--.....|++++|...+++..+..  |+...|..+...+...|+.++|.+.++
T Consensus       400 l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~  477 (517)
T PRK10153        400 LAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYS  477 (517)
T ss_pred             HHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34444444443332 122344566666555556788888888888877655  677778888888888888888888888


Q ss_pred             HHHhhcC
Q 046547          337 RFAELKS  343 (343)
Q Consensus       337 ~m~~~~~  343 (343)
                      +..+++|
T Consensus       478 ~A~~L~P  484 (517)
T PRK10153        478 TAFNLRP  484 (517)
T ss_pred             HHHhcCC
Confidence            8776653

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.17  E-value=0.14  Score=44.68  Aligned_cols=166  Identities=10%  Similarity=0.023  Sum_probs=88.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCC---CCCCHhhHHHHHHHHhc---CCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAE---CVPDLESYSIVIGAMST---ARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      ...++-+|....+++...++++.+...-   +.-....--....++.+   .|+.++|++++..+..+ .-.++..+|..
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~gL  222 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHHH
Confidence            3345556777778888888888776641   11111111123344555   77778888887775542 55566667766


Q ss_pred             HHHHHHh---------CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc-Hh---HHHHHH---HH-HhHCCC--
Q 046547          248 VAAALRA---------NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE-YI---LAGKTV---MG-MTERGF--  308 (343)
Q Consensus       248 li~~~~~---------~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~---~a~~~~---~~-m~~~g~--  308 (343)
                      +-..|-.         ....++|...|.+--+  +.||.++=-.+...+.-.|. .+   +..++-   .. +.++|.  
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            6555432         1245666666665433  33443321111111222221 11   122221   11 222332  


Q ss_pred             -CCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          309 -IPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       309 -~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                       ..|-..+.+++.++.-.|+.+.|.+..++|.+++
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence             2355666777888888888888888888877765

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.10  E-value=0.0056  Score=50.15  Aligned_cols=104  Identities=16%  Similarity=0.146  Sum_probs=75.2

Q ss_pred             CCCCCChhhHHHHHHHHhh-----cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhc---------------cCch
Q 046547           93 RPRSRPKIAYDYLLSYTLQ-----SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLER---------------RCQS  152 (343)
Q Consensus        93 ~~~~p~~~~~~~li~~~~~-----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---------------~~~~  152 (343)
                      .|...|..+|-+.+. .+.     +.+.++-....+..|.+.|+.-|..+|+.||+.+=+.               .++-
T Consensus        61 ~~~~RdK~sfl~~V~-~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ  139 (406)
T KOG3941|consen   61 EPEKRDKDSFLAAVA-TFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQ  139 (406)
T ss_pred             CcccccHHHHHHHHH-HHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhh
Confidence            444556667766664 332     3466788888899999999999999999998875332               1222


Q ss_pred             hHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc-HHHHHHHHHHh
Q 046547          153 QSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ-LVEAAKVLKGM  197 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m  197 (343)
                      +-+.+++++|..+|+.||..+-..|++++++.+- ..+...+.-.|
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            4577899999999999999999999999988774 33444444444

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.09  E-value=0.0083  Score=43.80  Aligned_cols=97  Identities=11%  Similarity=-0.023  Sum_probs=61.1

Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      |..++.++|.++++.|+.+....+.+..   .|+.++...-.         +.         .-......|+..+..+++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~~~---------~~---------~~~~spl~Pt~~lL~AIv   59 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKKKE---------GD---------YPPSSPLYPTSRLLIAIV   59 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCcccc---------Cc---------cCCCCCCCCCHHHHHHHH
Confidence            4567888888888888888888877653   34443321100         00         111334667777777777


Q ss_pred             HHHHhcccHhHHHHHHHHHhHC-CCCCCHHHHHHHHHHH
Q 046547          285 EGCLECREYILAGKTVMGMTER-GFIPYIKVRQKVVEGL  322 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~  322 (343)
                      .+|+..|++..|+++.+...+. ++..+..+|..|++-.
T Consensus        60 ~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   60 HSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            7777777777777777776554 6665667777776643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.07  E-value=0.014  Score=43.98  Aligned_cols=58  Identities=12%  Similarity=0.090  Sum_probs=26.2

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      ...++..+...|++++|..+...+.... +.+...|..+|.+|...|+..+|.+.|+++
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3344444445555555555555544421 123334555555555555555555555443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.06  E-value=0.017  Score=49.00  Aligned_cols=118  Identities=12%  Similarity=0.063  Sum_probs=51.4

Q ss_pred             CchhHHHHHHHHHHhc----CCccC-HhhHHHHHHHHHccCcHHHHHHHHHHhhh----CCCCCC--HhhHHHHHHHHhc
Q 046547          150 CQSQSVADILLEMKSI----GYHPD-CGTCNYLVSSLCAIDQLVEAAKVLKGMSS----AECVPD--LESYSIVIGAMST  218 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~----g~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~~--~~~~~~ll~~~~~  218 (343)
                      +++++|.+.|....+.    +-+.+ ...|......|.+ .++++|...+++...    .| .|+  ...+..+...|-.
T Consensus        49 ~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~  126 (282)
T PF14938_consen   49 KDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEE  126 (282)
T ss_dssp             T-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCC
T ss_pred             hccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHH
Confidence            4566666666555321    11111 1223333333333 366666666555432    22 122  2344555555555


Q ss_pred             C-CChhHHHHHHHHHHh---cCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          219 A-RKTNDAVEMMKEMVL---NMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       219 ~-~~~~~a~~~~~~m~~---~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      . |++++|++.|++..+   ..+ .+.  ...+..+...+.+.|++++|.++|++...
T Consensus       127 ~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  127 QLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             TT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5 566666666555442   111 111  22344445555556666666666665544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.04  E-value=0.14  Score=42.34  Aligned_cols=181  Identities=11%  Similarity=0.014  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhH---HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 046547          136 QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTC---NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIV  212 (343)
Q Consensus       136 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  212 (343)
                      ..|..-... ...+ ++++|.+.|+++...-..+ ....   -.+..++.+.+++++|...+++..+....-...-|...
T Consensus        34 ~~Y~~A~~~-~~~g-~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         34 EIYATAQQK-LQDG-NWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHH-HHCC-CHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            344555443 4544 6888999998887753222 2221   24556778888999999999888876432223344444


Q ss_pred             HHHHhc--CC---------------C---hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          213 IGAMST--AR---------------K---TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       213 l~~~~~--~~---------------~---~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      +.+.+.  .+               +   ..+|+..|+++.                +-|=...-..+|...+..+.+. 
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li----------------~~yP~S~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV----------------RGYPNSQYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH----------------HHCcCChhHHHHHHHHHHHHHH-
Confidence            544432  11               1   122334444444                3333333355555444444321 


Q ss_pred             CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC--CCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          273 CPIGFQGYEVVVEGCLECREYILAGKTVMGMTER--GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       273 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                        .-..-+ .+...|.+.|.+..|..-++.+.+.  +-+........++.+|...|..++|..+...+.
T Consensus       174 --la~~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 --LAKYEL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             --HHHHHH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              000111 3456689999999999999999876  444456677889999999999999998876654

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.04  E-value=0.002  Score=41.37  Aligned_cols=64  Identities=13%  Similarity=0.087  Sum_probs=45.8

Q ss_pred             HhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          253 RANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      .+.|++++|.++|+.+.+..- -+...+-.+...|.+.|++++|.++++++....  |+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~--~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQD--PDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG--TTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCHHHHHHHH
Confidence            567889999999998877431 255566678888999999999999998887653  5544454443

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.02  E-value=0.14  Score=49.55  Aligned_cols=180  Identities=13%  Similarity=0.025  Sum_probs=123.8

Q ss_pred             hhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPD-CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ...++..|-+..+.  .|+ ...|..|-..|+...+...|.+.|++.-+.. ..+........+.|+...+++.|..+.-
T Consensus       474 ~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  474 SALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             HHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            44555555444433  232 3578888889988889999999999887653 2356677889999999999999999944


Q ss_pred             HHHhcCCCCCchhHHHHH--HHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          231 EMVLNMGLMPRQGMVIKV--AAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ...++  -+.-...+|.+  --.|...++...|..-|.....  +.| |...|..+.++|.++|++..|+++|.+...  
T Consensus       551 ~~~qk--a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR--~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--  624 (1238)
T KOG1127|consen  551 RAAQK--APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR--TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--  624 (1238)
T ss_pred             HHhhh--chHHHHHhhhhhccccccCccchhhHHHHHHHHhc--CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--
Confidence            43332  11112223333  2346677888888888887766  444 566888999999999999999999987764  


Q ss_pred             CCCCHHHHHHHHH--HHhccCChhHHHHHHHHHHhh
Q 046547          308 FIPYIKVRQKVVE--GLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       308 ~~p~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +.|+ .+|.....  .-+..|++.+|...++.+..-
T Consensus       625 LrP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  625 LRPL-SKYGRFKEAVMECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             cCcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3454 33443333  355678888888888776543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.02  E-value=0.0021  Score=41.29  Aligned_cols=51  Identities=14%  Similarity=0.148  Sum_probs=25.2

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ..|++++|+++|+++..  ..+-+...+..+..+|.+.|++++|.++++.+..
T Consensus         3 ~~~~~~~A~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQ--RNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHH--HTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555555555555543  2222444444555555555555555555555544

...

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.93  E-value=0.11  Score=49.26  Aligned_cols=234  Identities=11%  Similarity=-0.024  Sum_probs=137.1

Q ss_pred             hhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhc-C--------CCccHHHHHHHH
Q 046547           72 NFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRS-G--------CVPVPQIRLLLS  142 (343)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~-~--------~~p~~~~~~~li  142 (343)
                      .+..-|..+.+-+.++...       +...|..+-+ .|.+..+++-|.-.+-.|... |        -.|+...-... 
T Consensus       737 fyvtiG~MD~AfksI~~Ik-------S~~vW~nmA~-McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvA-  807 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK-------SDSVWDNMAS-MCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVA-  807 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh-------hhHHHHHHHH-HhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHH-
Confidence            3344455454444444432       3466776665 455555555554444433211 1        12222221111 


Q ss_pred             HHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCCh
Q 046547          143 SAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKT  222 (343)
Q Consensus       143 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~  222 (343)
                       .++-..+..++|..+|.+-++.         ..|=..|-..|.+++|.++-+.=..-.+   ..||-.-..-+-..++.
T Consensus       808 -vLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di  874 (1416)
T KOG3617|consen  808 -VLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDI  874 (1416)
T ss_pred             -HHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccH
Confidence             2222334688888888887663         2333456678999999888764333222   33555555566667778


Q ss_pred             hHHHHHHHHHH-----------hc-------CCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          223 NDAVEMMKEMV-----------LN-------MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       223 ~~a~~~~~~m~-----------~~-------~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      +.|++.|++-.           +.       -.-..|...|..--..+-..|+.|.|+.+|...++         |-+++
T Consensus       875 ~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~V  945 (1416)
T KOG3617|consen  875 EAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMV  945 (1416)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhhe
Confidence            88877776522           10       00112444455445555567788888888776554         33456


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          285 EGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +..|-.|+.++|-++-++-   |   |....-.|.+.|-..|++.+|..+|-+...++
T Consensus       946 rI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAqafs  997 (1416)
T KOG3617|consen  946 RIKCIQGKTDKAARIAEES---G---DKAACYHLARMYENDGDVVKAVKFFTRAQAFS  997 (1416)
T ss_pred             eeEeeccCchHHHHHHHhc---c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            6677788888888887642   3   45555678899999999999999998876654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.92  E-value=0.063  Score=38.82  Aligned_cols=51  Identities=10%  Similarity=0.161  Sum_probs=20.5

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHhcCCChhHHHHHHHHHH
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPD--LESYSIVIGAMSTARKTNDAVEMMKEMV  233 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~  233 (343)
                      ..|+.++|..+|++....|....  ...+-.+-.++...|++++|..++++..
T Consensus        13 ~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   13 SLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444444444443222  1122233333444444444444444443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.89  E-value=0.033  Score=41.96  Aligned_cols=109  Identities=17%  Similarity=0.120  Sum_probs=69.8

Q ss_pred             CHhhHHHHHHH---HHccCcHHHHHHHHHHhhhC--C-CCCCH------------------hhHHHHHHHHhcCCChhHH
Q 046547          170 DCGTCNYLVSS---LCAIDQLVEAAKVLKGMSSA--E-CVPDL------------------ESYSIVIGAMSTARKTNDA  225 (343)
Q Consensus       170 ~~~~~~~ll~~---~~~~~~~~~a~~~~~~m~~~--~-~~~~~------------------~~~~~ll~~~~~~~~~~~a  225 (343)
                      |...|..++..   ....++.+.+...++++...  | .-|+.                  .+...++..+...|++++|
T Consensus         2 D~~~F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a   81 (146)
T PF03704_consen    2 DVDRFEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEA   81 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHH
Confidence            34455555433   34567888888888887753  2 22221                  1234555667778999999


Q ss_pred             HHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH-----HcCCCCchhhH
Q 046547          226 VEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE-----RKGCPIGFQGY  280 (343)
Q Consensus       226 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~p~~~~~  280 (343)
                      ..+.+.+..  .-+-|...|..+|.+|...|+...|.+.|+.+.     +.|+.|+..+-
T Consensus        82 ~~~~~~~l~--~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   82 LRLLQRALA--LDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHH--HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHh--cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            999998885  445577889999999999999999999888775     34888877663

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.89  E-value=0.021  Score=43.00  Aligned_cols=87  Identities=11%  Similarity=-0.086  Sum_probs=62.9

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVE  189 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~  189 (343)
                      +...|++++|.++|+-+..  +.|....|..=+.+.++..+++++|+..|....... +-|+..+-.+-.++...|+.+.
T Consensus        45 ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~~~  121 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNVCY  121 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCHHH
Confidence            3356888888888888776  346666666666666777777888888888877665 3456677777778888888888


Q ss_pred             HHHHHHHhhh
Q 046547          190 AAKVLKGMSS  199 (343)
Q Consensus       190 a~~~~~~m~~  199 (343)
                      |.+.|+....
T Consensus       122 A~~aF~~Ai~  131 (157)
T PRK15363        122 AIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHH
Confidence            8888876654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.87  E-value=0.047  Score=41.18  Aligned_cols=93  Identities=10%  Similarity=-0.012  Sum_probs=67.2

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      .+-.-+...|++++|.++|+....  --+-+..-|-.|--++-..|++++|...|........ -|...+-.+-.++...
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHc
Confidence            445556678888888888888774  2223444566677777778888888888888777543 3556677777788888


Q ss_pred             ccHhHHHHHHHHHhHC
Q 046547          291 REYILAGKTVMGMTER  306 (343)
Q Consensus       291 g~~~~a~~~~~~m~~~  306 (343)
                      |+.+.|.+-|+..+..
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888888888876654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.82  E-value=0.012  Score=48.23  Aligned_cols=102  Identities=22%  Similarity=0.145  Sum_probs=75.1

Q ss_pred             CccHHHHHHHHHHHHhc----cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC----------------cHHHHH
Q 046547          132 VPVPQIRLLLSSAWLER----RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID----------------QLVEAA  191 (343)
Q Consensus       132 ~p~~~~~~~li~~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~----------------~~~~a~  191 (343)
                      +-|..+|...+..+...    .+.++-....++.|.+.|+.-|..+|+.||+.+-+-.                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44666777776665432    3456666778889999999999999999998876532                224478


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChh-HHHHHHHHHH
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTN-DAVEMMKEMV  233 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~m~  233 (343)
                      +++++|...|+.||-.+-..|++++++-+-.- +..++.--|-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            99999999999999999999999998877532 3334443333

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.81  E-value=0.032  Score=46.58  Aligned_cols=98  Identities=10%  Similarity=0.032  Sum_probs=64.7

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch----hHHHHHHHHHHhCccHHHHHHHHHHHHHcC--CCCchhh
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ----GMVIKVAAALRANREMWKAVEMIEFLERKG--CPIGFQG  279 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~  279 (343)
                      ...|...+..+.+.|++++|+..|+.....   .|+.    ..+-.+-.+|...|++++|...|+.+.+.-  -......
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            345666665556678888888888888754   2332    466677777888888888888888877531  1111223


Q ss_pred             HHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          280 YEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       280 ~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +-.+...+...|+.++|.++|+++.+.
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            333445566788888888888877765

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.77  E-value=0.014  Score=48.24  Aligned_cols=101  Identities=16%  Similarity=-0.020  Sum_probs=77.9

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccH
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREY  293 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~  293 (343)
                      -+.+.+++++|+..|.+..+  =.+-|.+-|..=..+|++.|.++.|++=.+..+.  +.|. ..+|..|-.+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcH
Confidence            45668899999999999884  3344666778888899999999999887776665  4454 45889999999999999


Q ss_pred             hHHHHHHHHHhHCCCCCCHHHHHHHHHH
Q 046547          294 ILAGKTVMGMTERGFIPYIKVRQKVVEG  321 (343)
Q Consensus       294 ~~a~~~~~~m~~~g~~p~~~~~~~li~~  321 (343)
                      ++|.+.|++..+  +.|+-.+|..=+..
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHH
Confidence            999999988775  55777777655443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.75  E-value=0.32  Score=41.93  Aligned_cols=111  Identities=20%  Similarity=0.137  Sum_probs=88.6

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      -+.+.-|.-+...|+...|.++-.+.+    .|+..-|-..+.+++..++|++-.++...     .  -++.-|-.++.+
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-----k--KsPIGyepFv~~  246 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-----K--KSPIGYEPFVEA  246 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-----C--CCCCChHHHHHH
Confidence            355666777888899999988877663    48999999999999999999988876432     1  245789999999


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      |.+.|+..+|..+...     +     ++..-+..|.+.|++.+|.+.-.+.
T Consensus       247 ~~~~~~~~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHCCCHHHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            9999999999998886     2     2345688899999999998875544

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.70  E-value=0.0096  Score=37.74  Aligned_cols=22  Identities=14%  Similarity=-0.002  Sum_probs=7.8

Q ss_pred             HHHHHHHHhCccHHHHHHHHHH
Q 046547          246 IKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       246 ~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      ..+-.++...|++++|...|++
T Consensus        35 ~~lg~~~~~~g~~~~A~~~~~~   56 (65)
T PF13432_consen   35 YLLGRILYQQGRYDEALAYYER   56 (65)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3333333333333333333333

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.67  E-value=0.06  Score=38.93  Aligned_cols=105  Identities=11%  Similarity=0.034  Sum_probs=70.4

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc---hh-hHHHHHH
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG---FQ-GYEVVVE  285 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~-~~~~li~  285 (343)
                      +-.++-..|+.++|+.+|++... .|...+  ...+-.+-+.+...|++++|..++++.....  |+   .. ....+--
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~-~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALA-AGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH-cCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHH
Confidence            34566678889999999999887 476654  3456667777888899999999998877632  33   11 1122234


Q ss_pred             HHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHh
Q 046547          286 GCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLA  323 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  323 (343)
                      ++...|+.++|+..+-....    ++..-|..-|..|.
T Consensus        84 ~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            56778888988888766543    33345665555554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.60  E-value=0.53  Score=45.79  Aligned_cols=216  Identities=12%  Similarity=-0.022  Sum_probs=142.0

Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKV  193 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~  193 (343)
                      .+...|+..|=+..+.... =...|..|-..|+... +...|.+.|+...+.+ ..+..........|....+++.|..+
T Consensus       472 K~~~~al~ali~alrld~~-~apaf~~LG~iYrd~~-Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVS-LAPAFAFLGQIYRDSD-DMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHH-HHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHH
Confidence            3466666666665553311 1245677766676665 5677888888776543 33566788889999999999999988


Q ss_pred             HHHhhhCCCCCCHhhHHHH--HHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          194 LKGMSSAECVPDLESYSIV--IGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       194 ~~~m~~~~~~~~~~~~~~l--l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .-.--+. -+.-...+|.+  --.|...++..+|+.-|+...+  --+-|...|..+.++|...|++..|.++|.+... 
T Consensus       549 ~l~~~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR--~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~-  624 (1238)
T KOG1127|consen  549 CLRAAQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR--TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL-  624 (1238)
T ss_pred             HHHHhhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHhc--CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh-
Confidence            3222221 11112223333  2346678889999999998874  4455888999999999999999999999998776 


Q ss_pred             CCCCchhhHHHHHHH--HHhcccHhHHHHHHHHHhHC------CCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          272 GCPIGFQGYEVVVEG--CLECREYILAGKTVMGMTER------GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       272 g~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                       +.|+. +|.....+  -+..|++.+|...+......      +..--..++-.+...+.-.|-...|..++++-
T Consensus       625 -LrP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eks  697 (1238)
T KOG1127|consen  625 -LRPLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKS  697 (1238)
T ss_pred             -cCcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence             55654 44444333  56789999999988876532      11122445555555555566666666666543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.57  E-value=0.011  Score=38.51  Aligned_cols=56  Identities=11%  Similarity=-0.052  Sum_probs=40.7

Q ss_pred             HHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          250 AALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ..|.+.+++++|.++++.+...  .| +...+...-..+.+.|++++|.+.|+...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            4677788888888888888774  33 34455556667888888888888888877654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.53  E-value=0.0089  Score=39.52  Aligned_cols=63  Identities=16%  Similarity=0.081  Sum_probs=34.3

Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHC----CC-CCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTER----GF-IPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +|+.+-..|...|++++|+..|++..+.    |- .|+ ..++..+...|...|++++|.+++++..++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4555555566666666666666554432    10 121 445666666666666666666666665543

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.52  E-value=0.37  Score=39.86  Aligned_cols=181  Identities=12%  Similarity=0.028  Sum_probs=110.1

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHH----HHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIR----LLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTC  174 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  174 (343)
                      ...|..-.. .+ ..|++++|.+.|+++...-  |++...    -.+..++.+.+ ++++|...+++..+.-..-....|
T Consensus        33 ~~~Y~~A~~-~~-~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~-~y~~A~~~~e~fi~~~P~~~~~~~  107 (243)
T PRK10866         33 SEIYATAQQ-KL-QDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNA-DLPLAQAAIDRFIRLNPTHPNIDY  107 (243)
T ss_pred             HHHHHHHHH-HH-HCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhCcCCCchHH
Confidence            345565554 34 4699999999999998754  433221    22334556654 799999999999876433333455


Q ss_pred             HHHHHHHHc--cC---------------c---HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          175 NYLVSSLCA--ID---------------Q---LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       175 ~~ll~~~~~--~~---------------~---~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      ...+.+.+.  .+               +   ..+|.+.|+               .+++-|=.+.-.++|...+..+..
T Consensus       108 a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~---------------~li~~yP~S~ya~~A~~rl~~l~~  172 (243)
T PRK10866        108 VLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFS---------------KLVRGYPNSQYTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHH---------------HHHHHCcCChhHHHHHHHHHHHHH
Confidence            555555442  10               1   122333333               444444444445666655555543


Q ss_pred             cCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc--CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          235 NMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK--GCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       235 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      +    .-. .--.+..-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.++...+.
T Consensus       173 ~----la~-~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        173 R----LAK-YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             H----HHH-HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            2    011 1125566688888898888888888864  333344566678888999999998888776553

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.32  E-value=0.11  Score=42.44  Aligned_cols=143  Identities=8%  Similarity=-0.085  Sum_probs=101.9

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH-
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA-  250 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~-  250 (343)
                      .+.+.++..+...|.+.-...++.+..+..-+.+....+.|.+.-...|+.+.|...|+..++. .-..|..+++.++- 
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHh
Confidence            4456677777778888888899999988776777888888888889999999999999988853 55556666655543 


Q ss_pred             ----HHHhCccHHHHHHHHHHHHHcCCCCchhhHH--HHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHH
Q 046547          251 ----ALRANREMWKAVEMIEFLERKGCPIGFQGYE--VVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVE  320 (343)
Q Consensus       251 ----~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  320 (343)
                          .|.-++++..|...+.+.....- .|....|  +|+..  -.|+..+|.+.++.|++..  |...+-++++-
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcll--Ylg~l~DAiK~~e~~~~~~--P~~~l~es~~~  327 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLL--YLGKLKDALKQLEAMVQQD--PRHYLHESVLF  327 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHH--HHHHHHHHHHHHHHHhccC--CccchhhhHHH
Confidence                45566788888888887765421 1223333  34444  4688999999999998764  55555554443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.30  E-value=0.11  Score=43.50  Aligned_cols=98  Identities=14%  Similarity=0.093  Sum_probs=64.2

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCC-CCchhHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL----ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGL-MPRQGMVI  246 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~  246 (343)
                      ..|...+..+.+.|++++|...|+.+.+..  |+.    ..+-.+..+|...|++++|...|+.+..++.- +.....+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            346655555566788888888888887753  443    35566777788888888888888888753111 11123333


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          247 KVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .+...+...|+.++|..+|+...+.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4455566778888888888877763

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=96.28  E-value=0.61  Score=39.82  Aligned_cols=261  Identities=10%  Similarity=0.050  Sum_probs=158.2

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhcccchHHHHHHHHhcCCCCCC-CChhh------
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHRIKVIDEMLESFIPLRPRS-RPKIA------  101 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~~~~------  101 (343)
                      ++-.-...|...|+...|+.=+....+.  +||...-    -.++.+.|..+.++.=++......|.. .....      
T Consensus        74 aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~  151 (504)
T KOG0624|consen   74 AIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLAL  151 (504)
T ss_pred             HHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHh
Confidence            3333445566677777777666655443  6776543    345566666655555554444333311 01111      


Q ss_pred             -------HHHHHHHHhhcCCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhh
Q 046547          102 -------YDYLLSYTLQSLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGT  173 (343)
Q Consensus       102 -------~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  173 (343)
                             -..+++ ++ ..|+...|+.++..+.+  +.| |...+..--.+|...+ .+.+|+.=++...+.. .-+..+
T Consensus       152 ~~e~~~l~~ql~s-~~-~~GD~~~ai~~i~~llE--i~~Wda~l~~~Rakc~i~~~-e~k~AI~Dlk~askLs-~DnTe~  225 (504)
T KOG0624|consen  152 IQEHWVLVQQLKS-AS-GSGDCQNAIEMITHLLE--IQPWDASLRQARAKCYIAEG-EPKKAIHDLKQASKLS-QDNTEG  225 (504)
T ss_pred             HHHHHHHHHHHHH-Hh-cCCchhhHHHHHHHHHh--cCcchhHHHHHHHHHHHhcC-cHHHHHHHHHHHHhcc-ccchHH
Confidence                   122333 34 45889999999999887  444 4455555556666665 5777766555554432 223445


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh----HHHH---------HHHHhcCCChhHHHHHHHHHHhcCCCCC
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLES----YSIV---------IGAMSTARKTNDAVEMMKEMVLNMGLMP  240 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----~~~l---------l~~~~~~~~~~~a~~~~~~m~~~~~~~p  240 (343)
                      +-.+-..+...|+.+.++...++..+.  .||-..    |-.|         +......++|.++++-.+...+. .-..
T Consensus       226 ~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~-ep~~  302 (504)
T KOG0624|consen  226 HYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN-EPEE  302 (504)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc-CCcc
Confidence            555667788889999999888888764  355432    2111         22345567777787777776643 2221


Q ss_pred             c---hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          241 R---QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       241 ~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .   ...+..+-.++...+++.+|++.-.+..+  +.|| ..++.--..+|.-...++.|+.=|+...+.
T Consensus       303 ~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  303 TMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             cceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            1   23344556666777889999988888776  5565 667776777788888888888877776543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.24  E-value=0.26  Score=35.80  Aligned_cols=66  Identities=11%  Similarity=-0.024  Sum_probs=40.5

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      ...+.-+..+...|+-|+-.+++.++.+. -.+++...-.+-.+|.+.|+..++.+++.+..++|++
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            34455666677777777777777776642 3455555566677788888888888888877777754

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.22  E-value=0.029  Score=35.94  Aligned_cols=59  Identities=12%  Similarity=0.026  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc-cHhHHHHHHHHH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR-EYILAGKTVMGM  303 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m  303 (343)
                      +|..+-..+...|++++|...|++..+.. +-+...|..+-.+|...| ++++|++.+++.
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence            34444444444444444444444444321 112223333344444444 344444444443

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.16  E-value=0.31  Score=43.06  Aligned_cols=129  Identities=9%  Similarity=0.049  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHhcC-CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhH-HHHH
Q 046547          136 QIRLLLSSAWLERRCQSQSVADILLEMKSIG-YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESY-SIVI  213 (343)
Q Consensus       136 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll  213 (343)
                      ..|...|++..+..| ++.|..+|-+..+.| +.+++..++++|..++. |+..-|..+|+-=...  -||...| +-.+
T Consensus       398 ~v~C~~~N~v~r~~G-l~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         398 FVFCVHLNYVLRKRG-LEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhh-HHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            345566666555554 778888888888877 56777788888887764 6677788888753332  2343333 3445


Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          214 GAMSTARKTNDAVEMMKEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .-+...++-+.|..+|+.-..  .+..+  ...|..+|+.=..-|+...+..+=+.|.+
T Consensus       474 ~fLi~inde~naraLFetsv~--r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         474 LFLIRINDEENARALFETSVE--RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHH--HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            566677888888888886553  33333  46788888887888888777776666665

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.10  E-value=0.87  Score=39.88  Aligned_cols=94  Identities=14%  Similarity=0.076  Sum_probs=51.0

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCC--CccHHHHHHHH-HHHHh--ccCchhHHHHHHHHHHhcCCccCHhhHHH
Q 046547          102 YDYLLSYTLQSLHPLPLALAILQRTLRSGC--VPVPQIRLLLS-SAWLE--RRCQSQSVADILLEMKSIGYHPDCGTCNY  176 (343)
Q Consensus       102 ~~~li~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li-~~~~~--~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  176 (343)
                      .+.++  .|....+++...++.+.+.....  .++........ -++-+  ..|+.++|.+++.......-.+++.+|..
T Consensus       145 ~~lll--SyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  145 INLLL--SYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHH--HhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            45555  36677778888888888765411  11111111111 12222  13456778888777655556777777777


Q ss_pred             HHHHHHc---------cCcHHHHHHHHHHh
Q 046547          177 LVSSLCA---------IDQLVEAAKVLKGM  197 (343)
Q Consensus       177 ll~~~~~---------~~~~~~a~~~~~~m  197 (343)
                      +...|..         ....++|.+.|.+-
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kg  252 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKG  252 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHH
Confidence            7666542         11345555555544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.07  E-value=0.29  Score=40.14  Aligned_cols=131  Identities=11%  Similarity=-0.078  Sum_probs=94.5

Q ss_pred             CchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH-----HHHhcCCChhH
Q 046547          150 CQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVI-----GAMSTARKTND  224 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-----~~~~~~~~~~~  224 (343)
                      +.+.-....+++..+...+.++.....|.+.-.+.||.+.|...|++..+..-..|..+++.++     ..|.-.+++..
T Consensus       191 kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~  270 (366)
T KOG2796|consen  191 KEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAE  270 (366)
T ss_pred             hhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHH
Confidence            3466667788888887667778888888888889999999999999887654444544544443     45667788999


Q ss_pred             HHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          225 AVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       225 a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      |...++++..  .-..|....|.-.-+..-.|+..+|.+.++.|.+  ..|...+-++++
T Consensus       271 a~r~~~~i~~--~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~--~~P~~~l~es~~  326 (366)
T KOG2796|consen  271 AHRFFTEILR--MDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQ--QDPRHYLHESVL  326 (366)
T ss_pred             HHHHHhhccc--cCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhc--cCCccchhhhHH
Confidence            9999988875  2233455555555555567899999999999987  456655555433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.04  E-value=0.61  Score=42.68  Aligned_cols=165  Identities=15%  Similarity=0.083  Sum_probs=111.4

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCC-----HhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchh
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPD-----LESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQG  243 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~  243 (343)
                      +..+++..+=.|+-+.+++.+.+-.+.+ +.-.     .-+|..++..++.    ..+.+.|.++++.+..+   -|+..
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~  267 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSA  267 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcH
Confidence            4556677777899999999888765533 2221     2345555555554    45678899999999854   56765


Q ss_pred             HHHHHH-HHHHhCccHHHHHHHHHHHHHcC---CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          244 MVIKVA-AALRANREMWKAVEMIEFLERKG---CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       244 ~~~~li-~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      .|...- +.+...|++++|.+.|++.....   -+.....+--+...+.-.+++++|.+.|..+.+.. ..+..+|..+.
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~  346 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHH
Confidence            554433 34567899999999999765421   11223344456667888999999999999998864 23444454443


Q ss_pred             H-HHhccCCh-------hHHHHHHHHHHhhc
Q 046547          320 E-GLAGVGEW-------KLATVVRQRFAELK  342 (343)
Q Consensus       320 ~-~~~~~g~~-------~~a~~~~~~m~~~~  342 (343)
                      - ++...|+.       ++|.++|.+...++
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence            3 34557888       89999998887664

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=1.1  Score=40.42  Aligned_cols=196  Identities=14%  Similarity=0.018  Sum_probs=119.8

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHH-HHHHHHHHhccCchhHHHHHHHHHHhcCCccC------HhhHH
Q 046547          103 DYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIR-LLLSSAWLERRCQSQSVADILLEMKSIGYHPD------CGTCN  175 (343)
Q Consensus       103 ~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~------~~~~~  175 (343)
                      ..+-+..+ +..+++.|++-++...+..   ...+| +..-.+|...+ .+.+....-+.-.+.|...-      ...+.
T Consensus       228 k~lgnaay-kkk~f~~a~q~y~~a~el~---~~it~~~n~aA~~~e~~-~~~~c~~~c~~a~E~gre~rad~klIak~~~  302 (539)
T KOG0548|consen  228 KELGNAAY-KKKDFETAIQHYAKALELA---TDITYLNNIAAVYLERG-KYAECIELCEKAVEVGRELRADYKLIAKALA  302 (539)
T ss_pred             HHHHHHHH-HhhhHHHHHHHHHHHHhHh---hhhHHHHHHHHHHHhcc-HHHHhhcchHHHHHHhHHHHHHHHHHHHHHH
Confidence            34444333 4578999999999887754   33444 44444555544 45555554444444432211      11222


Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH-------------------------HHHHHHhcCCChhHHHHHHH
Q 046547          176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYS-------------------------IVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       176 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-------------------------~ll~~~~~~~~~~~a~~~~~  230 (343)
                      .+-.+|.+.++.+.+.+.|.+.......|+..+=.                         .--+.+.+.|++..|+..|.
T Consensus       303 r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yt  382 (539)
T KOG0548|consen  303 RLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYT  382 (539)
T ss_pred             HhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence            34446667788888888888876655555433211                         11345667788999999999


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch-hhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF-QGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ++..  .-+-|...|+.-..+|.+.+.+..|+.=.+...+.  .|+. ..|..=..++....++++|++.|.+..+.+
T Consensus       383 eAIk--r~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  383 EAIK--RDPEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHh--cCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9885  33667788888888999998888888776666653  3432 233333333444556777888877766554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.00  E-value=0.85  Score=38.89  Aligned_cols=128  Identities=15%  Similarity=0.235  Sum_probs=68.7

Q ss_pred             hHHHHHHHHHHhcCCccCHhhHHHHHHHHHc--cC----cHHHHHHHHHHhhhCCC---CCCHhhHHHHHHHHhcCCC--
Q 046547          153 QSVADILLEMKSIGYHPDCGTCNYLVSSLCA--ID----QLVEAAKVLKGMSSAEC---VPDLESYSIVIGAMSTARK--  221 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~~~---~~~~~~~~~ll~~~~~~~~--  221 (343)
                      ++...+++.|.+.|++-+..+|-+.......  ..    ....|.++|+.|++...   .++-..+..++..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3445677777777777766555442222222  12    34567777777776542   3344555555443  2333  


Q ss_pred             --hhHHHHHHHHHHhcCCCCCchh-HHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCCchhhHHHH
Q 046547          222 --TNDAVEMMKEMVLNMGLMPRQG-MVIKVAAALRANR---EMWKAVEMIEFLERKGCPIGFQGYEVV  283 (343)
Q Consensus       222 --~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~~~~~~~l  283 (343)
                        .+.+..+|+.+.. .|+..+-. -+-+-|-++....   ...++.++++.+.+.|+++....|..+
T Consensus       157 ~l~~~~E~~Y~~L~~-~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  157 ELAERMEQCYQKLAD-AGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHH-hCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence              2445666666665 36655432 2222233333221   244677777777777777766666654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.97  E-value=0.032  Score=36.81  Aligned_cols=62  Identities=11%  Similarity=-0.099  Sum_probs=34.5

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHc--CCC---Cc-hhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERK--GCP---IG-FQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~---p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      .+|+.+-..|...|++++|+..|++..+.  ...   |+ ..++..+-..|...|++++|++++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34566666666666666666666655432  011   11 3355555666666667776666666543

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.91  E-value=0.15  Score=42.42  Aligned_cols=102  Identities=15%  Similarity=0.043  Sum_probs=83.8

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCcc
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANRE  257 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~  257 (343)
                      +-+.+.+++++|+..|.+.++.. +-|.+-|..=..+|++.|.++.|++=.+....   +.| -..+|..|=.+|...|+
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCc
Confidence            34678899999999999998863 34677788889999999999999998888763   233 35789999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEG  286 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~  286 (343)
                      +++|.+-|++..+  +.|+-.+|..=+..
T Consensus       165 ~~~A~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  165 YEEAIEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHHHhhhc--cCCCcHHHHHHHHH
Confidence            9999999998877  88988887654443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.88  E-value=0.71  Score=37.00  Aligned_cols=63  Identities=16%  Similarity=0.251  Sum_probs=30.1

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCC-c-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhc
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCV-P-VPQIRLLLSSAWLERRCQSQSVADILLEMKSI  165 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~-p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~  165 (343)
                      ..|..-.. .+ ..|++++|.+.|+++...... | -....-.+..++.+.+ +++.|...++++.+.
T Consensus         7 ~lY~~a~~-~~-~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~-~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    7 ALYQKALE-AL-QQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQG-DYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHH-HH-HCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHH
Confidence            44444443 33 346677777777776653211 1 1112223334445543 566666666666553

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.73  E-value=0.82  Score=36.64  Aligned_cols=184  Identities=8%  Similarity=-0.043  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCc--cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 046547          136 QIRLLLSSAWLERRCQSQSVADILLEMKSIGYH--PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVI  213 (343)
Q Consensus       136 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  213 (343)
                      ..|..-... ...| ++++|.+.|+.+...-..  --....-.+..++.+.|+++.|...++++.+.-..-...-+...+
T Consensus         7 ~lY~~a~~~-~~~g-~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~   84 (203)
T PF13525_consen    7 ALYQKALEA-LQQG-DYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYM   84 (203)
T ss_dssp             HHHHHHHHH-HHCT--HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHH
T ss_pred             HHHHHHHHH-HHCC-CHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHH
Confidence            344444443 4544 688888888888765211  112344556778888889999988888877643211122233333


Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCC-----chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 046547          214 GAMSTARKTNDAVEMMKEMVLNMGLMP-----RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL  288 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  288 (343)
                      .+.+.........      .  ....+     -...+..+|.-|=...-..+|...+..+.+.   .-..-+ .+...|.
T Consensus        85 ~g~~~~~~~~~~~------~--~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e~-~ia~~Y~  152 (203)
T PF13525_consen   85 LGLSYYKQIPGIL------R--SDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHEL-YIARFYY  152 (203)
T ss_dssp             HHHHHHHHHHHHH---------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHHH-HHHHHHH
T ss_pred             HHHHHHHhCccch------h--cccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHHH-HHHHHHH
Confidence            3332111111110      0  00000     1223455555555555566666555555431   000111 2456699


Q ss_pred             hcccHhHHHHHHHHHhHC--CCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          289 ECREYILAGKTVMGMTER--GFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       289 ~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      +.|.+..|..-++.+++.  +..-.....-.++.+|.+.|..+.|..
T Consensus       153 ~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  153 KRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             CTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            999999999999998876  222234466788899999998885543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.68  E-value=0.96  Score=40.70  Aligned_cols=156  Identities=8%  Similarity=0.060  Sum_probs=80.2

Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKV  193 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~  193 (343)
                      .+.+.-.+.=.+..+  +.||-.+.-+++..  .......++.+++++..+.|-    ..+       .+....+..-..
T Consensus       182 Rnp~aRIkaA~eALe--i~pdCAdAYILLAE--EeA~Ti~Eae~l~rqAvkAgE----~~l-------g~s~~~~~~g~~  246 (539)
T PF04184_consen  182 RNPQARIKAAKEALE--INPDCADAYILLAE--EEASTIVEAEELLRQAVKAGE----ASL-------GKSQFLQHHGHF  246 (539)
T ss_pred             CCHHHHHHHHHHHHH--hhhhhhHHHhhccc--ccccCHHHHHHHHHHHHHHHH----Hhh-------chhhhhhcccch
Confidence            445555555555544  44665554444432  112235678888877665431    111       111111111111


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC
Q 046547          194 LKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGC  273 (343)
Q Consensus       194 ~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  273 (343)
                      ++........|-..+=.-+-.++-+.|+.++|++.+++|.+.....-.......|+.++...+.+.++..++.+..+...
T Consensus       247 ~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l  326 (539)
T PF04184_consen  247 WEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL  326 (539)
T ss_pred             hhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC
Confidence            22222222222233333455566677888888888888874322112344667788888888888888888887654322


Q ss_pred             CC-chhhHHHHH
Q 046547          274 PI-GFQGYEVVV  284 (343)
Q Consensus       274 ~p-~~~~~~~li  284 (343)
                      +. -..+|+..+
T Consensus       327 pkSAti~YTaAL  338 (539)
T PF04184_consen  327 PKSATICYTAAL  338 (539)
T ss_pred             CchHHHHHHHHH
Confidence            21 233566544

The molecular function of this protein is uncertain.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.67  E-value=0.11  Score=33.68  Aligned_cols=54  Identities=13%  Similarity=0.012  Sum_probs=26.2

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .|.+.+++++|.++++.+..  -.+.+...+...-.++.+.|++++|.+.++...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALE--LDPDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHH--hCcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34445555555555555543  1222344444444555555555555555555544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.57  E-value=1.6  Score=38.83  Aligned_cols=137  Identities=13%  Similarity=0.101  Sum_probs=76.8

Q ss_pred             HhCccCcchHHHHHHHchhcCCCCChHHH---------hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhh
Q 046547           41 AVDAKDYQQIPELLGSFEEACQNPNPFSF---------LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ  111 (343)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~  111 (343)
                      +-+.++++++.++|.+.-+.. ..++..+         ++++. ..+.+..+..+..+.+..|..|-...|-.+..  | 
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~--Y-   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQFGKSAYLPLFKALVA--Y-   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhcCCchHHHHHHHHHH--H-
Confidence            446788899999998876532 2222222         12221 22334444444444443444444555555552  3 


Q ss_pred             cCCChHHHHHHHHHHHhc--CCCc------------cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCc----cCHhh
Q 046547          112 SLHPLPLALAILQRTLRS--GCVP------------VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYH----PDCGT  173 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~--~~~p------------~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~----~~~~~  173 (343)
                      +.+++..|++.+..-..+  +..|            |-.--+....+++..| .+.++..+++++...=++    -+..+
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g-~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETG-RFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            457788888888776654  3222            2222244556666665 478888887777654333    56777


Q ss_pred             HHHHHHHHHc
Q 046547          174 CNYLVSSLCA  183 (343)
Q Consensus       174 ~~~ll~~~~~  183 (343)
                      |+.++-.+++
T Consensus       170 yd~~vlmlsr  179 (549)
T PF07079_consen  170 YDRAVLMLSR  179 (549)
T ss_pred             HHHHHHHHhH
Confidence            8776655554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.55  E-value=1.9  Score=39.56  Aligned_cols=85  Identities=13%  Similarity=0.036  Sum_probs=42.2

Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcC---CccCHhhHHHHHHHHHccCcHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIG---YHPDCGTCNYLVSSLCAIDQLVEA  190 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~~ll~~~~~~~~~~~a  190 (343)
                      .+.+.|.++++.+.++  -|+...|...-.-+....++.++|.+.|+......   .+.....+--+...+.-..++++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            3455566666666553  35555555554444444455666666666443210   011112233334445555666666


Q ss_pred             HHHHHHhhhC
Q 046547          191 AKVLKGMSSA  200 (343)
Q Consensus       191 ~~~~~~m~~~  200 (343)
                      .+.|..+.+.
T Consensus       325 ~~~f~~L~~~  334 (468)
T PF10300_consen  325 AEYFLRLLKE  334 (468)
T ss_pred             HHHHHHHHhc
Confidence            6666666553

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.50  E-value=2.3  Score=40.22  Aligned_cols=114  Identities=16%  Similarity=0.074  Sum_probs=86.3

Q ss_pred             CCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhH
Q 046547          201 ECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGY  280 (343)
Q Consensus       201 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  280 (343)
                      |....-.+.+--+.-+...|+..+|.++-.+.+     .||-..|-.=+.+++..++|++-.++-+.++.      +.-|
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy  747 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGY  747 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCc
Confidence            333444556666777788899999988877765     38999999999999999999888777665432      4667


Q ss_pred             HHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHH
Q 046547          281 EVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       281 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      .-.+.+|.+.|+.++|.+++-+.-     +..    -.+.+|.+.|++.+|.++
T Consensus       748 ~PFVe~c~~~~n~~EA~KYiprv~-----~l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  748 LPFVEACLKQGNKDEAKKYIPRVG-----GLQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             hhHHHHHHhcccHHHHhhhhhccC-----ChH----HHHHHHHHhccHHHHHHH
Confidence            778899999999999999987432     211    567888889988888765

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.50  E-value=0.32  Score=43.30  Aligned_cols=99  Identities=13%  Similarity=0.050  Sum_probs=69.4

Q ss_pred             CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch----hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          203 VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ----GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       203 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      +.+...++.+-.+|...|++++|+..|++..+   +.|+.    .+|..+..+|.+.|+.++|.+.+++..+.+ .|   
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---  144 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---  144 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---
Confidence            33567889999999999999999999999874   34664    358999999999999999999999988742 11   


Q ss_pred             hHHHHHH--HHHhcccHhHHHHHHHHHhHCCC
Q 046547          279 GYEVVVE--GCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       279 ~~~~li~--~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                      .|..+..  .+....+.++..++++.+...|.
T Consensus       145 ~f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        145 KFSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             hHHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            2221111  01222333456666666666664

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.46  E-value=0.68  Score=42.90  Aligned_cols=201  Identities=13%  Similarity=0.108  Sum_probs=113.6

Q ss_pred             hHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHH
Q 046547          116 LPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLK  195 (343)
Q Consensus       116 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  195 (343)
                      +-+...-+++|+++|-.|+........ +|  .+ .+.+|.++|.+-   |..      |.-++.|.....++.|.+++.
T Consensus       616 ~L~li~EL~~~k~rge~P~~iLlA~~~-Ay--~g-KF~EAAklFk~~---G~e------nRAlEmyTDlRMFD~aQE~~~  682 (1081)
T KOG1538|consen  616 YLELISELEERKKRGETPNDLLLADVF-AY--QG-KFHEAAKLFKRS---GHE------NRALEMYTDLRMFDYAQEFLG  682 (1081)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHH-Hh--hh-hHHHHHHHHHHc---Cch------hhHHHHHHHHHHHHHHHHHhh
Confidence            555666677888889888876654443 33  33 577888887653   322      122333444444444443332


Q ss_pred             H-------hh--hC-CCCCCHhhHHHHHHHHhcCCChhHHHHHHHH-----HHhcCCCC---CchhHHHHHHHHHHhCcc
Q 046547          196 G-------MS--SA-ECVPDLESYSIVIGAMSTARKTNDAVEMMKE-----MVLNMGLM---PRQGMVIKVAAALRANRE  257 (343)
Q Consensus       196 ~-------m~--~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~-----m~~~~~~~---p~~~~~~~li~~~~~~~~  257 (343)
                      .       |.  ++ ...-+..-=.+....+..+|+.++|..+.-+     |.-+-+.+   .+..+.-.+...+-+...
T Consensus       683 ~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~  762 (1081)
T KOG1538|consen  683 SGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDS  762 (1081)
T ss_pred             cCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccc
Confidence            1       10  00 0000111112334555667777777655322     11111112   234444555555556677


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-----------HHHHHHHHHHHhccC
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-----------IKVRQKVVEGLAGVG  326 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-----------~~~~~~li~~~~~~g  326 (343)
                      +..|-++|..|-+.         ..+++.....+++++|..+-+..-+  +.||           ..-|.-.-++|.++|
T Consensus       763 ~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfhkAG  831 (1081)
T KOG1538|consen  763 PGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFHKAG  831 (1081)
T ss_pred             cchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHHHhc
Confidence            88888888877542         2466777888999999888775432  2233           223566667899999


Q ss_pred             ChhHHHHHHHHHHh
Q 046547          327 EWKLATVVRQRFAE  340 (343)
Q Consensus       327 ~~~~a~~~~~~m~~  340 (343)
                      +..+|.++++++..
T Consensus       832 r~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  832 RQREAVQVLEQLTN  845 (1081)
T ss_pred             chHHHHHHHHHhhh
Confidence            99999999988753

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.44  E-value=1.3  Score=37.03  Aligned_cols=136  Identities=9%  Similarity=-0.015  Sum_probs=73.0

Q ss_pred             chhHHHHHHHHHHh-cCCccCHhhHHHHHHHHHc-cC-cHHHHHHHHHHhhh-CCCCCCHhhHHHHHHHHhcCCChhHHH
Q 046547          151 QSQSVADILLEMKS-IGYHPDCGTCNYLVSSLCA-ID-QLVEAAKVLKGMSS-AECVPDLESYSIVIGAMSTARKTNDAV  226 (343)
Q Consensus       151 ~~~~a~~~~~~m~~-~g~~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~  226 (343)
                      .+-+|+++|+...- ..+--|..+...+++.... .+ ....-.++.+-+.. .|..++..+...+|..++..+++.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            45555555553221 2344556666666666554 11 12222223332222 234556666666777777777777777


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHH-----HHHcCCCCchhhHHHHHHH
Q 046547          227 EMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEF-----LERKGCPIGFQGYEVVVEG  286 (343)
Q Consensus       227 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~-----m~~~g~~p~~~~~~~li~~  286 (343)
                      ++++......+..-|...|..+|+.-...|+..-...+.++     +++.|+..+...-..+-+.
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~L  287 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSEL  287 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHH
Confidence            77766654224455666677777777777776666666654     2344555555544444333

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.37  E-value=1.1  Score=37.54  Aligned_cols=135  Identities=16%  Similarity=0.148  Sum_probs=98.3

Q ss_pred             cCcHHHHHHHHHHhhh-CCCCCCHhhHHHHHHHHhc-CC-ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH
Q 046547          184 IDQLVEAAKVLKGMSS-AECVPDLESYSIVIGAMST-AR-KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK  260 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~  260 (343)
                      +..+.+|+++|+...- ..+--|..+...+++.... .+ ....-.++.+-+....|-.++..+...+|+.++..++|.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3445677777774332 3456678888888888876 33 2333455666666545678888999999999999999999


Q ss_pred             HHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHHHHHH-----HhHCCCCCCHHHHHHH
Q 046547          261 AVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGKTVMG-----MTERGFIPYIKVRQKV  318 (343)
Q Consensus       261 a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~-----m~~~g~~p~~~~~~~l  318 (343)
                      -.++++.-... +..-|...|..+|+.....|+..-..++..+     ++..|+..+...-..+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L  284 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQL  284 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHH
Confidence            99999987765 5666889999999999999998877777664     2344555555554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.36  E-value=0.9  Score=40.32  Aligned_cols=146  Identities=12%  Similarity=0.092  Sum_probs=106.7

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhh-HHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSG-CVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGT-CNY  176 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~-~~~  176 (343)
                      ...|..+|.+.... .-++.|..+|-+.++.| +.++...+++.|..+|..  +..-|.++|+.-..+  -||... -+.
T Consensus       397 t~v~C~~~N~v~r~-~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~--d~~ta~~ifelGl~~--f~d~~~y~~k  471 (660)
T COG5107         397 TFVFCVHLNYVLRK-RGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATG--DRATAYNIFELGLLK--FPDSTLYKEK  471 (660)
T ss_pred             hhHHHHHHHHHHHH-hhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcC--CcchHHHHHHHHHHh--CCCchHHHHH
Confidence            35677888744444 45899999999999998 678999999999987764  567899999876554  344444 356


Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPD--LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  253 (343)
                      .+..+...++-+.|..+|+.-... +..+  ...|..+|.--..-|+...+..+=+.|.+.   -|-..+...+.+-|.
T Consensus       472 yl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~---~pQen~~evF~Sry~  546 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL---VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH---cCcHhHHHHHHHHHh
Confidence            677888899999999999955432 1222  568999999999999999998888887642   444444444444444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=1  Score=37.66  Aligned_cols=101  Identities=14%  Similarity=0.111  Sum_probs=70.4

Q ss_pred             CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC---ccHHHHHHHHHHHHHcCCCC-chh
Q 046547          203 VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN---REMWKAVEMIEFLERKGCPI-GFQ  278 (343)
Q Consensus       203 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~g~~p-~~~  278 (343)
                      +-|...|-.|-.+|...|+++.|..-|....+-.|  ++...+..+..++...   ....++.++|+++...  .| |..
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g--~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~ir  228 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG--DNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIR  228 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHH
Confidence            44677888888888888888888888888775323  3444455555554433   3456788888888763  34 344


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +-..|-..+...|++.+|...|+.|.+..
T Consensus       229 al~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         229 ALSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            55555666888888888888888888764

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.22  E-value=1  Score=34.56  Aligned_cols=131  Identities=9%  Similarity=0.092  Sum_probs=67.8

Q ss_pred             HHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          156 ADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       156 ~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                      .++++.+.+.|++|+...|..+++.+.+.|++...    ..+.+.++-+|+......+-.+..  ....+.++--+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            34555555666777777777777777777665433    444556666666555544433332  233344444444432


Q ss_pred             CCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHH
Q 046547          236 MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       236 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  301 (343)
                      -+     ..+..+++.+...|++-+|.++.+.....    +......++++-.+.++...-..+++
T Consensus        88 L~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~  144 (167)
T PF07035_consen   88 LG-----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFR  144 (167)
T ss_pred             hh-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHH
Confidence            00     13456666666777777777666653221    11222345555555555444333333

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.20  E-value=2.8  Score=39.52  Aligned_cols=93  Identities=16%  Similarity=0.124  Sum_probs=49.9

Q ss_pred             CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCC--------
Q 046547          203 VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCP--------  274 (343)
Q Consensus       203 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--------  274 (343)
                      +-+....-.+...+.+.|.-++|.+.|-.-..     |     .+-+..|...++|.+|.++-....-..+.        
T Consensus       849 pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-----p-----kaAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aa  918 (1189)
T KOG2041|consen  849 PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL-----P-----KAAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAA  918 (1189)
T ss_pred             CcccchHHHHHHHHHhhchHHHHHHHHHhccC-----c-----HHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence            33455555666777777777777666544321     1     13345566666677776665533211010        


Q ss_pred             ---CchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          275 ---IGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       275 ---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                         .+..+. --|..+.+.|+.-+|-+++.+|.++
T Consensus       919 qll~~~~~~-eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  919 QLLADANHM-EAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             HHHhhcchH-HHHHHhhhcccchhHHHHHHHHhHH
Confidence               011111 1244566777777777777777543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.13  E-value=0.96  Score=33.66  Aligned_cols=128  Identities=13%  Similarity=0.079  Sum_probs=77.0

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                      ....+|. .+...+.......+++.+...+ ..+...++.++..|++..  .++..+.++.      .++......+++.
T Consensus         9 ~~~~vv~-~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~--~~~ll~~l~~------~~~~yd~~~~~~~   78 (140)
T smart00299        9 DVSEVVE-LFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD--PQKEIERLDN------KSNHYDIEKVGKL   78 (140)
T ss_pred             CHHHHHH-HHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC--HHHHHHHHHh------ccccCCHHHHHHH
Confidence            3445564 5555577888888888887766 356667788888877653  3445555542      1233444557777


Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC-CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA-RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                      |.+.+-++++.-++.++..         |...+..+... ++++.|.+++.+-.       +...|..++..+..
T Consensus        79 c~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~~-------~~~lw~~~~~~~l~  137 (140)
T smart00299       79 CEKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQN-------NPELWAEVLKALLD  137 (140)
T ss_pred             HHHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhCC-------CHHHHHHHHHHHHc
Confidence            7777777777777776633         12223333333 67777777666521       44466666665543

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.10  E-value=1.8  Score=36.65  Aligned_cols=221  Identities=10%  Similarity=0.017  Sum_probs=125.0

Q ss_pred             cCCChHHHHHHHHHHHhcC--CCccH------HHHHHHHHHHHhccCchhHHHHHHHHHHhc--------CCccC-----
Q 046547          112 SLHPLPLALAILQRTLRSG--CVPVP------QIRLLLSSAWLERRCQSQSVADILLEMKSI--------GYHPD-----  170 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~--~~p~~------~~~~~li~~~~~~~~~~~~a~~~~~~m~~~--------g~~~~-----  170 (343)
                      +.|+++.|..++.+.....  ..|+.      ..|+.-...+ +.+.+++.|..++++..+.        ...|+     
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~-~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLL-SKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHH-HcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            4688899999998876432  33433      2244444433 3322577777666554332        12222     


Q ss_pred             HhhHHHHHHHHHccCcHH---HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLV---EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      ..+...+..+|...+..+   +|.++++.+.+.... ...+|-.-+..+.+.++.+.+.+++..|..  .+.-....+..
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~--~~~~~e~~~~~  160 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIR--SVDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHH--hcccccchHHH
Confidence            246677888888877654   566666666544322 244555567777779999999999999996  44323345555


Q ss_pred             HHHHH---HhCccHHHHHHHHHHHHHcCCCCchh-hHH-HHHHH---HHhcc------cHhHHHHHHHHHhHC-CCCCCH
Q 046547          248 VAAAL---RANREMWKAVEMIEFLERKGCPIGFQ-GYE-VVVEG---CLECR------EYILAGKTVMGMTER-GFIPYI  312 (343)
Q Consensus       248 li~~~---~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~-~li~~---~~~~g------~~~~a~~~~~~m~~~-g~~p~~  312 (343)
                      .+..+   .. .....|...+..+....+.|... ... .++..   ..+.+      +++...++++..... +-+.+.
T Consensus       161 ~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            55554   33 33456777777776655555553 111 11211   11211      244455555543332 222232


Q ss_pred             HH---HHHH----HHHHhccCChhHHHHHHHH
Q 046547          313 KV---RQKV----VEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       313 ~~---~~~l----i~~~~~~g~~~~a~~~~~~  337 (343)
                      .+   ..+|    ...+.+.+++++|.+.|+-
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            22   2233    2356778999999999874

It is also involved in sporulation [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.07  E-value=0.68  Score=38.75  Aligned_cols=114  Identities=11%  Similarity=-0.012  Sum_probs=82.6

Q ss_pred             ccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC---CChhHHHHHHHHHHhcCCCCCchhH
Q 046547          168 HPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA---RKTNDAVEMMKEMVLNMGLMPRQGM  244 (343)
Q Consensus       168 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~m~~~~~~~p~~~~  244 (343)
                      +-|...|-.|-..|...|+++.|..-|....+.- .++...+..+..++...   ....++..+|+++..  .-+-|..+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~--~D~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALA--LDPANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh--cCCccHHH
Confidence            5578889999999999999999999999887642 23455555555554433   235678899999884  44456677


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEG  286 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  286 (343)
                      -.-|...+...|++.+|...|+.|.+.  .|.......+|+.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~  269 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHH
Confidence            777778888999999999999999884  3444555555543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.87  E-value=2.2  Score=36.44  Aligned_cols=132  Identities=11%  Similarity=0.033  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc--CCC----hhHHHHHHHHHHhcCCC--CCchhHHHHHHHHHHhCcc-
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMST--ARK----TNDAVEMMKEMVLNMGL--MPRQGMVIKVAAALRANRE-  257 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~~~----~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~-  257 (343)
                      +++...+++.|.+.|..-+..+|-+.......  ..+    ..+|..+|+.|+++..+  .++..++..|+..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45667889999999998888777653333333  222    45789999999975332  3456667777654  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcc---cHhHHHHHHHHHhHCCCCCCHHHHHHHHH
Q 046547          258 ---MWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECR---EYILAGKTVMGMTERGFIPYIKVRQKVVE  320 (343)
Q Consensus       258 ---~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~~li~  320 (343)
                         .+.+..+|+.+.+.|+..+.. .+-+-|-++....   ....+.++++.+.+.|+++....|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence               356778888888888876544 2223333333222   14578889999999999988777765543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.83  E-value=0.54  Score=41.90  Aligned_cols=64  Identities=11%  Similarity=0.092  Sum_probs=56.4

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL----ESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      .+...++.+-.+|.+.|++++|...|++..+..  |+.    .+|..+-.+|...|+.++|+..+++..+
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356789999999999999999999999988754  553    4689999999999999999999999986

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.76  E-value=0.42  Score=40.19  Aligned_cols=99  Identities=11%  Similarity=0.104  Sum_probs=51.3

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCC---CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHH
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAE---CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMV  245 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~  245 (343)
                      ....+...++..-....+++.+...+-++...-   ..|+...| ++++-+ ..-+.++++.++..=.. +|+-||-.++
T Consensus        62 ~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIq-YGiF~dqf~~  138 (418)
T KOG4570|consen   62 VSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQ-YGIFPDQFTF  138 (418)
T ss_pred             cceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcch-hccccchhhH
Confidence            334444444444444556666666555554321   22332222 122222 22345566666655554 5666666666


Q ss_pred             HHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          246 IKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       246 ~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +.+|+.+.+.+++.+|..+.-.|..
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHH
Confidence            6666666666666666666655554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.74  E-value=0.57  Score=38.65  Aligned_cols=95  Identities=13%  Similarity=0.160  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCC----CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch-hHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAE----CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ-GMVIK  247 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~  247 (343)
                      .|+.-+..+ +.|++..|...|....+..    ..|+.  +--|..++...|++++|..+|..+.++++-.|-. ...--
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA--~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNA--YYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchh--HHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            355444433 4455556665555555432    12222  2235555555566666655555555432222211 23333


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      |-.+..+.|+.++|..+|.+..+
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH
Confidence            44444555555555555555544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=94.73  E-value=4  Score=38.81  Aligned_cols=230  Identities=13%  Similarity=-0.021  Sum_probs=125.4

Q ss_pred             HHHHHHHhhcCCChHHHHHH----HHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          103 DYLLSYTLQSLHPLPLALAI----LQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       103 ~~li~~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      -.+|...+....+.+++.-.    +.++....+.-|+..|..+--++...| +++.+.+.|++.... .--....|+.+-
T Consensus       287 llli~es~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g-~f~~lae~fE~~~~~-~~~~~e~w~~~a  364 (799)
T KOG4162|consen  287 LLLIEESLIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCG-QFEVLAEQFEQALPF-SFGEHERWYQLA  364 (799)
T ss_pred             HHHHHhhccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHh-hhhhHHHHHHHH
Confidence            33343344444445554432    333334445567777777766655554 677777777776543 223346677777


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHh-cCCChhHHHHHHHHHHhc-----CCCCCchhHHHHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVP-DLESYSIVIGAMS-TARKTNDAVEMMKEMVLN-----MGLMPRQGMVIKVAAA  251 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~-~~~~~~~a~~~~~~m~~~-----~~~~p~~~~~~~li~~  251 (343)
                      ..|...|.-..|..+.+.-......| |...+-..-..|. +.+..++++++-.+....     ..+.|-  .|-.+--+
T Consensus       365 ls~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~--~~l~lGi~  442 (799)
T KOG4162|consen  365 LSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPR--GYLFLGIA  442 (799)
T ss_pred             HHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhh--HHHHHHHH
Confidence            77777777777777777654433223 2333322222232 345555555554444431     122222  22222222


Q ss_pred             HHhC-----------ccHHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHH
Q 046547          252 LRAN-----------REMWKAVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVV  319 (343)
Q Consensus       252 ~~~~-----------~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  319 (343)
                      |...           ....++.+.+++..+. +-.|+..-|-++  -|+..++.+.|.+...+..+-+-.-+...|..|.
T Consensus       443 y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLA  520 (799)
T KOG4162|consen  443 YGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLA  520 (799)
T ss_pred             HHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            2211           1234566666666553 233433333222  3666777788888777777765455677777777


Q ss_pred             HHHhccCChhHHHHHHHHH
Q 046547          320 EGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       320 ~~~~~~g~~~~a~~~~~~m  338 (343)
                      -.+.-.+++.+|+.+.+..
T Consensus       521 LvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  521 LVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHhhhhhhHHHHHHHHHH
Confidence            7777777777777776543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=94.65  E-value=1.6  Score=33.97  Aligned_cols=130  Identities=15%  Similarity=-0.002  Sum_probs=79.8

Q ss_pred             CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC--CCCCchhH
Q 046547          167 YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM--GLMPRQGM  244 (343)
Q Consensus       167 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~p~~~~  244 (343)
                      +-|+...--.|-+++...|+..+|...|++...--..-|....-.+.++....+++..|...++++.+-+  +-.||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            3566666666777777777777777777777654455566666666777777777777777777766421  12233  2


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  300 (343)
                      .-.+.+.+...|+..+|..-|+....  .-|+...-..--..+.+.|+.+++..-+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            33555667777777777777777665  3344443333334455666655554433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.60  E-value=1.4  Score=32.83  Aligned_cols=84  Identities=13%  Similarity=0.046  Sum_probs=38.8

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC
Q 046547          176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN  255 (343)
Q Consensus       176 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  255 (343)
                      .++..+.+.+.+.....+++.+...+. .+...++.++..|++.+. ++..+.+..   .    ++......+++.|.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~----~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K----SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c----cccCCHHHHHHHHHHc
Confidence            344444445555555555555554442 344455555555554322 223333321   0    1222233455555555


Q ss_pred             ccHHHHHHHHHHH
Q 046547          256 REMWKAVEMIEFL  268 (343)
Q Consensus       256 ~~~~~a~~~~~~m  268 (343)
                      +-++++..++..+
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            5555555555543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.08  E-value=3.7  Score=36.18  Aligned_cols=134  Identities=10%  Similarity=-0.020  Sum_probs=78.5

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHh---cCCCC-CchhHHHHHHHHHHhCccHHHHHHHHHHHHH----cCCC-Cch
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVL---NMGLM-PRQGMVIKVAAALRANREMWKAVEMIEFLER----KGCP-IGF  277 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~-p~~  277 (343)
                      ..|..|-+.|.-.|+++.|+...+.-.+   +.|-. .....+..+-+++.-.|+++.|.+.|+.-..    .|-+ ...
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            4566666777777788877765543221   12221 2345677777777777888888777775432    2211 112


Q ss_pred             hhHHHHHHHHHhcccHhHHHHHHHHHhHC-----CCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          278 QGYEVVVEGCLECREYILAGKTVMGMTER-----GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       278 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .+.=+|-..|.-..++++|+.++.+-..-     +..-....+.+|..+|...|..+.|..+.+.-.+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            22334555666666777777766543211     1122456677788888888888888777665443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.03  E-value=1.7  Score=31.75  Aligned_cols=138  Identities=14%  Similarity=0.113  Sum_probs=84.1

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      .|.+++..+++.+...+.   +..-+|-+|--....- +-+-..++++.   -|--.|...          +|.+..+..
T Consensus        15 dG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa-~C~yvv~~Lds---IGkiFDis~----------C~NlKrVi~   77 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAA-DCDYVVETLDS---IGKIFDISK----------CGNLKRVIE   77 (161)
T ss_dssp             TT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH---HHHHHHHHHH---HGGGS-GGG-----------S-THHHHH
T ss_pred             hchHHHHHHHHHHHcCcC---Cccccceeeeecchhh-chhHHHHHHHH---HhhhcCchh----------hcchHHHHH
Confidence            488888888888887643   5566777775544443 23444444444   343444332          344444444


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      .+-.+-     .+.......++++...|+-|.-.+++.++..  .-.|++...-.+..||.+.|+..++.+++++.-+.|
T Consensus        78 C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   78 CYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKK--NEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhh--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            443321     2345566778889999999999999999873  445777788889999999999999999999999888


Q ss_pred             CC
Q 046547          273 CP  274 (343)
Q Consensus       273 ~~  274 (343)
                      ++
T Consensus       151 ~k  152 (161)
T PF09205_consen  151 LK  152 (161)
T ss_dssp             -H
T ss_pred             hH
Confidence            75

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.97  E-value=0.12  Score=28.16  Aligned_cols=27  Identities=7%  Similarity=0.001  Sum_probs=17.6

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      +|..|...|.+.|++++|+++|++...
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356667777777777777777776443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=93.88  E-value=2.5  Score=33.04  Aligned_cols=129  Identities=16%  Similarity=0.046  Sum_probs=97.3

Q ss_pred             CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC---CCCchh
Q 046547          202 CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG---CPIGFQ  278 (343)
Q Consensus       202 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~  278 (343)
                      ..|+...--.|-.++...|+..+|...|.+... .-+.-|....-.+.++....+++..|...++++.+..   -.||. 
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~-  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG-  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc-
Confidence            457777777889999999999999999999985 2345567778888889999999999999999988753   34443 


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                       .-.+-+.|...|++..|+.-|+...+.-  |+...-...-..+.+.|+.++|..-+
T Consensus       163 -~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         163 -HLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             -hHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHH
Confidence             3456677999999999999999988753  44443333345567777776665433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.62  E-value=1.6  Score=30.14  Aligned_cols=60  Identities=13%  Similarity=0.162  Sum_probs=36.2

Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      +..+-+..+....+.|+..+..+.+.+|-+.+++.-|.++|+.++.|.|  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            4555556666666777777777777777777777777777777776433  22336666654

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.53  E-value=9.2  Score=38.48  Aligned_cols=81  Identities=12%  Similarity=0.082  Sum_probs=39.1

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR  291 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  291 (343)
                      .+.+|..+|+|.+|+.+..++..  +-.--..+--.|+.-+...++.-+|-++..+....   |     .--+..|++..
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHh
Confidence            35555566666666666655542  11111112244555555556555555555544321   1     12233455555


Q ss_pred             cHhHHHHHHHH
Q 046547          292 EYILAGKTVMG  302 (343)
Q Consensus       292 ~~~~a~~~~~~  302 (343)
                      .+++|+++-..
T Consensus      1041 ~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1041 EWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHHh
Confidence            56666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.45  E-value=1  Score=37.68  Aligned_cols=76  Identities=11%  Similarity=0.076  Sum_probs=41.0

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH-----cCCCCchhhHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER-----KGCPIGFQGYEV  282 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~~~~  282 (343)
                      ++..++..+...|+.+.+.+.++++..  --+-+...|-.+|.+|.+.|+...|...|+.+.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~--~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIE--LDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHh--cCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            344555555555666666666665553  3334555566666666666666666555555443     355555554444


Q ss_pred             HHH
Q 046547          283 VVE  285 (343)
Q Consensus       283 li~  285 (343)
                      ...
T Consensus       233 y~~  235 (280)
T COG3629         233 YEE  235 (280)
T ss_pred             HHH
Confidence            333

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.33  E-value=2.3  Score=31.03  Aligned_cols=91  Identities=14%  Similarity=0.001  Sum_probs=66.7

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH---HHHHhcc
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV---EGCLECR  291 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li---~~~~~~g  291 (343)
                      ++...|+.+.|++.|.+...  -.+-....||.=..++--+|+.++|++=+++..+..-.-+.....+.+   ..|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            56778999999999998874  555677789999999999999999998888877642222333333322   2366788


Q ss_pred             cHhHHHHHHHHHhHCC
Q 046547          292 EYILAGKTVMGMTERG  307 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~g  307 (343)
                      +-+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888888877777

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.30  E-value=1.3  Score=37.23  Aligned_cols=78  Identities=22%  Similarity=0.125  Sum_probs=66.7

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH-----CCCCCCHHHHHH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE-----RGFIPYIKVRQK  317 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  317 (343)
                      .++..+++.+...|+++.+...++++.... +-+...|..+|.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            367889999999999999999999998853 34777999999999999999999999998765     499998887776


Q ss_pred             HHHH
Q 046547          318 VVEG  321 (343)
Q Consensus       318 li~~  321 (343)
                      ..+.
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            6666

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.24  E-value=7.9  Score=36.88  Aligned_cols=287  Identities=13%  Similarity=0.049  Sum_probs=161.8

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHh---hhhh---hcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFL---SNFP---QNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~~~~---~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      ...+|..+...+.+..|+++-..+...-... .+.|.   ....   .....+.++..-+.+...  .. +..+|..+-+
T Consensus       440 ~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~--~~-~~iSy~~iA~  515 (829)
T KOG2280|consen  440 EEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK--LT-PGISYAAIAR  515 (829)
T ss_pred             hhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc--CC-CceeHHHHHH
Confidence            3467899999999999999999887432222 33331   1111   112234555555554321  22 3466766665


Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCC----ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcC-----------CccCHh
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCV----PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIG-----------YHPDCG  172 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g-----------~~~~~~  172 (343)
                      .++ ..|+++.|..+++.=...+-.    .+..-+...+.-..+.+ +.+-...++-.+..+-           .+....
T Consensus       516 ~Ay-~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~-d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~  593 (829)
T KOG2280|consen  516 RAY-QEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESG-DTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALS  593 (829)
T ss_pred             HHH-hcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcC-CchhHHHHHHHHHHHHHHHHHHHHHHhchhhhH
Confidence            444 568999998887743222210    01111223333334443 4555555554443320           111112


Q ss_pred             hHHHHHH--------HHHccCcHHHHHHHHH--Hhh----hCCCCCCHhhHHHHHHHHhcCCC----------hhHHHHH
Q 046547          173 TCNYLVS--------SLCAIDQLVEAAKVLK--GMS----SAECVPDLESYSIVIGAMSTARK----------TNDAVEM  228 (343)
Q Consensus       173 ~~~~ll~--------~~~~~~~~~~a~~~~~--~m~----~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~  228 (343)
                      .|.-+++        .+.+.++-..+...|.  ...    ..|..|+..+   .-+++.+...          ..+-+++
T Consensus       594 lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~---~a~~~a~sk~~s~e~ka~ed~~kLl~l  670 (829)
T KOG2280|consen  594 LYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKT---AANAFAKSKEKSFEAKALEDQMKLLKL  670 (829)
T ss_pred             HHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHH---HHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence            2222222        1122233223332221  100    1233344332   2333433332          2233445


Q ss_pred             HHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC
Q 046547          229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       229 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                      .+.+..+.|..-...+.+--+.-+...|+..+|.++-.+.+    -||...|..=+.+++..+++++-+++-+.++.   
T Consensus       671 Q~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks---  743 (829)
T KOG2280|consen  671 QRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS---  743 (829)
T ss_pred             HHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC---
Confidence            55555545555555666777777889999999998877654    47899999999999999999998888776542   


Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          309 IPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       309 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                         +.-|.-++.+|.+.|+.++|.+++.+..
T Consensus       744 ---PIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  744 ---PIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             ---CCCchhHHHHHHhcccHHHHhhhhhccC
Confidence               3456778899999999999999887654

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.08  E-value=3.2  Score=31.92  Aligned_cols=135  Identities=13%  Similarity=0.108  Sum_probs=89.4

Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       191 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .+.++.+.+.+++|+...|..+++.+.+.|++...    ..+.. +++-||.......+-.+..  ....+.++=-+|..
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq-~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQ-YHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHh-hcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHH
Confidence            45667777889999999999999999999986554    44444 5777787666655544433  22334444444443


Q ss_pred             cCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          271 KGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       271 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      + .   ...+..+++.+...|++-+|+++........    ......++++..+.+|...-..+++-+.+
T Consensus        87 R-L---~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   87 R-L---GTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             H-h---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 0   0245677888999999999999998753321    12235567888777777666666555443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.06  E-value=5.8  Score=34.82  Aligned_cols=246  Identities=13%  Similarity=0.039  Sum_probs=120.0

Q ss_pred             cccchHHHHHHHHhcC-CCCCCCChhhHHHHHH-HHhhcCCChHHHHHHHHHHHhcCCCccHHHH--HHHHHHHHhccCc
Q 046547           76 NHRIKVIDEMLESFIP-LRPRSRPKIAYDYLLS-YTLQSLHPLPLALAILQRTLRSGCVPVPQIR--LLLSSAWLERRCQ  151 (343)
Q Consensus        76 ~~~~~~~~~~~~~~~~-~~~~~p~~~~~~~li~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--~~li~~~~~~~~~  151 (343)
                      .|+...+.+|-+...+ +..   |....-.++. -...-.|+.+.|.+-|+-|.+.   |.....  ..|.-. .+..|.
T Consensus        97 AGda~lARkmt~~~~~llss---DqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyle-Aqr~Ga  169 (531)
T COG3898          97 AGDASLARKMTARASKLLSS---DQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLE-AQRLGA  169 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhc---cchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHH-HHhccc
Confidence            4445555666555432 222   3233333332 0122347777777777777652   222221  111111 233344


Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCCHh--hHHHHHHHHhcC---CChhHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPDLE--SYSIVIGAMSTA---RKTNDA  225 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~--~~~~ll~~~~~~---~~~~~a  225 (343)
                      .+.|.++-+..-... +--...+...+...|..|+++.|+++++.-++.. +.++..  .-..|+.+-...   .+...|
T Consensus       170 reaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~A  248 (531)
T COG3898         170 REAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASA  248 (531)
T ss_pred             HHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHH
Confidence            555555555554332 1123456667777777777777777777655433 334432  233444433221   122333


Q ss_pred             HHHHHHHHhcCCCCCchhHH-HHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          226 VEMMKEMVLNMGLMPRQGMV-IKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       226 ~~~~~~m~~~~~~~p~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      ...-.+.   .++.||...- ..-..++.+.|+..++-.+++.+=+..-.|+..    .+..+.+.|  +.++.-+++..
T Consensus       249 r~~A~~a---~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia----~lY~~ar~g--dta~dRlkRa~  319 (531)
T COG3898         249 RDDALEA---NKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA----LLYVRARSG--DTALDRLKRAK  319 (531)
T ss_pred             HHHHHHH---hhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH----HHHHHhcCC--CcHHHHHHHHH
Confidence            3332222   3556664332 233456777788888888877776644444331    222333444  34444444333


Q ss_pred             HC-CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          305 ER-GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       305 ~~-g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      .. .++| +....-.+.++-...|++..|..--+..
T Consensus       320 ~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa  355 (531)
T COG3898         320 KLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAA  355 (531)
T ss_pred             HHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            22 2344 3445556667777777777776544433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.03  E-value=2.6  Score=30.77  Aligned_cols=92  Identities=12%  Similarity=0.031  Sum_probs=70.2

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH---HHHHHhC
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV---AAALRAN  255 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l---i~~~~~~  255 (343)
                      -++...|+++.|++.|.+.... .+-....||.=..++--.|+.++|++=+++..+-.|-. +.....+.   -..|-..
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            3577889999999999988764 34467889999999999999999999998888644433 33333333   3346678


Q ss_pred             ccHHHHHHHHHHHHHcC
Q 046547          256 REMWKAVEMIEFLERKG  272 (343)
Q Consensus       256 ~~~~~a~~~~~~m~~~g  272 (343)
                      |+-+.|..=|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            89999999998887766

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.03  E-value=3.7  Score=35.21  Aligned_cols=153  Identities=10%  Similarity=-0.095  Sum_probs=100.5

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC---CCCCCHhhHHHHHHHHhcCCChhHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA---ECVPDLESYSIVIGAMSTARKTNDAVE  227 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~  227 (343)
                      ...+|-..++++.+. .+.|...++..=.+|...|+.+.-...+++....   +++-.+..-.....++..+|-+++|.+
T Consensus       118 ~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk  196 (491)
T KOG2610|consen  118 KHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDAEK  196 (491)
T ss_pred             cccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhHHH
Confidence            466777777777664 5677777777778888888888888888887643   222223333344455567888888888


Q ss_pred             HHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC---CCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          228 MMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGC---PIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       228 ~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      .-++..+  --+-|...-.++.-.+--.|+..++.+++.+-....-   -.-..-|....-.+...+.++.|+++|+.-+
T Consensus       197 ~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~ei  274 (491)
T KOG2610|consen  197 QADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDREI  274 (491)
T ss_pred             HHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHHH
Confidence            8887763  2234566667777777778888888887766443211   1122334444445667788888888888644


Q ss_pred             HC
Q 046547          305 ER  306 (343)
Q Consensus       305 ~~  306 (343)
                      -.
T Consensus       275 ~k  276 (491)
T KOG2610|consen  275 WK  276 (491)
T ss_pred             HH
Confidence            33

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.01  E-value=1.1  Score=33.35  Aligned_cols=83  Identities=12%  Similarity=-0.024  Sum_probs=52.5

Q ss_pred             hhHHHHHHHHHHhCccHHHHHHHHHHHHHcC--CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC-CCHHHHHHH
Q 046547          242 QGMVIKVAAALRANREMWKAVEMIEFLERKG--CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI-PYIKVRQKV  318 (343)
Q Consensus       242 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~l  318 (343)
                      ...|+.-.. ..+.|++++|.+.|+.+...-  -.-....--.|+.+|.+.|++++|...+++.++..-. |+ .-|-..
T Consensus        11 ~~ly~~a~~-~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y   88 (142)
T PF13512_consen   11 QELYQEAQE-ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYY   88 (142)
T ss_pred             HHHHHHHHH-HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHH
Confidence            344544444 457788999999999887641  1112234456788888999999999999888775322 22 335455


Q ss_pred             HHHHhccC
Q 046547          319 VEGLAGVG  326 (343)
Q Consensus       319 i~~~~~~g  326 (343)
                      +.+++.-.
T Consensus        89 ~~gL~~~~   96 (142)
T PF13512_consen   89 MRGLSYYE   96 (142)
T ss_pred             HHHHHHHH
Confidence            55555443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.85  E-value=0.32  Score=25.84  Aligned_cols=31  Identities=19%  Similarity=0.190  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          313 KVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       313 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .+|..+...|...|++++|+..|++..+++|
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            4566777777788888888888887777654

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PRK15331 chaperone protein SicA; Provisional

Probab=92.67  E-value=2.6  Score=32.19  Aligned_cols=94  Identities=10%  Similarity=-0.055  Sum_probs=64.1

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                      .|..--. .+ ..|++++|..+|.-+.-.+  |...-|..=+.++++..+++++|...|......+ .-|+..+-..-.+
T Consensus        40 iY~~Ay~-~y-~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC  114 (165)
T PRK15331         40 LYAHAYE-FY-NQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQC  114 (165)
T ss_pred             HHHHHHH-HH-HCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHH
Confidence            3444443 34 4588999999988877633  4444455556666777778888888887765544 2344445556678


Q ss_pred             HHccCcHHHHHHHHHHhhh
Q 046547          181 LCAIDQLVEAAKVLKGMSS  199 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~  199 (343)
                      +...|+.+.|.+.|+....
T Consensus       115 ~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        115 QLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            8888899999888887776

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.66  E-value=0.87  Score=38.40  Aligned_cols=105  Identities=12%  Similarity=0.100  Sum_probs=73.7

Q ss_pred             hcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhc---CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC
Q 046547          128 RSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSI---GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP  204 (343)
Q Consensus       128 ~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  204 (343)
                      ..|......+...++... ....+++.+...+-.+...   -..|+...| .+++.+ ..-++++++.++..-.+.|+-|
T Consensus        57 ~~g~~~s~~~Vd~~V~v~-~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVI-SSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             hcCCCcceeehhhhhhcc-ccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhcccc
Confidence            445555666666666543 3234677788777666532   123333222 233333 3456779999999999999999


Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                      |..+++.+|+.+.+.++..+|.++.-.|..+
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999988887754

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.59  E-value=7.7  Score=35.27  Aligned_cols=153  Identities=9%  Similarity=-0.073  Sum_probs=101.0

Q ss_pred             CchhHHHHHHHHH-HhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHH
Q 046547          150 CQSQSVADILLEM-KSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEM  228 (343)
Q Consensus       150 ~~~~~a~~~~~~m-~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  228 (343)
                      ++++++.++...- .-..+  +..-.+.++..+-+.|..+.|+++-.+-.            .-.....+.|+++.|.++
T Consensus       275 ~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  275 GDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEI  340 (443)
T ss_dssp             T-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHH
T ss_pred             CChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHH
Confidence            4688777776511 11112  24558889999999999999988765432            224556678999999877


Q ss_pred             HHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC
Q 046547          229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       229 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                      .++.       ++...|..|-....+.|+++.|.+.|.+..         -|..|+--|...|+.+...++.+....+|-
T Consensus       341 a~~~-------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  341 AKEL-------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             CCCC-------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHhc-------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            5543       366789999999999999999999998653         355677778889998888888887777662


Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          309 IPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       309 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                            ++..+.++.-.|+.++..+++.+-
T Consensus       405 ------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  405 ------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             ------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence                  455566667777777777776653

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.56  E-value=3.9  Score=31.56  Aligned_cols=139  Identities=12%  Similarity=0.105  Sum_probs=89.6

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh-HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchh-HHHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLES-YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG-MVIK  247 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~  247 (343)
                      +...|..-+. +.+.+..++|+.-|.++.+.|...-... ---.-......|+...|...|+++-.. .-.|-.. -.--
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d-t~~P~~~rd~AR  135 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD-TSIPQIGRDLAR  135 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc-CCCcchhhHHHH
Confidence            3455655554 3567888999999999998775432211 112234456789999999999999864 3333222 1122


Q ss_pred             HH--HHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC
Q 046547          248 VA--AALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP  310 (343)
Q Consensus       248 li--~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  310 (343)
                      |=  ..+..+|.++....-.+-+-..|-+.-...-..|--+-.+.|++.+|.+.|..+.+....|
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            22  2355778888887777766554433333344566666778999999999999987765555

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.56  E-value=0.24  Score=28.41  Aligned_cols=28  Identities=14%  Similarity=0.087  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      ++..+..+|...|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555556666666666666555544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.42  E-value=8.3  Score=35.04  Aligned_cols=74  Identities=14%  Similarity=0.063  Sum_probs=50.3

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHH
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAECV-PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVA  249 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  249 (343)
                      ..+-.++.+.|+.++|.+.|++|.+..-. -+..+...|+.++...+...++..++.+..+ ...+. -...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD-i~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD-ISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc-ccCCchHHHHHHHHH
Confidence            44556667789999999999988764321 2344667788999999999999988888753 22222 234466544

The molecular function of this protein is uncertain.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=92.34  E-value=10  Score=35.96  Aligned_cols=60  Identities=12%  Similarity=0.140  Sum_probs=37.3

Q ss_pred             hHHHHH--HHHHhcccHhHHHHHHHHHhHC-CCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          279 GYEVVV--EGCLECREYILAGKTVMGMTER-GFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       279 ~~~~li--~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      .|.-+|  +--...|.++.|++.--.+.+- ++.|....|+.|.-+-|....+...-+.|-++
T Consensus      1021 AyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkL 1083 (1189)
T KOG2041|consen 1021 AYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKL 1083 (1189)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHH
Confidence            444444  4456678888888766555543 56777888887777666655554444444333

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=92.33  E-value=2  Score=37.65  Aligned_cols=126  Identities=13%  Similarity=0.040  Sum_probs=86.1

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHh----cCCCCCc---------hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVL----NMGLMPR---------QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~----~~~~~p~---------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      --+.|.+.|++..|..-|+....    ..+..+.         ..++..+.-++.+.+++..|++.-+...+.+ ++|..
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~K  292 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchh
Confidence            35678899999999999988663    1233332         4567888889999999999999999888743 22333


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHH-HHHHHhccCChh-HHHHHHHHHHh
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQK-VVEGLAGVGEWK-LATVVRQRFAE  340 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~-~a~~~~~~m~~  340 (343)
                      ..=.=-++|...|+++.|...|+++.+.  .|+-...+. |+..--+..+.. ...++|..|-.
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3333356788999999999999998864  465444443 443333344333 34677777754

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.30  E-value=3.3  Score=31.51  Aligned_cols=70  Identities=17%  Similarity=0.055  Sum_probs=38.3

Q ss_pred             cccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccC
Q 046547           76 NHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRC  150 (343)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  150 (343)
                      .+....++.+++.+..++|..|...++...+.  . ..|+|.+|..+|+++.+.+  |....-..|+..+....+
T Consensus        23 ~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~--i-~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   23 LGDPDDAEALLDALRVLRPEFPELDLFDGWLH--I-VRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALG   92 (160)
T ss_pred             cCChHHHHHHHHHHHHhCCCchHHHHHHHHHH--H-HhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcC
Confidence            33555566666666556666666666666663  2 3366777777777765543  333333444443334333

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=92.14  E-value=11  Score=35.57  Aligned_cols=22  Identities=9%  Similarity=-0.011  Sum_probs=13.2

Q ss_pred             HHHHhcccHhHHHHHHHHHhHC
Q 046547          285 EGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .+|.+.|+-.+|.++++++...
T Consensus       825 kAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  825 KAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHhcchHHHHHHHHHhhhh
Confidence            3455666666666666666443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.01  E-value=4.6  Score=31.16  Aligned_cols=136  Identities=13%  Similarity=0.060  Sum_probs=79.2

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh-hHHH
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG-TCNY  176 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~  176 (343)
                      +...|..-+.  +++.+..++|+..|.++.+.|...-+..-..-...+....++...|...|++.-.....|-.. -...
T Consensus        58 sgd~flaAL~--lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~AR  135 (221)
T COG4649          58 SGDAFLAALK--LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLAR  135 (221)
T ss_pred             chHHHHHHHH--HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHH
Confidence            3456666665  445566788888888887766553322222222222223345777777888776654444332 1122


Q ss_pred             HHH--HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          177 LVS--SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       177 ll~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                      |=.  .+...|.++.+..-.+-+-..+-+.-...-.+|--+-.+.|++.+|.++|..+..+
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            222  23457777777777776655544333444456666667778888888888877764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=91.94  E-value=2.7  Score=28.79  Aligned_cols=63  Identities=13%  Similarity=0.126  Sum_probs=37.3

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      +.-++.+-+..+....+.|+..+..+.++||-+.+++.-|.++|+.++.|.|  .+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            3444555555666666666666667777777777777777777766664322  23345555543

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.80  E-value=6.6  Score=32.58  Aligned_cols=97  Identities=8%  Similarity=-0.024  Sum_probs=63.8

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC---chhHHHHHHHHHHhCccHHHHHHHHHHHHHc-CCCCc-hhhHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP---RQGMVIKVAAALRANREMWKAVEMIEFLERK-GCPIG-FQGYE  281 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~-~~~~~  281 (343)
                      ..|+.-+..+ +.|++..|..-|.....  +.+-   ....+-.|-+++...|+++.|-.+|..+.+. +-.|. +..+-
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~--~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall  219 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIK--KYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL  219 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHH--cCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence            3577666544 55668888888888775  3322   2334667778888888888888888887753 21221 23444


Q ss_pred             HHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          282 VVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       282 ~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      -|-....+.|+.++|..+|.++.++
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            5555677788888888888887765

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.80  E-value=0.51  Score=24.88  Aligned_cols=30  Identities=13%  Similarity=0.102  Sum_probs=21.2

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .+..+-..|...|++++|++.|++..++.+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            455667777788888888888887777653

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PRK15331 chaperone protein SicA; Provisional

Probab=91.75  E-value=4.7  Score=30.80  Aligned_cols=87  Identities=10%  Similarity=0.053  Sum_probs=48.3

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      +...|++++|..+|.-+.. .+. -+..-+..|-.++-..+++++|...|......+. -|...+-..-.+|...|+.+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~-~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCI-YDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHH-hCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHH
Confidence            4456677777777766654 121 2233345555556666677777776665544322 122333334555666677777


Q ss_pred             HHHHHHHHhH
Q 046547          296 AGKTVMGMTE  305 (343)
Q Consensus       296 a~~~~~~m~~  305 (343)
                      |...|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            7776666555

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=91.63  E-value=9.2  Score=33.85  Aligned_cols=186  Identities=10%  Similarity=-0.052  Sum_probs=98.9

Q ss_pred             ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH--HHccCcHHHHHHHHHHhhhCCCCCCHhh--
Q 046547          133 PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS--LCAIDQLVEAAKVLKGMSSAECVPDLES--  208 (343)
Q Consensus       133 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~--  208 (343)
                      |.-.+|..+-.-++-..++.++|..+-....+..  + ...+..++++  +...++.+.|...|.+-...+  |+-..  
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld--~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk  240 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD--A-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSK  240 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc--c-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHH
Confidence            3334444444333334445677766655554421  1 2334444544  334677888888888776644  33221  


Q ss_pred             -HHHH----------HHHHhcCCChhHHHHHHHHHHhc--CCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC
Q 046547          209 -YSIV----------IGAMSTARKTNDAVEMMKEMVLN--MGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI  275 (343)
Q Consensus       209 -~~~l----------l~~~~~~~~~~~a~~~~~~m~~~--~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  275 (343)
                       -...          -+-..+.|++..|.+.|.+...-  .++.|+...|-....+..+.|+.++|+.--++..+  +.|
T Consensus       241 ~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~  318 (486)
T KOG0550|consen  241 SASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDS  318 (486)
T ss_pred             hHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCH
Confidence             1111          12345677888888888877620  13444555666666667777888888776666554  222


Q ss_pred             chhhHHHHHH--HHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHHHhccC
Q 046547          276 GFQGYEVVVE--GCLECREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLAGVG  326 (343)
Q Consensus       276 ~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g  326 (343)
                       ......+.+  ++.-.++|++|.+-++...+..-.+ ...++.....++-++.
T Consensus       319 -syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSk  371 (486)
T KOG0550|consen  319 -SYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSK  371 (486)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhh
Confidence             122222222  2445667777777777665543222 2344444444444433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=91.48  E-value=4.6  Score=30.08  Aligned_cols=75  Identities=9%  Similarity=0.028  Sum_probs=39.3

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      ..+.|++++|.+.|+.+..+.-..| ....--.++.+|.+.+++++|...+++.++..-.-...-|...+.|++.-
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            3455666667666666664311111 22334455666666777777776666666533211123455555554443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.96  E-value=4.6  Score=38.84  Aligned_cols=136  Identities=9%  Similarity=0.070  Sum_probs=72.3

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      +.|++++|..-|-+-... +.|     ..+|.-|....+ ...-..+++.+.+.|+. +...-+.||.+|.+.++.++-.
T Consensus       380 ~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~-IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~  451 (933)
T KOG2114|consen  380 GKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQR-IKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLT  451 (933)
T ss_pred             hcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHH-HHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHH
Confidence            447777776666554331 111     223444444432 45555667777766643 3455566777777777777766


Q ss_pred             HHHHHhhhCCCC-CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          192 KVLKGMSSAECV-PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       192 ~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +..+... .|.. .|   ....+..+-+.+-.++|..+-.....      +......++   -..+++++|.+.+..+
T Consensus       452 efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA~k~~~------he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  452 EFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLATKFKK------HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHHHHhcc------CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            6665544 3321 12   23445555556666666555444321      233333333   3456677777777654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=90.85  E-value=6.4  Score=34.60  Aligned_cols=124  Identities=14%  Similarity=-0.022  Sum_probs=85.6

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhC-----CCC---------CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchh
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSA-----ECV---------PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG  243 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~-----~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~  243 (343)
                      -+.|.+.|++..|..-|++....     +..         .-..++..+.-++.+.+++.+|++..+...+  --+++.-
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe--~~~~N~K  292 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLE--LDPNNVK  292 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHh--cCCCchh
Confidence            35678888888888887775431     111         1234677888899999999999999999885  3345555


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHH-HHHHHHhcccHh-HHHHHHHHHhH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEV-VVEGCLECREYI-LAGKTVMGMTE  305 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~-~a~~~~~~m~~  305 (343)
                      ..--=-.+|...|+++.|+..|..+.+  +.|+...-+. |+..--+..+.. ...++|..|-.
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            554556788889999999999999988  6676655443 444333444433 34677777754

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.83  E-value=6.1  Score=30.84  Aligned_cols=95  Identities=15%  Similarity=0.058  Sum_probs=51.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHHc---CCCCchhhHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLERK---GCPIGFQGYE  281 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~  281 (343)
                      ..+..+..-|++.|+.+.|.+.|..+.+. ...|.  ...+-.+|+.....+++..+...+.+....   |..++...--
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            45666667777777777777777776652 33333  233455666666667777776666655432   2222222211


Q ss_pred             HHHHH--HHhcccHhHHHHHHHH
Q 046547          282 VVVEG--CLECREYILAGKTVMG  302 (343)
Q Consensus       282 ~li~~--~~~~g~~~~a~~~~~~  302 (343)
                      ....+  +...|++.+|-+.|-+
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~  138 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLD  138 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHc
Confidence            22222  3345566666665543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.56  E-value=13  Score=33.79  Aligned_cols=153  Identities=9%  Similarity=0.035  Sum_probs=98.3

Q ss_pred             CCChHHHHHHHHHHH-hcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          113 LHPLPLALAILQRTL-RSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~-~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      .++++++.++...-. -..++  ..-.+.+++. .+..|..+.|+++-.+-.            .=.+...+.|+++.|.
T Consensus       274 ~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~f-L~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  274 RGDFEEVLRMIAASNLLPNIP--KDQGQSIARF-LEKKGYPELALQFVTDPD------------HRFELALQLGNLDIAL  338 (443)
T ss_dssp             TT-HHH-----HHHHTGGG----HHHHHHHHHH-HHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHH
T ss_pred             cCChhhhhhhhhhhhhcccCC--hhHHHHHHHH-HHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHH
Confidence            488999998886211 11122  3335666654 555556888877654321            1234466889999998


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      ++-++.      .+...|..|-+...+.|+++-|.+.|.+...          |..|+-.|.-.|+.+.-.++.+.....
T Consensus       339 ~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  339 EIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            665433      3677999999999999999999999988652          678888889999998888888877765


Q ss_pred             CCCCchhhHHHHHHHHHhcccHhHHHHHHHH
Q 046547          272 GCPIGFQGYEVVVEGCLECREYILAGKTVMG  302 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  302 (343)
                      |      -++....++.-.|+.++..+++.+
T Consensus       403 ~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 G------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             c------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5      245566667778888888887763

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.37  E-value=16  Score=34.44  Aligned_cols=180  Identities=14%  Similarity=0.053  Sum_probs=101.4

Q ss_pred             hHHHHHHHHHHhcCCccCHhhH-HHHHHH-HHccCcHHHHHHHHHHhhh-------CCCCCCHhhHHHHHHHHhcCC---
Q 046547          153 QSVADILLEMKSIGYHPDCGTC-NYLVSS-LCAIDQLVEAAKVLKGMSS-------AECVPDLESYSIVIGAMSTAR---  220 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~~~~~~~-~~ll~~-~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~---  220 (343)
                      ..+.++++...+.|..-..... .....+ ++...+++.|+..|+...+       .|   +.....-+-.+|.+..   
T Consensus       229 ~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~  305 (552)
T KOG1550|consen  229 SEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVE  305 (552)
T ss_pred             hHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCc
Confidence            4577777777776632211111 112223 4566788888888888766       44   2334455566665543   


Q ss_pred             --ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh-CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHH--HhcccHhH
Q 046547          221 --KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA-NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGC--LECREYIL  295 (343)
Q Consensus       221 --~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~--~~~g~~~~  295 (343)
                        +.+.|..++..... .|. |+....-..+.-... ..+..+|.++|......|..+-. -+-.++...  .-..+...
T Consensus       306 ~~d~~~A~~~~~~aA~-~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~-~~la~~y~~G~gv~r~~~~  382 (552)
T KOG1550|consen  306 KIDYEKALKLYTKAAE-LGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAI-YRLALCYELGLGVERNLEL  382 (552)
T ss_pred             cccHHHHHHHHHHHHh-cCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHH-HHHHHHHHhCCCcCCCHHH
Confidence              55668888888775 343 444333333322222 35678888888888887764321 221222111  13346778


Q ss_pred             HHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          296 AGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      |..++++..+.| .|- .... ..+..+.. +..+.+.-.+..+.++
T Consensus       383 A~~~~k~aA~~g-~~~A~~~~-~~~~~~g~-~~~~~~~~~~~~~a~~  426 (552)
T KOG1550|consen  383 AFAYYKKAAEKG-NPSAAYLL-GAFYEYGV-GRYDTALALYLYLAEL  426 (552)
T ss_pred             HHHHHHHHHHcc-ChhhHHHH-HHHHHHcc-ccccHHHHHHHHHHHh
Confidence            888888888888 333 3322 23334444 7777777766666554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.37  E-value=0.7  Score=25.08  Aligned_cols=26  Identities=8%  Similarity=-0.176  Sum_probs=17.5

Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      +|+.|-..|.+.|++++|.+++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35666777777777777777777743

>PRK11906 transcriptional regulator; Provisional

Probab=90.20  E-value=14  Score=33.42  Aligned_cols=149  Identities=11%  Similarity=0.015  Sum_probs=80.0

Q ss_pred             ChHHHHHHHHHHH-hcCCCccHHH-HHHHHHHHHhc--------cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc
Q 046547          115 PLPLALAILQRTL-RSGCVPVPQI-RLLLSSAWLER--------RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI  184 (343)
Q Consensus       115 ~~~~a~~~~~~m~-~~~~~p~~~~-~~~li~~~~~~--------~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~  184 (343)
                      +.+.|+.+|.+.. ...+.|+-.. |..+-.++...        .....+|.+.-+...+.+ .-|+.....+-.+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            4567888898887 2235565433 32222111111        112234555555555543 34555555565656677


Q ss_pred             CcHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHH
Q 046547          185 DQLVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       185 ~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      ++++.|...|++....+  || ..+|...-..+.-+|+.++|.+.+++..+-+-...-.......+..|+..+ .+.|..
T Consensus       352 ~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~  428 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIK  428 (458)
T ss_pred             cchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHH
Confidence            77888888888876643  44 233333333445578888888888885432111112222333344555555 666666


Q ss_pred             HHHH
Q 046547          264 MIEF  267 (343)
Q Consensus       264 ~~~~  267 (343)
                      ++-+
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            6653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.15  E-value=9.3  Score=31.35  Aligned_cols=79  Identities=11%  Similarity=-0.001  Sum_probs=44.0

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      ++....++++|...+.+..+. ..-+.    .+.++ +   +.++.|.-+.++|.+.  .--+..|+.-...|..+|.++
T Consensus        40 afRnAk~feKakdcLlkA~~~-yEnnr----slfhA-A---KayEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gspd  108 (308)
T KOG1585|consen   40 AFRNAKKFEKAKDCLLKASKG-YENNR----SLFHA-A---KAYEQAAMLAKELSKL--SEVVDLYEKASELYVECGSPD  108 (308)
T ss_pred             HHHhhccHHHHHHHHHHHHHH-HHhcc----cHHHH-H---HHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCcc
Confidence            677778888888877776531 11111    11222 1   1245555566666542  222345666667777777777


Q ss_pred             HHHHHHHHhh
Q 046547          189 EAAKVLKGMS  198 (343)
Q Consensus       189 ~a~~~~~~m~  198 (343)
                      .|-..+++.-
T Consensus       109 tAAmaleKAa  118 (308)
T KOG1585|consen  109 TAAMALEKAA  118 (308)
T ss_pred             hHHHHHHHHH
Confidence            7666665543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.01  E-value=0.9  Score=23.96  Aligned_cols=29  Identities=14%  Similarity=0.110  Sum_probs=21.1

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +|..+-..|...|++++|.+.|++..+++
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45666677777788888888777777665

...

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.97  E-value=19  Score=34.53  Aligned_cols=90  Identities=10%  Similarity=0.034  Sum_probs=45.3

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC-
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN-  255 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-  255 (343)
                      ....+.-.|+++.|.+.+-+  ..+...+.+.+.+.+..|.-.+-.+...   ..+.....-.|...-+..||..|++. 
T Consensus       264 Yf~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F  338 (613)
T PF04097_consen  264 YFQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSF  338 (613)
T ss_dssp             HHHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTT
T ss_pred             HHHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHH
Confidence            44567778999999988876  3345567777877777665443333322   22221001111125678888888864 


Q ss_pred             --ccHHHHHHHHHHHHHc
Q 046547          256 --REMWKAVEMIEFLERK  271 (343)
Q Consensus       256 --~~~~~a~~~~~~m~~~  271 (343)
                        .++.+|.+.+--+...
T Consensus       339 ~~td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  339 EITDPREALQYLYLICLF  356 (613)
T ss_dssp             TTT-HHHHHHHHHGGGGS
T ss_pred             hccCHHHHHHHHHHHHHc
Confidence              4778888887766543

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.81  E-value=3.6  Score=32.14  Aligned_cols=97  Identities=13%  Similarity=-0.025  Sum_probs=71.4

Q ss_pred             hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch--hhHHHHHHHHHhcccHhHHHHHHHHHhHC---CCCCCHHHHH
Q 046547          242 QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF--QGYEVVVEGCLECREYILAGKTVMGMTER---GFIPYIKVRQ  316 (343)
Q Consensus       242 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~~~~  316 (343)
                      ...+..+...|++.|+.+.|.+.|.++.+....|..  ..+-.+|+.....|++..+.....+....   |-.++...--
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            466889999999999999999999999987655543  35567888899999999999998887654   3323333322


Q ss_pred             HHHHH--HhccCChhHHHHHHHHH
Q 046547          317 KVVEG--LAGVGEWKLATVVRQRF  338 (343)
Q Consensus       317 ~li~~--~~~~g~~~~a~~~~~~m  338 (343)
                      ....+  +...|++..|-+.|-..
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHcc
Confidence            33343  34578999998887553

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.80  E-value=4.3  Score=30.39  Aligned_cols=52  Identities=23%  Similarity=0.200  Sum_probs=32.5

Q ss_pred             cccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcC
Q 046547           76 NHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSG  130 (343)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~  130 (343)
                      ......++.+++.+.-+.|..|...++...|.  . ..|+|++|..+|++..+.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~--i-~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLL--I-ARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHH--H-HcCCHHHHHHHHHhhhccC
Confidence            44455666666666666666666666666663  2 3467777777777776554

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.68  E-value=1.5  Score=24.97  Aligned_cols=26  Identities=4%  Similarity=-0.187  Sum_probs=12.5

Q ss_pred             HHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          281 EVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       281 ~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..+-..|...|++++|.++|++..+.
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33444455555555555555554443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=89.67  E-value=0.074  Score=39.89  Aligned_cols=120  Identities=12%  Similarity=0.053  Sum_probs=80.1

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      .++..+.+.+.++....+++.+..+ +...+....+.++..|++.+..++..++++.       .+..-...+++.|.+.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~   83 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKH   83 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhc
Confidence            4678888889999999999999964 6566788899999999999877888777771       1223334577888899


Q ss_pred             ccHhHHHHHHHHHhHCC--CC--CCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          291 REYILAGKTVMGMTERG--FI--PYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       291 g~~~~a~~~~~~m~~~g--~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      |.+++|..++.++....  +.  -...-+...++.+.+.++.+-...+.+..
T Consensus        84 ~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~  135 (143)
T PF00637_consen   84 GLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYC  135 (143)
T ss_dssp             TSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHH
T ss_pred             chHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            99999999888764332  11  12234444555555555544444444433

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.51  E-value=0.91  Score=25.20  Aligned_cols=28  Identities=11%  Similarity=0.141  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          313 KVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       313 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .+++.|...|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4555666666666666666666666544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.44  E-value=3.9  Score=28.03  Aligned_cols=45  Identities=16%  Similarity=0.224  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          224 DAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       224 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      ++.+-++.+.. ..+.|++....+-+++|-+-+++..|.++++-.+
T Consensus        25 e~rr~mN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFG-YDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34444444443 3455555555555555555555555555555444

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.25  E-value=4.8  Score=27.91  Aligned_cols=77  Identities=9%  Similarity=0.065  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhCc--cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHH
Q 046547          244 MVIKVAAALRANR--EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEG  321 (343)
Q Consensus       244 ~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  321 (343)
                      -|++=-..|....  +..+..+-++.+....+.|++....+.+++|.+.+++..|.++|+-.+.+- .+....|..+++-
T Consensus        10 eF~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   10 EFDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHHH
T ss_pred             HHHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHHH
Confidence            3444444444433  444777777777777888999999999999999999999999999887662 2223377776654

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=89.02  E-value=28  Score=35.31  Aligned_cols=49  Identities=16%  Similarity=0.196  Sum_probs=26.7

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          210 SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       210 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      -.|+.-+...+++-+|-++..+...+         +.-.+..||+...|++|.++...
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~sd---------~~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD---------PEEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhcC---------HHHHHHHHhhHhHHHHHHHHHHh
Confidence            34555555666666666666655532         22334445566666666665553

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.97  E-value=13  Score=31.37  Aligned_cols=85  Identities=12%  Similarity=-0.048  Sum_probs=47.5

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh---ccCc-------hhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLE---RRCQ-------SQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---~~~~-------~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      +..+.=..+.--+..++..+.-......++.+.+.++..   .+++       ..+|.++|.-+.++.-+  +.+-+.++
T Consensus        96 Yl~KPvt~ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk--~v~~~~~i  173 (361)
T COG3947          96 YLPKPVTPEKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGK--EVTSWEAI  173 (361)
T ss_pred             hccCCCCHHHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCC--cccHhHHH
Confidence            444444455666666666554444455666666665431   0111       13677777777665322  34556667


Q ss_pred             HHHHccCcHHHHHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLK  195 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~  195 (343)
                      .++....+..+|...+.
T Consensus       174 e~lwpe~D~kka~s~lh  190 (361)
T COG3947         174 EALWPEKDEKKASSLLH  190 (361)
T ss_pred             HHHccccchhhHHHHHH
Confidence            77777777777766544

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=88.78  E-value=8.2  Score=28.87  Aligned_cols=49  Identities=12%  Similarity=0.119  Sum_probs=24.5

Q ss_pred             HhhHHHHHHHHHccCc-HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC
Q 046547          171 CGTCNYLVSSLCAIDQ-LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA  219 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  219 (343)
                      ..+|++++.+..+... ---+..+|.-|++.+.+++..-|..+|.++.+.
T Consensus        79 ~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   79 NSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             cchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence            3445555555544443 233444555555545555555555555555444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=88.51  E-value=11  Score=29.77  Aligned_cols=192  Identities=14%  Similarity=0.044  Sum_probs=99.4

Q ss_pred             HhhcCCChHHHHHHHHHHHhc-CCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH-HHHccCc
Q 046547          109 TLQSLHPLPLALAILQRTLRS-GCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS-SLCAIDQ  186 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~-~~~~~~~  186 (343)
                      .+...+++..+...+...... ........+......+... +....+.+.+.........+. ........ .+...|+
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  145 (291)
T COG0457          68 ALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEAL-GKYEEALELLEKALALDPDPD-LAEALLALGALYELGD  145 (291)
T ss_pred             HHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHH-hhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHHHHHcCC
Confidence            445556677777777666542 1122223333333332232 345666666666655433321 12222222 5667777


Q ss_pred             HHHHHHHHHHhhhCCC--CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHH
Q 046547          187 LVEAAKVLKGMSSAEC--VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      ++.|...+.+......  ......+......+...++.+.+...+.....  .... ....+..+-..+...++.+.+..
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~  223 (291)
T COG0457         146 YEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK--LNPDDDAEALLNLGLLYLKLGKYEEALE  223 (291)
T ss_pred             HHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh--hCcccchHHHHHhhHHHHHcccHHHHHH
Confidence            7777777777644211  11233333334445566677777777777663  2223 35556666666666667777777


Q ss_pred             HHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          264 MIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       264 ~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .+......  .|+ ...+..+...+...+..+.+...+.+....
T Consensus       224 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         224 YYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77766553  222 223333333333555566666666665543

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.43  E-value=8.4  Score=30.56  Aligned_cols=79  Identities=8%  Similarity=0.029  Sum_probs=36.7

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc--CCCCCchhHHHHHHHHHHhCccH
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN--MGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      +.+.|+ +.|.+.|-.+...+.--+......|..-|. ..+.+++..++....+-  .+-.+|+..+.+|+..+-+.|+.
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            334444 345555555555544333333333333333 44455555555554431  12234455555555555555555


Q ss_pred             HHH
Q 046547          259 WKA  261 (343)
Q Consensus       259 ~~a  261 (343)
                      +.|
T Consensus       195 e~A  197 (203)
T PF11207_consen  195 EQA  197 (203)
T ss_pred             hhh
Confidence            544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.29  E-value=21  Score=34.68  Aligned_cols=182  Identities=8%  Similarity=0.064  Sum_probs=107.5

Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHH---HHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSS---AWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~---~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      +...++-|+.+-+   ..+..++  +...+..   .|+...+++++|...|-+-... +.|.     .+|.-|....++.
T Consensus       346 kK~ly~~Ai~LAk---~~~~d~d--~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~Ik  414 (933)
T KOG2114|consen  346 KKNLYKVAINLAK---SQHLDED--TLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIK  414 (933)
T ss_pred             HhhhHHHHHHHHH---hcCCCHH--HHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHH
Confidence            3355666665543   3333333  3223332   2333345688887766655432 3332     3566677777777


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      .-..+++.+.+.|.. +...-+.|+++|.+.++.++-.++.+... + |..-  .-....+..+-+.+-.++|..+-...
T Consensus       415 nLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~-g~~~--fd~e~al~Ilr~snyl~~a~~LA~k~  489 (933)
T KOG2114|consen  415 NLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-K-GEWF--FDVETALEILRKSNYLDEAELLATKF  489 (933)
T ss_pred             HHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-C-ccee--eeHHHHHHHHHHhChHHHHHHHHHHh
Confidence            888888888888874 45556778899999998888777766654 2 3221  11345667777777777777766654


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHH
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQK  317 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (343)
                      ..     .......   .+-..|++++|+++++.+--....+....|..
T Consensus       490 ~~-----he~vl~i---lle~~~ny~eAl~yi~slp~~e~l~~l~kyGk  530 (933)
T KOG2114|consen  490 KK-----HEWVLDI---LLEDLHNYEEALRYISSLPISELLRTLNKYGK  530 (933)
T ss_pred             cc-----CHHHHHH---HHHHhcCHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            32     2223333   34467889999999886632222233444443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=88.22  E-value=0.23  Score=37.20  Aligned_cols=131  Identities=10%  Similarity=0.014  Sum_probs=93.9

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                      ..++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++...   +     .-...++..|.+
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~-----yd~~~~~~~c~~   82 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---N-----YDLDKALRLCEK   82 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---S-----S-CTHHHHHHHT
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc---c-----cCHHHHHHHHHh
Confidence            34677888889999999999999987766778999999999999998899998888321   2     333567888889


Q ss_pred             CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCCh
Q 046547          255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEW  328 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  328 (343)
                      .|.+++|.-++.++....-.         +..+...++++.|.++..+      .++...|..++..+...+..
T Consensus        83 ~~l~~~a~~Ly~~~~~~~~a---------l~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   83 HGLYEEAVYLYSKLGNHDEA---------LEILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             TTSHHHHHHHHHCCTTHTTC---------SSTSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTCT
T ss_pred             cchHHHHHHHHHHcccHHHH---------HHHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCcc
Confidence            99999998888865432111         1113456677777754442      24578889999888877654

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.02  E-value=5.6  Score=37.94  Aligned_cols=26  Identities=8%  Similarity=0.199  Sum_probs=16.8

Q ss_pred             hhHHHHHHH-----HHhcccHhHHHHHHHHH
Q 046547          278 QGYEVVVEG-----CLECREYILAGKTVMGM  303 (343)
Q Consensus       278 ~~~~~li~~-----~~~~g~~~~a~~~~~~m  303 (343)
                      .|+..|++.     +...|+++.|++.++++
T Consensus       501 ~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  501 ETFQLLLDLAEFFDLYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            355555443     56788899998887765

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.42  E-value=20  Score=31.69  Aligned_cols=249  Identities=16%  Similarity=0.084  Sum_probs=123.2

Q ss_pred             ccCcchHHHHHHHchhcCCCCChHHH-hhhh-hhcccchHHHHHHHHhcCCCCCCCC-hhhHHHHHHHHhhcCCChHHHH
Q 046547           44 AKDYQQIPELLGSFEEACQNPNPFSF-LSNF-PQNHRIKVIDEMLESFIPLRPRSRP-KIAYDYLLSYTLQSLHPLPLAL  120 (343)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~p~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~  120 (343)
                      .|+++.|.+-|+.|..   .|..... +..+ ....+.+.-+-..+....-.+.-|. ...+.+.+. ..|..|+|+.|+
T Consensus       133 eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe-~r~~~gdWd~Al  208 (531)
T COG3898         133 EGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLE-ARCAAGDWDGAL  208 (531)
T ss_pred             cCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHH-HHHhcCChHHHH
Confidence            5777888888877764   2333222 1111 1111121111122211111111222 366777775 455668888888


Q ss_pred             HHHHHHHhcC-CCccHHH--HHHHHHHHHh--ccCchhHHHHHHHHHHhcCCccCHhhHH-HHHHHHHccCcHHHHHHHH
Q 046547          121 AILQRTLRSG-CVPVPQI--RLLLSSAWLE--RRCQSQSVADILLEMKSIGYHPDCGTCN-YLVSSLCAIDQLVEAAKVL  194 (343)
Q Consensus       121 ~~~~~m~~~~-~~p~~~~--~~~li~~~~~--~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~ll~~~~~~~~~~~a~~~~  194 (343)
                      ++++.-++.. +.++..-  -..|+.+-..  ...+...|...-.+..+  +.||..--. .--.++.+.|++.++-+++
T Consensus       209 kLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~il  286 (531)
T COG3898         209 KLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKIL  286 (531)
T ss_pred             HHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHH
Confidence            8888765433 3333321  1223322111  11123334333333322  344433221 1234677788888888888


Q ss_pred             HHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC
Q 046547          195 KGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGC  273 (343)
Q Consensus       195 ~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  273 (343)
                      +.+=+....|+..    .+..+.+.|+..  ..=++....-...+| +...--.+..+....|++..|..--+....  .
T Consensus       287 E~aWK~ePHP~ia----~lY~~ar~gdta--~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~  358 (531)
T COG3898         287 ETAWKAEPHPDIA----LLYVRARSGDTA--LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--E  358 (531)
T ss_pred             HHHHhcCCChHHH----HHHHHhcCCCcH--HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--h
Confidence            8887765555432    333444555532  222222221112233 344455566667777777777665554443  4


Q ss_pred             CCchhhHHHHHHHH-HhcccHhHHHHHHHHHhHC
Q 046547          274 PIGFQGYEVVVEGC-LECREYILAGKTVMGMTER  306 (343)
Q Consensus       274 ~p~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~  306 (343)
                      .|....|..|-+.- ...|+-.++...+-+....
T Consensus       359 ~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         359 APRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            57777777666553 3447777777777766543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.01  E-value=16  Score=30.18  Aligned_cols=66  Identities=8%  Similarity=-0.069  Sum_probs=32.8

Q ss_pred             ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC--ccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC
Q 046547          133 PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGY--HPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA  200 (343)
Q Consensus       133 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  200 (343)
                      |-...|+.-+.. .+.| ++++|.+.|+.+...-.  +-...+--.++-++.+.++++.|...+++....
T Consensus        33 p~~~LY~~g~~~-L~~g-n~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          33 PASELYNEGLTE-LQKG-NYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             CHHHHHHHHHHH-HhcC-CHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            334445555544 3433 46666666666653310  111233334444555666666666666665543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=86.05  E-value=28  Score=32.00  Aligned_cols=165  Identities=10%  Similarity=0.063  Sum_probs=110.3

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL  177 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  177 (343)
                      |....-+++. .+.....+.-+..+-.+|..-|  -+...|..++..|...+  .+.-..+|+++.+..+  +.....--
T Consensus        65 ~d~~l~~~~~-~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en~--n~~l~~lWer~ve~df--nDvv~~Re  137 (711)
T COG1747          65 DDSCLVTLLT-IFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKENG--NEQLYSLWERLVEYDF--NDVVIGRE  137 (711)
T ss_pred             cchHHHHHHH-HhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhcC--chhhHHHHHHHHHhcc--hhHHHHHH
Confidence            4455556665 6777777788888888888755  56667788888777663  4677888888877543  34444444


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCC-----HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSAECVPD-----LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      +..+...++.+++...|.+....-++.-     ...|.-+...-  ..+.|..+++...++.+.|..--...+.-+-.-|
T Consensus       138 La~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         138 LADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            5555555788888888877765433211     12344443321  4567778888888877666666666777777778


Q ss_pred             HhCccHHHHHHHHHHHHHc
Q 046547          253 RANREMWKAVEMIEFLERK  271 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~  271 (343)
                      ....++++|.+++....+.
T Consensus       216 s~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         216 SENENWTEAIRILKHILEH  234 (711)
T ss_pred             ccccCHHHHHHHHHHHhhh
Confidence            8888888888888866654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=85.91  E-value=26  Score=31.60  Aligned_cols=293  Identities=12%  Similarity=0.049  Sum_probs=156.1

Q ss_pred             HHHHHHHhCccCcchHHHHHHHchhcCC----CCChHHHhhhhhhcccchHHHHHHHH----------------hcCC--
Q 046547           35 EETVRAAVDAKDYQQIPELLGSFEEACQ----NPNPFSFLSNFPQNHRIKVIDEMLES----------------FIPL--   92 (343)
Q Consensus        35 ~~li~~~~~~~~~~~a~~~~~~m~~~~~----~p~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~--   92 (343)
                      +..+..+-..|++.+++.+++++...=.    .=++.+|..+....|+.=. -++.+.                ..++  
T Consensus       132 ~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYf-LEl~e~~s~dl~pdyYemilfY~kki~~  210 (549)
T PF07079_consen  132 EIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYF-LELKESMSSDLYPDYYEMILFYLKKIHA  210 (549)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHH-HHHHHhcccccChHHHHHHHHHHHHHHH
Confidence            5678888999999999999998886433    3566666553333333111 111110                0000  


Q ss_pred             ------CCCCCChhhHHHHHHHHhhcC-CChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHh
Q 046547           93 ------RPRSRPKIAYDYLLSYTLQSL-HPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKS  164 (343)
Q Consensus        93 ------~~~~p~~~~~~~li~~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~  164 (343)
                            ....|-......++.+.+.-. .+..--.+++..-...-+.|+... ...++..+.+   +.+++..+-+.+..
T Consensus       211 ~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~---~~e~~~~~ce~ia~  287 (549)
T PF07079_consen  211 FDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS---DPEQVGHFCEAIAS  287 (549)
T ss_pred             HhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc---ChHHHHHHHHHHHH
Confidence                  112233344444444333321 112223344444444445565332 2333333333   23455555555543


Q ss_pred             cCCcc----CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh---------------------hHHH--------
Q 046547          165 IGYHP----DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLE---------------------SYSI--------  211 (343)
Q Consensus       165 ~g~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---------------------~~~~--------  211 (343)
                      ..+.+    =..+|..++....+.++...|.+.+.-++-.  .|+..                     .|+.        
T Consensus       288 ~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lw  365 (549)
T PF07079_consen  288 SKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLW  365 (549)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            32222    2457888888888888888887776654432  12111                     1110        


Q ss_pred             ----------------HH---HHHhcCCC-hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh--------CccHHHHHH
Q 046547          212 ----------------VI---GAMSTARK-TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA--------NREMWKAVE  263 (343)
Q Consensus       212 ----------------ll---~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~--------~~~~~~a~~  263 (343)
                                      |+   .-+-+.|. -++|+++++.+..   +.|...-.-+.+.-+.+        ...+.+-..
T Consensus       366 e~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlk  442 (549)
T PF07079_consen  366 EEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLK  442 (549)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence                            11   11222333 5667777777663   22322222222222222        233444555


Q ss_pred             HHHHHHHcCCCCchh----hHHHHHHH--HHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          264 MIEFLERKGCPIGFQ----GYEVVVEG--CLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       264 ~~~~m~~~g~~p~~~----~~~~li~~--~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      +-+-..+.|+.|-..    .-|.|-++  +...|++.++.-.-..+.  .+.|++.+|..+.-++....++++|..++..
T Consensus       443 Le~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~--~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~  520 (549)
T PF07079_consen  443 LEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT--KIAPSPQAYRLLGLCLMENKRYQEAWEYLQK  520 (549)
T ss_pred             HHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH--HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence            555566778876433    34445444  556788888876665554  3679999999999999999999999999876


Q ss_pred             H
Q 046547          338 F  338 (343)
Q Consensus       338 m  338 (343)
                      +
T Consensus       521 L  521 (549)
T PF07079_consen  521 L  521 (549)
T ss_pred             C
Confidence            4

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=85.72  E-value=15  Score=28.77  Aligned_cols=225  Identities=16%  Similarity=0.048  Sum_probs=151.4

Q ss_pred             CChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhc-CCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSI-GYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      +....+...+.......... ....+......+...+ ....+...+...... ........+......+...++...+.
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLG-RLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcc-cHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45666666666666544221 2445555555555654 577777777776642 33445566777777788888899999


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHH-HHhcCCChhHHHHHHHHHHhcCCC--CCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          192 KVLKGMSSAECVPDLESYSIVIG-AMSTARKTNDAVEMMKEMVLNMGL--MPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +.+.........+ ......... .+...|+++.|...+..... ...  ......+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            9999888755443 122222333 78899999999999999853 121  123444555555567788999999999998


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .+.........+..+-..+...++++.|...+.......-. ....+..+...+...|..+++...+.+..+..
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            87432213567777888888999999999999988765422 24455555555557778999998888776643

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.51  E-value=23  Score=30.61  Aligned_cols=153  Identities=11%  Similarity=-0.060  Sum_probs=98.5

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh----hHHHHHHHHHccCcHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG----TCNYLVSSLCAIDQLV  188 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~----~~~~ll~~~~~~~~~~  188 (343)
                      .|.+.+|-..++++.+. .+.|...++..=.++...|++. .-...+++.... ..||..    .-..+--++...|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~-~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQI-GKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchh-hhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            48888999999998874 4556666766666766776644 445555555432 133332    2233344556789999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC--CCCchhHHHHHHHHHHhCccHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMG--LMPRQGMVIKVAAALRANREMWKAVEMIE  266 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~  266 (343)
                      +|.+.-++..+.+ +.|...-.++...+--.|++.++.++..+-.....  -..-..-|=-..-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9998888877654 34667777888888889999999988777553211  11111122222334556689999999998


Q ss_pred             HHH
Q 046547          267 FLE  269 (343)
Q Consensus       267 ~m~  269 (343)
                      .=.
T Consensus       272 ~ei  274 (491)
T KOG2610|consen  272 REI  274 (491)
T ss_pred             HHH
Confidence            644

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.06  E-value=25  Score=30.62  Aligned_cols=70  Identities=10%  Similarity=-0.118  Sum_probs=42.9

Q ss_pred             CchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC---chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          240 PRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI---GFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       240 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      ....+|..+...+.+.|.++.|...+..+...+..+   +....-.-.......|+..+|...+++.....+.
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~  216 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLS  216 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Confidence            345567777777778888888877777776543211   1222223344566677777777777776664433

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=84.96  E-value=12  Score=29.71  Aligned_cols=78  Identities=9%  Similarity=0.005  Sum_probs=36.8

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc---CCCCchhhHHHHHHHHHhccc
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK---GCPIGFQGYEVVVEGCLECRE  292 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~  292 (343)
                      +.+.|+ +.|.+.|-.+.. .+..-|+..--.|...|. ..+.+++..++....+.   +-.+|+..+..|...|.+.|+
T Consensus       117 Wsr~~d-~~A~~~fL~~E~-~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~  193 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEG-TPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKN  193 (203)
T ss_pred             hhccCc-HHHHHHHHHHcC-CCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcc
Confidence            334444 445555555553 233334444444444443 33455555555554432   224455555555555555555


Q ss_pred             HhHH
Q 046547          293 YILA  296 (343)
Q Consensus       293 ~~~a  296 (343)
                      ++.|
T Consensus       194 ~e~A  197 (203)
T PF11207_consen  194 YEQA  197 (203)
T ss_pred             hhhh
Confidence            5544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.82  E-value=2.7  Score=23.12  Aligned_cols=25  Identities=28%  Similarity=0.284  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +++.|...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444444444455555554444443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=84.75  E-value=23  Score=29.95  Aligned_cols=198  Identities=15%  Similarity=0.090  Sum_probs=106.9

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhc--------CCCccH-----HHHHHHHHHHHhccC--chhHHHHHHHHHHh
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRS--------GCVPVP-----QIRLLLSSAWLERRC--QSQSVADILLEMKS  164 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~--------~~~p~~-----~~~~~li~~~~~~~~--~~~~a~~~~~~m~~  164 (343)
                      ..||.-.+ .+.+..+++.|...+++..+.        ...|+.     .+...+..++...+.  ..++|.++++.+..
T Consensus        37 ~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~  115 (278)
T PF08631_consen   37 VCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLES  115 (278)
T ss_pred             HHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHH
Confidence            34555554 444422777776666655332        122333     445566667665432  23456777777754


Q ss_pred             cCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH---hcCCChhHHHHHHHHHHhcCCCCCc
Q 046547          165 IGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM---STARKTNDAVEMMKEMVLNMGLMPR  241 (343)
Q Consensus       165 ~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~---~~~~~~~~a~~~~~~m~~~~~~~p~  241 (343)
                      .. .-.+.+|-.-+..+.+.++.+.+.+++.+|...-. .....+..++..+   .... ...|...++.+... .+.|.
T Consensus       116 e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~-~~e~~~~~~l~~i~~l~~~~-~~~a~~~ld~~l~~-r~~~~  191 (278)
T PF08631_consen  116 EY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD-HSESNFDSILHHIKQLAEKS-PELAAFCLDYLLLN-RFKSS  191 (278)
T ss_pred             hC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc-cccchHHHHHHHHHHHHhhC-cHHHHHHHHHHHHH-HhCCC
Confidence            42 22345666667777778999999999999987632 1334455555444   4433 35566666666653 55555


Q ss_pred             hh--HHHHHHHH---HHhCc------cHHHHHHHHHHHHHc-CCCCchhhH---HHHHH----HHHhcccHhHHHHHHHH
Q 046547          242 QG--MVIKVAAA---LRANR------EMWKAVEMIEFLERK-GCPIGFQGY---EVVVE----GCLECREYILAGKTVMG  302 (343)
Q Consensus       242 ~~--~~~~li~~---~~~~~------~~~~a~~~~~~m~~~-g~~p~~~~~---~~li~----~~~~~g~~~~a~~~~~~  302 (343)
                      ..  .=..++.-   ....+      .++...++++...+. +.+.+..+-   .+|+.    .+.+.+++++|.++|+-
T Consensus       192 ~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  192 EDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             hhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            53  11111111   11211      245555556643332 233333332   23332    25578899999999874

It is also involved in sporulation [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=84.31  E-value=1.3  Score=23.73  Aligned_cols=22  Identities=9%  Similarity=0.131  Sum_probs=15.8

Q ss_pred             CHHHHHHHHHHHhccCChhHHH
Q 046547          311 YIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       311 ~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      |...|..+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5667777777777777777765

>PRK11906 transcriptional regulator; Provisional

Probab=84.25  E-value=32  Score=31.19  Aligned_cols=159  Identities=8%  Similarity=-0.006  Sum_probs=83.9

Q ss_pred             hhH--HHHHHHHHcc-----CcHHHHHHHHHHhhh-CCCCCC-HhhHHHHHHHHhcC---------CChhHHHHHHHHHH
Q 046547          172 GTC--NYLVSSLCAI-----DQLVEAAKVLKGMSS-AECVPD-LESYSIVIGAMSTA---------RKTNDAVEMMKEMV  233 (343)
Q Consensus       172 ~~~--~~ll~~~~~~-----~~~~~a~~~~~~m~~-~~~~~~-~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~  233 (343)
                      ..|  ..++.+....     ...+.|..+|.+..+ ....|+ ...|..+-.++...         .+..+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            345  5555554441     234567777777662 223444 44555554443221         12334555555554


Q ss_pred             hcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-
Q 046547          234 LNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECREYILAGKTVMGMTERGFIPY-  311 (343)
Q Consensus       234 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-  311 (343)
                      +  --+-|......+-.+....++.+.|..+|++...  +.||.. +|-..-....-.|+.++|.+.+++..+.  .|. 
T Consensus       332 e--ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~  405 (458)
T PRK11906        332 D--ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRR  405 (458)
T ss_pred             h--cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--Cchh
Confidence            3  1223455555555555666667888888877665  445543 3333333345577778888777774433  342 


Q ss_pred             --HHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          312 --IKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       312 --~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                        .......++.|+..+ .++|+++|-+
T Consensus       406 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        406 RKAVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             hHHHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence              334444455666655 5666666543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=84.16  E-value=4.7  Score=34.66  Aligned_cols=82  Identities=13%  Similarity=0.027  Sum_probs=55.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc
Q 046547          213 IGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR  291 (343)
Q Consensus       213 l~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  291 (343)
                      -+-|.+.|.+++|++.|..-.   .+.| +.+++..-..+|.+...+..|..=-+.....    |    ...+.+|.+.+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL----d----~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL----D----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh----h----HHHHHHHHHHH
Confidence            366888899999999988765   3345 7888888888899988888776544444321    1    13356677666


Q ss_pred             cHhHHHHHHHHHhH
Q 046547          292 EYILAGKTVMGMTE  305 (343)
Q Consensus       292 ~~~~a~~~~~~m~~  305 (343)
                      ....++....+.++
T Consensus       173 ~AR~~Lg~~~EAKk  186 (536)
T KOG4648|consen  173 QARESLGNNMEAKK  186 (536)
T ss_pred             HHHHHHhhHHHHHH
Confidence            66655555555543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.12  E-value=3  Score=21.87  Aligned_cols=20  Identities=15%  Similarity=0.033  Sum_probs=7.3

Q ss_pred             HHHHHHhCccHHHHHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~  267 (343)
                      +-.+|...|++++|...|++
T Consensus         7 ~g~~~~~~~~~~~A~~~~~~   26 (34)
T PF00515_consen    7 LGNAYFQLGDYEEALEYYQR   26 (34)
T ss_dssp             HHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHhCCchHHHHHHHH
Confidence            33333333333333333333

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.22  E-value=15  Score=33.30  Aligned_cols=123  Identities=11%  Similarity=-0.094  Sum_probs=71.6

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      -...|+.-.|.+-+....++..-.|+.....+.|  +...|.++.+.+.+....+. +.....+-.++++...+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            3345666555444333333234445544444433  45667788887777765432 33445567777888888888888


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      |..+-.-|....+. +........-..-..|-+|++.-.|+++..+.
T Consensus       376 a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        376 ALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            88887777766554 33333333333444566777777777765544

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=82.93  E-value=6.5  Score=31.15  Aligned_cols=52  Identities=12%  Similarity=-0.120  Sum_probs=30.4

Q ss_pred             hCccHHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          254 ANREMWKAVEMIEFLERK-GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ...+.+......+.+.+. ...|+..+|..++..+...|+.++|.++..++..
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444444433333321 3557777777777777777777777777766654

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=82.38  E-value=6.4  Score=25.87  Aligned_cols=46  Identities=13%  Similarity=0.018  Sum_probs=21.0

Q ss_pred             hCccHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcccHhHHHHH
Q 046547          254 ANREMWKAVEMIEFLERKGCPIG--FQGYEVVVEGCLECREYILAGKT  299 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~  299 (343)
                      ..++.++|+..|+...+.-..|.  ..++..|+.+|+..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555444322221  12444555555555555554443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=81.99  E-value=1.8  Score=21.41  Aligned_cols=21  Identities=14%  Similarity=0.098  Sum_probs=12.5

Q ss_pred             HHHHHHHhccCChhHHHHHHH
Q 046547          316 QKVVEGLAGVGEWKLATVVRQ  336 (343)
Q Consensus       316 ~~li~~~~~~g~~~~a~~~~~  336 (343)
                      ..+..++...|++++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            345556666666666666554

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=81.92  E-value=19  Score=26.95  Aligned_cols=84  Identities=5%  Similarity=-0.064  Sum_probs=49.2

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcC-----CCCchhhHHHHHHHHHhccc-HhHHHHHHHHHhHCCCCCCHHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKG-----CPIGFQGYEVVVEGCLECRE-YILAGKTVMGMTERGFIPYIKVRQKV  318 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~l  318 (343)
                      .|+++.-....+++.-...+++.+..-.     -..+..+|++++.+..+..- --.+..+|+-|++.+.+++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            4555555565666666666655553210     01244567777777765555 33455666667666677777777777


Q ss_pred             HHHHhccCCh
Q 046547          319 VEGLAGVGEW  328 (343)
Q Consensus       319 i~~~~~~g~~  328 (343)
                      |.++.+.-..
T Consensus       122 i~~~l~g~~~  131 (145)
T PF13762_consen  122 IKAALRGYFH  131 (145)
T ss_pred             HHHHHcCCCC
Confidence            7766655333

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=81.69  E-value=14  Score=29.77  Aligned_cols=78  Identities=12%  Similarity=0.050  Sum_probs=49.8

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh-cCCCCCchhHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL-NMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-~~~~~p~~~~~~~li~~  251 (343)
                      |.+.-++.+.+.+++++++...++=.+.. +.|..+-..++..+|-.|++++|..-++-.-+ .....+-..+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            44556677778888888888777665543 23445556677888888888888766554432 02344455666666654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=81.56  E-value=29  Score=28.73  Aligned_cols=186  Identities=13%  Similarity=0.064  Sum_probs=98.4

Q ss_pred             CChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcC-CCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhH
Q 046547           97 RPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSG-CVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTC  174 (343)
Q Consensus        97 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~-~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  174 (343)
                      |-...|+.-+. -+ +.|++++|.+.|+.+.... ..| ...+--.++-++.+.+ +++.|...+++..+.-.......|
T Consensus        33 p~~~LY~~g~~-~L-~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~-~y~~A~~~~drFi~lyP~~~n~dY  109 (254)
T COG4105          33 PASELYNEGLT-EL-QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNG-EYDLALAYIDRFIRLYPTHPNADY  109 (254)
T ss_pred             CHHHHHHHHHH-HH-hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcc-cHHHHHHHHHHHHHhCCCCCChhH
Confidence            45677888886 44 5599999999999998543 112 2344455566667765 799999999998765333333456


Q ss_pred             HHHHHHHHcc-------CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          175 NYLVSSLCAI-------DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       175 ~~ll~~~~~~-------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      -..|.+++..       .|...+..-|..|..            +|.-|=.+.-...|..-...+...  +   ...=-.
T Consensus       110 ~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~------------~i~ryPnS~Ya~dA~~~i~~~~d~--L---A~~Em~  172 (254)
T COG4105         110 AYYLKGLSYFFQIDDVTRDQSAARAAFAAFKE------------LVQRYPNSRYAPDAKARIVKLNDA--L---AGHEMA  172 (254)
T ss_pred             HHHHHHHHHhccCCccccCHHHHHHHHHHHHH------------HHHHCCCCcchhhHHHHHHHHHHH--H---HHHHHH
Confidence            6666666532       223333333333321            111111111122222221111110  0   000123


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCCchh---hHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPIGFQ---GYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      +.+-|.+.|.+..|..-+++|.+. .+-+..   ..-.+..+|...|-.++|.+.-.-+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            445567777777777777777664 222222   3334555666777766666654443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=81.46  E-value=32  Score=29.17  Aligned_cols=70  Identities=17%  Similarity=0.027  Sum_probs=38.7

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH-----CCCCCCHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE-----RGFIPYIKVR  315 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~  315 (343)
                      .+.....|..+|.+.+|.++-+...... +.+...+-.|+..+...|+--.|.+-++.+.+     .|+..|...+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            3444556666777777776666655421 22444555666667777765555555544432     2555554443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.00  E-value=54  Score=31.46  Aligned_cols=195  Identities=13%  Similarity=0.065  Sum_probs=110.8

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHH-hcCCCccH--HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh--
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTL-RSGCVPVP--QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG--  172 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~-~~~~~p~~--~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~--  172 (343)
                      +...|..||.          .|++.++-.. +..+.|..  .++--+...+.....+++.|...+++.....-+++..  
T Consensus        29 ~l~~Y~kLI~----------~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   29 QLKQYYKLIA----------TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hHHHHHHHHH----------HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            4566666664          2344444444 44444433  3444455556656667899999888764433223221  


Q ss_pred             ---hHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCCCHhhHHHH-HHHHhcCCChhHHHHHHHHHHhcCC--CCCch
Q 046547          173 ---TCNYLVSSLCAIDQLVEAAKVLKGMSSA----ECVPDLESYSIV-IGAMSTARKTNDAVEMMKEMVLNMG--LMPRQ  242 (343)
Q Consensus       173 ---~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~m~~~~~--~~p~~  242 (343)
                         ....++..+.+.+... |....++..+.    +..+-...|..+ +..+...++...|.+.++.+..-..  ..|-.
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~  177 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAV  177 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHH
Confidence               2335566666666655 88877776542    222334444444 3333334799999999988876432  34445


Q ss_pred             hHHHHHHHHHH--hCccHHHHHHHHHHHHHcCC---------CCchhhHHHHHHH--HHhcccHhHHHHHHHHH
Q 046547          243 GMVIKVAAALR--ANREMWKAVEMIEFLERKGC---------PIGFQGYEVVVEG--CLECREYILAGKTVMGM  303 (343)
Q Consensus       243 ~~~~~li~~~~--~~~~~~~a~~~~~~m~~~g~---------~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m  303 (343)
                      .++-.++.+..  +.+..+++.+.++.+.....         .|-..+|..+++.  +...|+++.+...++++
T Consensus       178 ~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  178 FVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555666554  34556677777776643211         2345567777666  44577766776665554

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=80.72  E-value=16  Score=25.79  Aligned_cols=27  Identities=11%  Similarity=-0.033  Sum_probs=22.5

Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      -|..|+..|...|..++|++++.++.+
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            577888888888888888888888876

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>PHA02875 ankyrin repeat protein; Provisional

Probab=80.61  E-value=35  Score=30.68  Aligned_cols=176  Identities=14%  Similarity=0.112  Sum_probs=83.5

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHH---HHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC----HhhHHHHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQ---IRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD----CGTCNYLVSSL  181 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~ll~~~  181 (343)
                      .++..|+.+    +.+.+.+.|..|+..   ..+.+..+ +..| +.+.+..    +.+.|...+    ..-.+ .+...
T Consensus        41 ~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A-~~~g-~~~~v~~----Ll~~~~~~~~~~~~~g~t-pL~~A  109 (413)
T PHA02875         41 LAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDA-VEEG-DVKAVEE----LLDLGKFADDVFYKDGMT-PLHLA  109 (413)
T ss_pred             HHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHH-HHCC-CHHHHHH----HHHcCCcccccccCCCCC-HHHHH
Confidence            344556654    344445566655432   23344433 4544 4554333    334443221    11223 33444


Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhh--HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc---hhHHHHHHHHHHhCc
Q 046547          182 CAIDQLVEAAKVLKGMSSAECVPDLES--YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR---QGMVIKVAAALRANR  256 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~~  256 (343)
                      +..|+.+    +++.+.+.|..|+...  -.+.+...+..|+.+-+.-++    + .|..++   ..-.+.|..| +..|
T Consensus       110 ~~~~~~~----iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll----~-~g~~~~~~d~~g~TpL~~A-~~~g  179 (413)
T PHA02875        110 TILKKLD----IMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLI----D-HKACLDIEDCCGCTPLIIA-MAKG  179 (413)
T ss_pred             HHhCCHH----HHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHH----h-cCCCCCCCCCCCCCHHHHH-HHcC
Confidence            4566654    4445555666554322  123344455667755443333    3 244433   3333444444 4556


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhh---HHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHH
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQG---YEVVVEGCLECREYILAGKTVMGMTERGFIPYIK  313 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  313 (343)
                      +.+    +.+.+.+.|..|+...   ..+++...+..|+.+    +.+.+.+.|..|+..
T Consensus       180 ~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~~Ll~~gad~n~~  231 (413)
T PHA02875        180 DIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVRLFIKRGADCNIM  231 (413)
T ss_pred             CHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHHHHHHCCcCcchH
Confidence            554    4445566676665432   124454445566654    444455678777643

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=80.36  E-value=6.5  Score=25.84  Aligned_cols=51  Identities=10%  Similarity=-0.054  Sum_probs=39.9

Q ss_pred             HHHHHhcccHhHHHHHHHHHhHCCCCCC--HHHHHHHHHHHhccCChhHHHHHH
Q 046547          284 VEGCLECREYILAGKTVMGMTERGFIPY--IKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       284 i~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                      +..| ..++.++|+..|....++-..|.  ..++..|+.+|+..|++.+++++-
T Consensus        14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   14 LKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             HHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334 77888999999999887744432  457889999999999999987753

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=80.02  E-value=10  Score=30.05  Aligned_cols=53  Identities=11%  Similarity=-0.034  Sum_probs=32.8

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ...+.+......+..++-....|+..+|..++.++...|+.++|.+...++..
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444444444444333334567777777777777777777777777777665

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

---

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	343
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04

>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 = 54.1 bits (129), Expect = 4e-08
 Identities = 50/364 (13%), Positives = 105/364 (28%), Gaps = 114/364 (31%)

Query: 1   MMIGAIKS--CRSLVNFRPCLLQFSSLRSMSSLRTL-EETVRAAVD---AKDYQQIPELL 54
           M    +       ++  +  +    +LR   +L +  EE V+  V+     +Y     L+
Sbjct: 41  MPKSILSKEEIDHIIMSKDAVSG--TLRLFWTLLSKQEEMVQKFVEEVLRINY---KFLM 95

Query: 55  GSFEEACQNPNPFSFLSNFPQNHRIKVIDEML---ESFIPL-RPRSRPKIAYDYLLSYTL 110
              +   + P+             I+  D +    + F      R +P +     L   L
Sbjct: 96  SPIKTEQRQPSM-------MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK----LRQAL 144

Query: 111 QSLHPLP--------------LALAILQRTLRSGCVPVPQIRLLLSSAWLE-RRCQSQSV 155
             L P                +AL +   + +  C    +I       WL  + C S   
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVC-LSYKVQCKMDFKI------FWLNLKNCNSPE- 196

Query: 156 ADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK-----------------VLKGMS 198
             +L  ++ + Y  D    +        I   + + +                 VL  + 
Sbjct: 197 -TVLEMLQKLLYQIDPNWTS-RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254

Query: 199 SAECVP--DLES-------YSIVIGAMSTARKTNDAVEMMKEM------------VLNMG 237
           +A+     +L         +  V   +S A  T+ +++                  L+  
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314

Query: 238 L--MPRQG-----MVIK-VAAALRANREMW------------KAVEM-IEFLERKGCPIG 276
              +PR+        +  +A ++R     W              +E  +  LE    P  
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE----PAE 370

Query: 277 FQGY 280
           ++  
Sbjct: 371 YRKM 374

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.5 bits (98), Expect = 2e-04
 Identities = 16/159 (10%), Positives = 39/159 (24%)

Query: 153 QSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIV 212
             +  +    +           N ++          E   VL  +  A   PDL SY+  
Sbjct: 147 HHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA 206

Query: 213 IGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG 272
           +  M    +    +E   E +   GL  +      + +       +    ++        
Sbjct: 207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPP 266

Query: 273 CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY 311
                     ++         +   K  + +     +  
Sbjct: 267 QLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	343
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.95
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.9
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.8
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.78
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.78
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.77
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.72
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.72
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.68
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.64
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.64
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.63
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.61
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.61
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.58
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.57
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.57
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.46
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.44
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.43
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.43
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.41
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.41
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.4
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.39
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.38
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.36
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.36
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.35
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.35
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.34
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.34
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.33
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.31
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.3
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.29
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.29
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.27
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.25
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.23
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.23
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.23
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.21
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.18
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.17
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.1
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.08
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.08
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.07
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.03
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.01
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.98
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.97
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.92
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.89
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.89
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.86
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.84
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.84
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.83
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.82
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.8
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.8
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.78
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.75
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.7
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.7
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.68
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.68
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.67
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.65
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.64
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.64
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.63
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.62
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.62
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.62
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.61
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.6
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.59
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.57
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.57
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.55
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.52
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.5
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.47
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.44
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.43
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.42
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.39
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.36
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.36
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.35
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.35
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.35
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.35
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.34
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.33
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.31
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.31
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.3
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.27
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.26
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.26
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.26
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.25
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.24
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.23
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.23
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.21
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.21
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.2
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.19
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.19
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.13
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.13
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.12
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.1
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.1
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.09
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.09
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.09
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.08
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.08
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.08
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.07
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.05
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.04
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.03
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.01
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.93
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.91
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.88
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.84
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.82
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.81
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.81
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.81
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.8
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.77
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.75
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.7
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.7
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.69
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.67
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.66
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.59
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.56
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.52
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.5
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.48
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.43
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.37
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.35
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.25
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.24
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.18
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.13
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.0
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.91
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.87
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.78
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.77
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.71
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.65
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.58
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.55
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.53
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.42
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.41
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.36
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.34
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.28
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.24
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.05
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.68
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.4
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.38
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.2
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.0
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.96
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.84
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.84
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.18
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.07
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.89
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.77
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.5
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.37
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.97
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.85
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.65
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.11
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.8
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.65
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.21
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.21
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	87.93
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.84
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	86.44
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	85.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.7
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.35
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.76
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	82.5
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	80.98
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	80.98

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4e-37  Score=278.64  Aligned_cols=188  Identities=15%  Similarity=0.061  Sum_probs=107.7

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccC--------chhHHHHHHHHHHhcCCccCH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRC--------QSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--------~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      ..++.+|+ .|++.|++++|+++|++|.+.|++||..|||+||.+|+..+.        .+++|.++|++|.+.|+.||.
T Consensus        27 ~~l~~~id-~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           27 ALLKQKLD-MCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHH-HTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHH-HHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            34555554 555666666666666666666666666666666665544321        134455555555555555555


Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      .|||+||.+|++.|++++|.++|++|.+.|+.||..|||++|.+|++.|++++|.++|++|.+ .|+.||..||++||.+
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~G~~Pd~~ty~~Li~~  184 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE-SEVVPEEPELAALLKV  184 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHH
Confidence            555555555555555555555555555555555555555555555555555555555555554 2555555555555555


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE  289 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  289 (343)
                      |++.|++++|.+++++|.+.|+.|+..||+.++..|+.
T Consensus       185 ~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          185 SMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            55555555555555555555555555555555555554

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=2.8e-36  Score=273.09  Aligned_cols=207  Identities=11%  Similarity=0.045  Sum_probs=180.4

Q ss_pred             HHHHHHHHHHHhcCCCccH-HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc---------
Q 046547          117 PLALAILQRTLRSGCVPVP-QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ---------  186 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~---------  186 (343)
                      ..+..+.+++++.+..+.+ ..++.+|.+||+.| ++++|.++|++|.+.|++||..|||+||.+|++.+.         
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G-~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~   85 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKG-DVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG   85 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSC-CHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcch
Confidence            4556667778877776554 35788899988876 699999999999999999999999999999987654         


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIE  266 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  266 (343)
                      ++.|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+ .|+.||..|||+||.+|++.|++++|.++|+
T Consensus        86 l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence            789999999999999999999999999999999999999999999998 5999999999999999999999999999999


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhcc
Q 046547          267 FLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV  325 (343)
Q Consensus       267 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  325 (343)
                      +|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|..|+..||+.++..|+..
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.95  E-value=1.9e-25  Score=208.15  Aligned_cols=304  Identities=7%  Similarity=-0.105  Sum_probs=196.3

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH-h--------------------------------------
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF-L--------------------------------------   70 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~--------------------------------------   70 (343)
                      +..+|+.++..+.+.|++++|.++|+++...+  |+.... .                                      
T Consensus       199 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  276 (597)
T 2xpi_A          199 EASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYM  276 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHH
Confidence            57889999999999999999999999998754  332211 0                                      


Q ss_pred             hhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCC-------------------
Q 046547           71 SNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGC-------------------  131 (343)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~-------------------  131 (343)
                      .....+.+.+.++++.+.+.++....++..+|+.++. .+.+.|++++|.++|+++.+.+.                   
T Consensus       277 ~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          277 LKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKAD-TLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             TTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHH-HHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCH
Confidence            0122222334444444444443333467888999886 77788999999999999876542                   


Q ss_pred             --------------CccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHh
Q 046547          132 --------------VPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGM  197 (343)
Q Consensus       132 --------------~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  197 (343)
                                    +.+..+++.+...|++.| ++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++
T Consensus       356 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  433 (597)
T 2xpi_A          356 NKLYLISNDLVDRHPEKAVTWLAVGIYYLCVN-KISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTA  433 (597)
T ss_dssp             HHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCcccHHHHHHHHHHHHHhc-cHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                          123445555555555554 4666666666665432 223556666666666666666666666666


Q ss_pred             hhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CC
Q 046547          198 SSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK----GC  273 (343)
Q Consensus       198 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~  273 (343)
                      .+.+ +.+..+|+.+..+|.+.|++++|.++|+++.+  ..+.+..+|+.++..|.+.|++++|.++|+++.+.    +.
T Consensus       434 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  510 (597)
T 2xpi_A          434 ARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYA--LFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQS  510 (597)
T ss_dssp             HHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcccc
Confidence            6543 23556666666666666666666666666664  22335666777777777777777777777766654    55


Q ss_pred             CCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          274 PIG--FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       274 ~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .|+  ..+|..+..+|.+.|++++|.+.|+++.+.+ +.+..+|..+..+|.+.|++++|.+.|+++.++.
T Consensus       511 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             CSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             chhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            665  4566777777777777777777777766654 3356667777777777777777777777766654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.95  E-value=8.5e-25  Score=203.73  Aligned_cols=204  Identities=7%  Similarity=-0.096  Sum_probs=97.7

Q ss_pred             ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC---------------------------------ccCHhhHHHHHH
Q 046547          133 PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGY---------------------------------HPDCGTCNYLVS  179 (343)
Q Consensus       133 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~---------------------------------~~~~~~~~~ll~  179 (343)
                      ++..+++.++..+++.| ++++|.++|+++.+.+.                                 +.+..+|+.+..
T Consensus       303 ~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~  381 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRS-RFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGI  381 (597)
T ss_dssp             GCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHH
Confidence            44555556666655554 46666666666654321                                 112333344444


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      .|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++..  ..+.+..+|+.++.+|.+.|+++
T Consensus       382 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~  458 (597)
T 2xpi_A          382 YYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR--LFQGTHLPYLFLGMQHMQLGNIL  458 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--TTTTCSHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHcCCHH
Confidence            4444444444444444443321 11233444444444444444444444444442  22234444455555555555555


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCCC--HHHHHHHHHHHhccCChhHHHH
Q 046547          260 KAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER----GFIPY--IKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      +|.++|+++.+.. +.+..+|+.+...|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.+
T Consensus       459 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~  537 (597)
T 2xpi_A          459 LANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAID  537 (597)
T ss_dssp             HHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHH
Confidence            5555555544422 123445555555555555555555555555443    44444  4455555555555555555555


Q ss_pred             HHHHHHhh
Q 046547          334 VRQRFAEL  341 (343)
Q Consensus       334 ~~~~m~~~  341 (343)
                      +++++.++
T Consensus       538 ~~~~~~~~  545 (597)
T 2xpi_A          538 ALNQGLLL  545 (597)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.90  E-value=4e-20  Score=163.08  Aligned_cols=302  Identities=10%  Similarity=-0.041  Sum_probs=237.9

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChH-HH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPF-SF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDY  104 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  104 (343)
                      .+...|..+...+.+.|++++|.+.|+++...  .|+.. ++   ...+...|+.+.+.+.++......|   +......
T Consensus        65 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p---~~~~~~~  139 (388)
T 1w3b_A           65 LLAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP---DLYCVRS  139 (388)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT---TCTHHHH
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CcHHHHH
Confidence            46778888888999999999999999888764  34433 33   4566677887777777777665443   4333333


Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc
Q 046547          105 LLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI  184 (343)
Q Consensus       105 li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~  184 (343)
                      .+..++...|++++|.+.|+++.+.. +-+..+|..+...+...+ ++++|...|+++.+.+ +.+...|..+...+...
T Consensus       140 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~  216 (388)
T 1w3b_A          140 DLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQG-EIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEA  216 (388)
T ss_dssp             HHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHc
Confidence            33346777899999999999988753 224566777777776665 6889999999988753 33467788888889999


Q ss_pred             CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHH
Q 046547          185 DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEM  264 (343)
Q Consensus       185 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  264 (343)
                      |++++|...|++..+.. +.+..++..+..++...|++++|...|+++.+  --+.+..+|..+..++.+.|++++|.+.
T Consensus       217 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~  293 (388)
T 1w3b_A          217 RIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDC  293 (388)
T ss_dssp             TCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998887653 23577889999999999999999999999985  3334567899999999999999999999


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          265 IEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       265 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ++++.+.. +.+..++..+...+.+.|++++|.+.++++.+.. +.+..++..+...|.+.|++++|.+.|+++.++.|
T Consensus       294 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          294 YNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99998753 4567789999999999999999999999998753 34678899999999999999999999999987653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.88  E-value=2.3e-19  Score=158.22  Aligned_cols=300  Identities=10%  Similarity=-0.058  Sum_probs=243.4

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      +...+..+...+.+.|++++|...++...... +.+..++   ...+...|+.+.+.+.++......|.  +...|..+.
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~  108 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPD--FIDGYINLA  108 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcc--hHHHHHHHH
Confidence            45667777788888999999999998877643 3344444   45667788877777777776655442  355677777


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ  186 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~  186 (343)
                      . ++...|++++|.+.|+++.+..  |+.......+..++...+++++|.+.|+++.+.. +.+..+|..+...+...|+
T Consensus       109 ~-~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  184 (388)
T 1w3b_A          109 A-ALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGE  184 (388)
T ss_dssp             H-HHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             H-HHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            5 7778899999999999998854  7666555555544555567999999999998753 3356889999999999999


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIE  266 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  266 (343)
                      +++|...|+++.+.+ +.+...|..+...+...|++++|...+++....  -+.+..++..+..++.+.|++++|.+.|+
T Consensus       185 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  261 (388)
T 1w3b_A          185 IWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAIDTYR  261 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999998754 235678889999999999999999999998852  23357889999999999999999999999


Q ss_pred             HHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          267 FLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       267 ~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++.+.  .| +..+|..+...+.+.|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|.+.++++.+..
T Consensus       262 ~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  335 (388)
T 1w3b_A          262 RAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF  335 (388)
T ss_dssp             HHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC
T ss_pred             HHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99884  34 46688999999999999999999999998764 5578899999999999999999999999987754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=1.2e-22  Score=190.20  Aligned_cols=119  Identities=13%  Similarity=0.028  Sum_probs=79.8

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhh---CCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSS---AECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      ..|||+||++||+.|++++|.++|++|.+   .|+.||..|||+||++||+.|++++|.++|++|.++ |+.||..|||+
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~-G~~PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA-GLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHHH
Confidence            34677777777777777777777766543   356677777777777777777777777777777663 77777777777


Q ss_pred             HHHHHHhCcc-HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          248 VAAALRANRE-MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       248 li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      ||.++|+.|+ .++|.++|++|.+.|+.||..+|+.++.++.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            7777777665 356667777777777777777777666554443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.87  E-value=1.5e-19  Score=162.39  Aligned_cols=301  Identities=11%  Similarity=-0.011  Sum_probs=241.5

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      .+...+..+...+.+.|++++|+++|+.+.... ..+..++   ...+...|+.+.+.+.++......|.  +...+..+
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l  100 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD--FTAARLQR  100 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--cHHHHHHH
Confidence            467789999999999999999999999988652 2334444   45566777877777777776655443  46677777


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCccH----HHHHHHHH------------HHHhccCchhHHHHHHHHHHhcCCcc
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVPVP----QIRLLLSS------------AWLERRCQSQSVADILLEMKSIGYHP  169 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~------------~~~~~~~~~~~a~~~~~~m~~~g~~~  169 (343)
                      .. ++...|++++|...|+++.+..  |+.    ..+..+..            .+...+ ++++|...++++.+.. +.
T Consensus       101 ~~-~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~A~~~~~~~~~~~-~~  175 (450)
T 2y4t_A          101 GH-LLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSG-DYTAAIAFLDKILEVC-VW  175 (450)
T ss_dssp             HH-HHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHC-TT
T ss_pred             HH-HHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CC
Confidence            75 7888899999999999998854  544    44444432            355655 6999999999998753 44


Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH-
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV-  248 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l-  248 (343)
                      +..++..+...|.+.|++++|.++|+++.+.. +.+..++..+...|...|++++|+..|+++...  .+.+...+..+ 
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~  252 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYK  252 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHH
Confidence            67889999999999999999999999998753 346789999999999999999999999999853  22334445444 


Q ss_pred             -----------HHHHHhCccHHHHHHHHHHHHHcCCCCc-----hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCH
Q 046547          249 -----------AAALRANREMWKAVEMIEFLERKGCPIG-----FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYI  312 (343)
Q Consensus       249 -----------i~~~~~~~~~~~a~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  312 (343)
                                 ...+.+.|++++|...|+++.+.  .|+     ...|..+...+.+.|++++|...++++.+.. +.+.
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~  329 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNV  329 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccH
Confidence                       78899999999999999999874  454     3478888999999999999999999988764 3468


Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          313 KVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       313 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ..|..+..+|...|++++|.+.+++..++.+
T Consensus       330 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  360 (450)
T 2y4t_A          330 NALKDRAEAYLIEEMYDEAIQDYETAQEHNE  360 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc
Confidence            8999999999999999999999999987753

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.86  E-value=2.4e-22  Score=188.21  Aligned_cols=130  Identities=7%  Similarity=-0.047  Sum_probs=116.5

Q ss_pred             CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh--cCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhH
Q 046547          203 VPDLESYSIVIGAMSTARKTNDAVEMMKEMVL--NMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGY  280 (343)
Q Consensus       203 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~--~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  280 (343)
                      ..-..|||+||++||+.|++++|.++|++|.+  +.|+.||..|||+||.+||+.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            33467999999999999999999999988763  1289999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcccH-hHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          281 EVVVEGCLECREY-ILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       281 ~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      |+||.++++.|+. ++|.++|++|.+.|+.||..+|++++.+..+.+-++.+.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vr  256 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVH  256 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHG
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHH
Confidence            9999999999984 789999999999999999999999987766665444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.80  E-value=2.6e-16  Score=136.45  Aligned_cols=300  Identities=11%  Similarity=-0.011  Sum_probs=232.3

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      +...+..+...+.+.|++++|.+.|++..... +.++..+   ...+...|+.+.+.+.++......|.  +...+..+-
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~   78 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD--FTAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--cchHHHHHH
Confidence            45677888889999999999999999988753 2223333   45556777777777777776655443  346666666


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcCCCc---c-HHHHHHH------------HHHHHhccCchhHHHHHHHHHHhcCCccC
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSGCVP---V-PQIRLLL------------SSAWLERRCQSQSVADILLEMKSIGYHPD  170 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~~~p---~-~~~~~~l------------i~~~~~~~~~~~~a~~~~~~m~~~g~~~~  170 (343)
                      . ++...|++++|...|++..+..  |   + ...+..+            ...+...+ ++++|.+.++++.+.. +.+
T Consensus        79 ~-~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~A~~~~~~~~~~~-~~~  153 (359)
T 3ieg_A           79 H-LLLKQGKLDEAEDDFKKVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGA-DYTAAITFLDKILEVC-VWD  153 (359)
T ss_dssp             H-HHHHHTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTC
T ss_pred             H-HHHHcCChHHHHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHcc-CHHHHHHHHHHHHHhC-CCc
Confidence            5 6778899999999999998854  5   3 3333333            24555554 7999999999998763 456


Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHH----
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVI----  246 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~----  246 (343)
                      ...+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...++...+.  .+.+...+.    
T Consensus       154 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~  230 (359)
T 3ieg_A          154 AELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQ  230 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHH
Confidence            7888999999999999999999999998764 446788999999999999999999999999863  222333332    


Q ss_pred             --------HHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-----hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHH
Q 046547          247 --------KVAAALRANREMWKAVEMIEFLERKGCPIGFQ-----GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIK  313 (343)
Q Consensus       247 --------~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-----~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  313 (343)
                              .+...+.+.|++++|...+++..+..  |+..     .+..+...+...|++++|.+.+++..+.. +.+..
T Consensus       231 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  307 (359)
T 3ieg_A          231 VKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVN  307 (359)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHH
Confidence                    23667889999999999999998743  4422     34456778999999999999999998764 33788


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ++..+...|...|++++|.+.|++..++.|
T Consensus       308 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          308 ALKDRAEAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999988754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.78  E-value=1.3e-16  Score=145.37  Aligned_cols=301  Identities=10%  Similarity=-0.032  Sum_probs=234.1

Q ss_pred             HHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           31 LRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      ...+...-..+.+.|++++|++.|+++....  |+...+   ...+...|+.+.+.+.++...+..|.  +...|..+..
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD--YSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC--CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH--HHHHHHHHHH
Confidence            4556777788889999999999999988765  677666   45556677777777777776655442  4566777775


Q ss_pred             HHhhcCCChHHHHHHHHHHHhcCCCc------------------------------------------------------
Q 046547          108 YTLQSLHPLPLALAILQRTLRSGCVP------------------------------------------------------  133 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~~~~p------------------------------------------------------  133 (343)
                       ++...|++++|...|+++.+.+-..                                                      
T Consensus        82 -~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           82 -ANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             -HHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             -HHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence             7778899999999999987654210                                                      


Q ss_pred             -----------------------c-HHHHHHHHHHHHh--ccCchhHHHHHHHHHHh-----cCC--------ccCHhhH
Q 046547          134 -----------------------V-PQIRLLLSSAWLE--RRCQSQSVADILLEMKS-----IGY--------HPDCGTC  174 (343)
Q Consensus       134 -----------------------~-~~~~~~li~~~~~--~~~~~~~a~~~~~~m~~-----~g~--------~~~~~~~  174 (343)
                                             + ...+......+..  ..+++++|..+++++.+     ..-        +.+..++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                                   0 1112222112222  13579999999999887     311        2345678


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                      ..+...+...|++++|...|+++.+..  |+..++..+...+...|++++|...++.+..  ..+.+..++..+...+..
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~  316 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALK--LDSNNSSVYYHRGQMNFI  316 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHT--TCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhh--cCcCCHHHHHHHHHHHHH
Confidence            888899999999999999999998765  3388899999999999999999999999985  445567789999999999


Q ss_pred             CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHH
Q 046547          255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      .|++++|...+++..+..- .+..++..+...|...|++++|...++++.+.. +.+..++..+...|.+.|++++|.+.
T Consensus       317 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  394 (514)
T 2gw1_A          317 LQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQ  394 (514)
T ss_dssp             TTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999987532 246688888999999999999999999988763 33567888999999999999999999


Q ss_pred             HHHHHhhc
Q 046547          335 RQRFAELK  342 (343)
Q Consensus       335 ~~~m~~~~  342 (343)
                      ++++.+..
T Consensus       395 ~~~a~~~~  402 (514)
T 2gw1_A          395 YDLAIELE  402 (514)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99987653

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.78  E-value=6.9e-16  Score=138.44  Aligned_cols=295  Identities=8%  Similarity=0.034  Sum_probs=227.3

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCCh---hhH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPK---IAY  102 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~---~~~  102 (343)
                      .+...+..+...+.+.|++++|.+.|+++...+ ..+...+   ...+...|+.+.+.+.++......|.  +.   ..+
T Consensus        58 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~  134 (450)
T 2y4t_A           58 DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS--ENEEKEAQ  134 (450)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC--HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--ChhhHHHH
Confidence            467889999999999999999999999988764 2223333   45667788888888888887765442  23   444


Q ss_pred             HHHHH-----------HHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH
Q 046547          103 DYLLS-----------YTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus       103 ~~li~-----------~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      ..+..           ..+...|++++|+..|+++.+.. +.+...+..+...+...+ ++++|.++|+++.+.. +.+.
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~-~~~~  211 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEG-EPRKAISDLKAASKLK-NDNT  211 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CGGGGHHHHHHHHHHH-CSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhC-CCCH
Confidence            44422           13667799999999999998754 346677888888888876 6999999999998753 4567


Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC-HhhHHHH------------HHHHhcCCChhHHHHHHHHHHhcCCC
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD-LESYSIV------------IGAMSTARKTNDAVEMMKEMVLNMGL  238 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l------------l~~~~~~~~~~~a~~~~~~m~~~~~~  238 (343)
                      .++..+...|...|++++|...|+++.+..  |+ ...+..+            ...+...|++++|...|+++...   
T Consensus       212 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---  286 (450)
T 2y4t_A          212 EAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---  286 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---
Confidence            899999999999999999999999998653  43 4444444            78899999999999999999863   


Q ss_pred             CCc-----hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CH
Q 046547          239 MPR-----QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-YI  312 (343)
Q Consensus       239 ~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~  312 (343)
                      .|+     ...|..+..++.+.|++++|...++++.+.. +.+..+|..+...|...|++++|.+.++++.+.  .| +.
T Consensus       287 ~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~  363 (450)
T 2y4t_A          287 EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQ  363 (450)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCH
T ss_pred             CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchH
Confidence            243     4578999999999999999999999988742 235788999999999999999999999999874  45 45


Q ss_pred             HHHHHHHH------------HHhccC-----ChhHHHHHHHH
Q 046547          313 KVRQKVVE------------GLAGVG-----EWKLATVVRQR  337 (343)
Q Consensus       313 ~~~~~li~------------~~~~~g-----~~~~a~~~~~~  337 (343)
                      ..+..+..            .|...|     +.+++.+.+++
T Consensus       364 ~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          364 QIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHH
Confidence            55555552            244444     55666776665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.77  E-value=4.1e-16  Score=142.13  Aligned_cols=233  Identities=9%  Similarity=-0.032  Sum_probs=163.2

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                      .+..+.. ++...|++++|...|+++.+..  |+...+..+...+...+ ++++|...++...+.. +.+...+..+...
T Consensus       239 ~~~~~~~-~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  313 (514)
T 2gw1_A          239 SLEHTGI-FKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRN-DSTEYYNYFDKALKLD-SNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHH-HHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSS-CCTTGGGHHHHHHTTC-TTCTHHHHHHHHH
T ss_pred             HHHHHHH-HHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCC-CHHHHHHHHHHHhhcC-cCCHHHHHHHHHH
Confidence            3444443 4556677777777777776644  33555555555555554 5777777777776542 3345667777777


Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK  260 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~  260 (343)
                      +...|++++|...|++..+... .+..++..+...+...|++++|...++.+...  .+.+..++..+...+.+.|++++
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~  390 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDK  390 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHH
Confidence            7888888888888887776532 24567777788888888888888888887752  33356677888888888888888


Q ss_pred             HHHHHHHHHHcCC-CCc----hhhHHHHHHHHHh---cccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          261 AVEMIEFLERKGC-PIG----FQGYEVVVEGCLE---CREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       261 a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      |...++++.+..- .++    ..++..+...|..   .|++++|...++++.+.. +.+..++..+...|.+.|++++|.
T Consensus       391 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~  469 (514)
T 2gw1_A          391 ALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAI  469 (514)
T ss_dssp             HHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHH
Confidence            8888888765321 111    2377777888888   888888888888887654 335677788888888888888888


Q ss_pred             HHHHHHHhhc
Q 046547          333 VVRQRFAELK  342 (343)
Q Consensus       333 ~~~~~m~~~~  342 (343)
                      +.|++..++.
T Consensus       470 ~~~~~a~~~~  479 (514)
T 2gw1_A          470 TLFEESADLA  479 (514)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            8888887765

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.76  E-value=7.4e-16  Score=132.11  Aligned_cols=291  Identities=7%  Similarity=-0.056  Sum_probs=219.5

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCC-CCChHH-HhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQ-NPNPFS-FLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS  107 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~  107 (343)
                      +...+......+...|++++|.++|+++....- .+.... +...+...++.+.+...++......|.  +...|..+-.
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS--NPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--STHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC--CHHHHHHHHH
Confidence            445677888888888999999999999876532 222222 356667778877777777776655443  3455655554


Q ss_pred             HHhhcCC-ChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCc
Q 046547          108 YTLQSLH-PLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQ  186 (343)
Q Consensus       108 ~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~  186 (343)
                       ++...| ++++|...|++..+.. +.+...+..+...+...+ ++++|...+++..+.. +.+...+..+...|...|+
T Consensus        99 -~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           99 -YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVES-EHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             -HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTC
T ss_pred             -HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcc-CHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhh
Confidence             566778 8999999999998754 224566777777777765 6999999999988764 2345667778889999999


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC-------CCCCchhHHHHHHHHHHhCccHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNM-------GLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-------~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      +++|.+.|++..+.. +.+..++..+...+...|++++|...+++.....       ..+.+..++..+..++...|+++
T Consensus       175 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          175 SKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999988764 3457888899999999999999999999988521       01344578899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHH-hccCChh
Q 046547          260 KAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGL-AGVGEWK  329 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~~~  329 (343)
                      +|...+++..+.. +.+...+..+...|...|++++|.+.|++..+.. +.+...+..+..++ ...|+.+
T Consensus       254 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          254 EALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            9999999988753 2256688888899999999999999999887654 23677788888777 4556544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.74  E-value=1.4e-15  Score=132.57  Aligned_cols=284  Identities=10%  Similarity=-0.014  Sum_probs=195.3

Q ss_pred             ccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHH-HHHHhcCCCCCCC--ChhhHHHHHHHHhhcCCChHHHH
Q 046547           44 AKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDE-MLESFIPLRPRSR--PKIAYDYLLSYTLQSLHPLPLAL  120 (343)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~p--~~~~~~~li~~~~~~~~~~~~a~  120 (343)
                      .+.|+.+...|+.+...+  |+...+      .++.+.+.+ .++....+.+..|  +...+..+-. .+...|++++|.
T Consensus        14 ~~~~~~~~~~~~~~~~~~--~~~~~~------~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~A~   84 (368)
T 1fch_A           14 VDFWDKLQAELEEMAKRD--AEAHPW------LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGL-RRLQEGDLPNAV   84 (368)
T ss_dssp             ----------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHH-HHHHTTCHHHHH
T ss_pred             cccHHHHHHHHHHHHcCC--chhhHH------HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHH-HHHHCCCHHHHH
Confidence            345666666666655432  222212      223333333 4443334444444  3445655554 667789999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC
Q 046547          121 AILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA  200 (343)
Q Consensus       121 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  200 (343)
                      ..|+++.+.. +.+..++..+...+...+ ++++|.+.+++..+.. +.+..++..+...|...|++++|.+.|+++...
T Consensus        85 ~~~~~al~~~-p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  161 (368)
T 1fch_A           85 LLFEAAVQQD-PKHMEAWQYLGTTQAENE-QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRY  161 (368)
T ss_dssp             HHHHHHHHSC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCc-CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999864 335566777777777765 6999999999998764 446788999999999999999999999999876


Q ss_pred             CCCCCHhhHHH---------------HHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHH
Q 046547          201 ECVPDLESYSI---------------VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       201 ~~~~~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      ... +...+..               .+..+...|++++|...++++.....-.++..++..+...+.+.|++++|...+
T Consensus       162 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~  240 (368)
T 1fch_A          162 TPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCF  240 (368)
T ss_dssp             STT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            532 2222211               233444889999999999999864222225788999999999999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          266 EFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       266 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +++.+.. +.+..++..+...|...|++++|...|+++.+.. +.+...+..+...|.+.|++++|.+.|++..++.
T Consensus       241 ~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          241 TAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9988753 2346788899999999999999999999988764 3467889999999999999999999999987754

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.73  E-value=6.7e-15  Score=126.14  Aligned_cols=264  Identities=9%  Similarity=-0.093  Sum_probs=212.3

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhcc
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERR  149 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  149 (343)
                      ...+...|+.+.+.+.++......|.  +...+..+.. ++...|++++|...++++.+.. +.+...+..+...+...+
T Consensus        29 a~~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~~~~~-~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  104 (330)
T 3hym_B           29 AERHYYNCDFKMCYKLTSVVMEKDPF--HASCLPVHIG-TLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVG  104 (330)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT--CTTTHHHHHH-HHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCC--ChhhHHHHHH-HHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhh
Confidence            55666778888888887777655554  3345555554 5567799999999999998754 224556666666666765


Q ss_pred             CchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          150 CQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                      +++++|.+.+++..+.. +.+...|..+...+...|++++|.+.|++..+... .+...+..+...+...|++++|...+
T Consensus       105 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (330)
T 3hym_B          105 HKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERFF  182 (330)
T ss_dssp             SCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            47999999999998754 33567889999999999999999999999987642 24566777999999999999999999


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC--------CCCchhhHHHHHHHHHhcccHhHHHHHHH
Q 046547          230 KEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG--------CPIGFQGYEVVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--------~~p~~~~~~~li~~~~~~g~~~~a~~~~~  301 (343)
                      ++...  ..+.+..++..+...+...|++++|...+++..+..        ...+..++..+...|...|++++|...++
T Consensus       183 ~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  260 (330)
T 3hym_B          183 SQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHR  260 (330)
T ss_dssp             HHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            99985  445567889999999999999999999999987631        13345688899999999999999999999


Q ss_pred             HHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          302 GMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       302 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +..+.. +.+...+..+...|.+.|++++|.+.+++..++.
T Consensus       261 ~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          261 QALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            998764 3367788999999999999999999999887765

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.73  E-value=1.3e-15  Score=132.83  Aligned_cols=288  Identities=13%  Similarity=0.036  Sum_probs=211.2

Q ss_pred             HhCccCcchHHH-HHHHchhcCC-CC--ChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcC
Q 046547           41 AVDAKDYQQIPE-LLGSFEEACQ-NP--NPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSL  113 (343)
Q Consensus        41 ~~~~~~~~~a~~-~~~~m~~~~~-~p--~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~  113 (343)
                      +.-.|+++.|.+ .+++.....- .|  +...+   ...+...|+.+.+...++......|.  +...+..+.. ++...
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~~-~~~~~  111 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK--HMEAWQYLGT-TQAEN  111 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT--CHHHHHHHHH-HHHHT
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHH-HHHHC
Confidence            345578888888 7775553211 22  12222   45666778888888887777655443  4566777765 77888


Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHH---------------HH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNY---------------LV  178 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~---------------ll  178 (343)
                      |++++|...|+++.+.. +.+..++..+...+...+ ++++|.+.++++.+..... ...+..               .+
T Consensus       112 g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  188 (368)
T 1fch_A          112 EQELLAISALRRCLELK-PDNQTALMALAVSFTNES-LQRQACEILRDWLRYTPAY-AHLVTPAEEGAGGAGLGPSKRIL  188 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTSTTT-GGGCC---------------CTT
T ss_pred             cCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhCcCc-HHHHHHHHHHhhhhcccHHHHHH
Confidence            99999999999998765 336677777877777765 6999999999998764222 222221               24


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECV-PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      ..+...|++++|...|+++.+.... ++..++..+...+...|++++|...+++....  .+.+..++..+...+...|+
T Consensus       189 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~  266 (368)
T 1fch_A          189 GSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQ  266 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCC
Confidence            4445899999999999999875422 15788999999999999999999999999863  34467889999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC---C-------CHHHHHHHHHHHhccCC
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI---P-------YIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---p-------~~~~~~~li~~~~~~g~  327 (343)
                      +++|...++++.+.. +.+..++..+...|.+.|++++|...|++..+..-.   |       ...+|..+..+|...|+
T Consensus       267 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  345 (368)
T 1fch_A          267 SEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQ  345 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCC
Confidence            999999999998753 235678889999999999999999999998764211   1       26889999999999999


Q ss_pred             hhHHHHHHHH
Q 046547          328 WKLATVVRQR  337 (343)
Q Consensus       328 ~~~a~~~~~~  337 (343)
                      +++|..++++
T Consensus       346 ~~~A~~~~~~  355 (368)
T 1fch_A          346 SDAYGAADAR  355 (368)
T ss_dssp             GGGHHHHHTT
T ss_pred             hHhHHHhHHH
Confidence            9999998764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.72  E-value=4.5e-15  Score=125.50  Aligned_cols=271  Identities=15%  Similarity=0.073  Sum_probs=179.4

Q ss_pred             HHHhCccCcchHHHHHHHchhcCCCCChH--H---HhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcC
Q 046547           39 RAAVDAKDYQQIPELLGSFEEACQNPNPF--S---FLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSL  113 (343)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~  113 (343)
                      +.....|+++.|+..++.....  .|+..  .   +...+...|+   .+.++..+..  ...|+..++..+.. ++...
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~---~~~al~~~~~--~~~~~~~a~~~la~-~~~~~   78 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRK---YGVVLDEIKP--SSAPELQAVRMFAE-YLASH   78 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTC---HHHHHHHSCT--TSCHHHHHHHHHHH-HHHCS
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCC---HHHHHHHhcc--cCChhHHHHHHHHH-HHcCC
Confidence            3445578888888888765432  34332  1   1344445554   4555555543  23445566666665 67777


Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHH-HHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLS-SAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li-~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      ++.++|++.++++...+..|+...+..++ ..+... +++++|.+.+++      +.+...+..+...+.+.|++++|.+
T Consensus        79 ~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~-g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           79 SRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYD-QNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             TTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHT-TCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHC-CCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            88888888888888776667655544444 445555 468888888876      4567778888888888888888888


Q ss_pred             HHHHhhhCCCCCCHhhH---HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          193 VLKGMSSAECVPDLESY---SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      .|+++.+..  |+....   ...+..+...|++++|..+|+++.+  ..+.+...++.+..++.+.|++++|...+++..
T Consensus       152 ~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          152 ELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMAD--KCSPTLLLLNGQAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888887753  443211   2233444556888888888888886  345677788888888888888888888888877


Q ss_pred             HcCCCCchhhHHHHHHHHHhcccHhH-HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHH
Q 046547          270 RKGCPIGFQGYEVVVEGCLECREYIL-AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      +.. +-+..++..++..+...|+.++ +.++++++.+..  |+...   +.+...+.+.++++..-
T Consensus       228 ~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~~~---~~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          228 DKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSHPF---IKEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHHHHHHHH
Confidence            642 2255677778888888888765 567888777653  43222   23445556666665543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.72  E-value=1.3e-14  Score=132.93  Aligned_cols=301  Identities=12%  Similarity=0.020  Sum_probs=222.9

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH---hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF---LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLL  106 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li  106 (343)
                      ....+......+.+.|++++|.+.|++..... +.++..+   ...+...|+.+.+.+.++......|.  +...+..+.
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~la  100 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD--HSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc--hHHHHHHHH
Confidence            34667888888999999999999999988753 2233343   45556777777777777776655443  455666666


Q ss_pred             HHHhhcCCChHHHHHHHHHHHhcC------------------------------------CCccHHH-------------
Q 046547          107 SYTLQSLHPLPLALAILQRTLRSG------------------------------------CVPVPQI-------------  137 (343)
Q Consensus       107 ~~~~~~~~~~~~a~~~~~~m~~~~------------------------------------~~p~~~~-------------  137 (343)
                      . ++...|++++|...|+.+....                                    ..|+...             
T Consensus       101 ~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (537)
T 3fp2_A          101 S-ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLE  179 (537)
T ss_dssp             H-HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHH
T ss_pred             H-HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHH
Confidence            4 6777899999999886432111                                    0111111             


Q ss_pred             ----------------HHHHHHHH--------HhccCchhHHHHHHHHHHhcCCccC--------HhhHHHHHHHHHccC
Q 046547          138 ----------------RLLLSSAW--------LERRCQSQSVADILLEMKSIGYHPD--------CGTCNYLVSSLCAID  185 (343)
Q Consensus       138 ----------------~~~li~~~--------~~~~~~~~~a~~~~~~m~~~g~~~~--------~~~~~~ll~~~~~~~  185 (343)
                                      +...+..+        ....+++++|..+++++.+.  .|+        ..++..+...+...|
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~  257 (537)
T 3fp2_A          180 VSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKN  257 (537)
T ss_dssp             HHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcc
Confidence                            11111111        11112577888899888764  333        235677778888999


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      ++++|...|++..+..  |+..++..+...+...|++++|...+++....  .+.+..++..+...+...|++++|...+
T Consensus       258 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~  333 (537)
T 3fp2_A          258 NLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKEDF  333 (537)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999999998854  66888999999999999999999999999863  3446788999999999999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          266 EFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       266 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++..+.. +.+...+..+...|...|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.+++..++.
T Consensus       334 ~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          334 QKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            9998753 2245688889999999999999999999998764 3356788899999999999999999999987653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=1.8e-15  Score=132.07  Aligned_cols=236  Identities=11%  Similarity=0.013  Sum_probs=186.9

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ...+..+-. .+...|++++|...|+++.+.. +.+..++..+...+...+ ++++|...|++..+.. +.+..++..+.
T Consensus        65 ~~~~~~~~~-~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g-~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           65 WPGAFEEGL-KRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENE-NEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             CTTHHHHHH-HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHH-HHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            344655554 5667799999999999998764 335677888888877775 6999999999998763 34578899999


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCC-----------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPD-----------LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      ..|...|++++|...|+++.+..  |+           ..++..+...+...|++++|...++++.....-.++..++..
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  218 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTG  218 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHH
Confidence            99999999999999999998743  22           223445688899999999999999999974222226789999


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      +...+...|++++|.+.+++..+.. +.+..+|..+...|...|++++|...|++..+.. +.+..++..+...|.+.|+
T Consensus       219 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  296 (365)
T 4eqf_A          219 LGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGA  296 (365)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            9999999999999999999998753 2357789999999999999999999999998764 3358889999999999999


Q ss_pred             hhHHHHHHHHHHhhc
Q 046547          328 WKLATVVRQRFAELK  342 (343)
Q Consensus       328 ~~~a~~~~~~m~~~~  342 (343)
                      +++|.+.|++..++.
T Consensus       297 ~~~A~~~~~~al~~~  311 (365)
T 4eqf_A          297 YREAVSNFLTALSLQ  311 (365)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999988764

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.71  E-value=1.5e-14  Score=132.60  Aligned_cols=226  Identities=12%  Similarity=0.032  Sum_probs=179.4

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      ++...|++++|...+++..+..  |+...+..+...+...+ ++++|.+.+++..+.. +.+..+|..+...+...|+++
T Consensus       252 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          252 FHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKE-NSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSS-CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhc-CHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHH
Confidence            5667789999999999998754  66666777666665554 6899999999987754 345778888999999999999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +|...|++..+.. +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...+...|++++|...++++
T Consensus       328 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          328 NAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            9999999988754 234677888999999999999999999999863  3445678899999999999999999999998


Q ss_pred             HHcC-----CCCchhhHHHHHHHHHhc----------ccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          269 ERKG-----CPIGFQGYEVVVEGCLEC----------REYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       269 ~~~g-----~~p~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      .+..     .......+..+...+...          |++++|...|++..+.. +.+...+..+...|.+.|++++|.+
T Consensus       405 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  483 (537)
T 3fp2_A          405 KRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIE  483 (537)
T ss_dssp             HHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence            7532     111111233344567777          99999999999988764 3467889999999999999999999


Q ss_pred             HHHHHHhhc
Q 046547          334 VRQRFAELK  342 (343)
Q Consensus       334 ~~~~m~~~~  342 (343)
                      .|++..++.
T Consensus       484 ~~~~al~~~  492 (537)
T 3fp2_A          484 LFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999988765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=5.4e-15  Score=125.00  Aligned_cols=251  Identities=9%  Similarity=-0.008  Sum_probs=189.2

Q ss_pred             hhhcccchHHHHHHHHhcCCCCCCCCh--hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccC
Q 046547           73 FPQNHRIKVIDEMLESFIPLRPRSRPK--IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRC  150 (343)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~p~~--~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  150 (343)
                      ....|+...+....+..   ....|+.  ...-.+.+ ++...|+++.|+..++.    .-.|+..++..+...++.. +
T Consensus         9 ~~~~g~y~~ai~~~~~~---~~~~p~~~~e~~~~l~r-~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~-~   79 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRV---KPSSPERDVERDVFLYR-AYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASH-S   79 (291)
T ss_dssp             HHHTTCHHHHHHHHHHS---CCCSHHHHHHHHHHHHH-HHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCS-T
T ss_pred             HHHHHHHHHHHHHHHhc---ccCCchhhHHHHHHHHH-HHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCC-C
Confidence            33445544444444443   3334443  23233344 56677999999987754    2356777777777776665 4


Q ss_pred             chhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPD-CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                      +.++|.+.++++...+..|+ ...+..+-..+...|++++|.+.+++      +.+...+..+...+.+.|++++|.+.|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            68999999999988776564 45566666889999999999999987      467888999999999999999999999


Q ss_pred             HHHHhcCCCCCchhHH---HHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          230 KEMVLNMGLMPRQGMV---IKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +.+.+.   .|+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...|++..+.
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999864   3554222   23334455669999999999999986 4457778999999999999999999999998876


Q ss_pred             CCCCCHHHHHHHHHHHhccCChhH-HHHHHHHHHhhcC
Q 046547          307 GFIPYIKVRQKVVEGLAGVGEWKL-ATVVRQRFAELKS  343 (343)
Q Consensus       307 g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~~  343 (343)
                      . +-+..++..++..+...|+.++ +.++++++.++.|
T Consensus       230 ~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          230 D-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             C-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            4 3378889999999999999976 6789999887764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.68  E-value=6.5e-15  Score=128.49  Aligned_cols=258  Identities=13%  Similarity=0.013  Sum_probs=198.4

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhcc
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERR  149 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  149 (343)
                      ...+...|+.+.+.+.++......|.  +...|..+.. ++...|++++|+..|+++.+.. +.+..++..+...+...+
T Consensus        72 ~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~lg~-~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  147 (365)
T 4eqf_A           72 GLKRLKEGDLPVTILFMEAAILQDPG--DAEAWQFLGI-TQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTS  147 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC--CHHHHHHHHH-HHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccc
Confidence            45566777777777777776655443  4667777775 7778899999999999998854 234677888888877775


Q ss_pred             CchhHHHHHHHHHHhcCCccC-----------HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHh
Q 046547          150 CQSQSVADILLEMKSIGYHPD-----------CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECV-PDLESYSIVIGAMS  217 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~  217 (343)
                       ++++|...++++.+..  |+           ...+..+...+...|++++|...|+++.+.... ++..++..+...+.
T Consensus       148 -~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  224 (365)
T 4eqf_A          148 -HQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFH  224 (365)
T ss_dssp             -CHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHH
T ss_pred             -cHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHH
Confidence             6999999999998753  32           223344578899999999999999999876422 26788999999999


Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAG  297 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  297 (343)
                      ..|++++|+..|++..+  ..+.+..+|..+..+|.+.|++++|...|++..+.. +.+..++..+...|.+.|++++|.
T Consensus       225 ~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          225 LSGEFNRAIDAFNAALT--VRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999986  344567899999999999999999999999998753 224678889999999999999999


Q ss_pred             HHHHHHhHCCC---C--------CCHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          298 KTVMGMTERGF---I--------PYIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       298 ~~~~~m~~~g~---~--------p~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      ..|+++.+..-   .        .+..+|..+..++...|+.+.+.++.++
T Consensus       302 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          302 SNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999876421   1        1357899999999999999999887654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.67  E-value=1.8e-14  Score=123.22  Aligned_cols=265  Identities=11%  Similarity=-0.045  Sum_probs=196.6

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhh
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQ  111 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~  111 (343)
                      ..+-.....+.+.|++++|.++|+++...                                .|.  +...+..+.. ++.
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--------------------------------~~~--~~~~~~~l~~-~~~   66 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQA--------------------------------APE--REEAWRSLGL-TQA   66 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------------------CTT--CHHHHHHHHH-HHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHh--------------------------------CCC--CHHHHHHHHH-HHH
Confidence            34556666677777777777777765432                                111  3445555554 666


Q ss_pred             cCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH--------------
Q 046547          112 SLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL--------------  177 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l--------------  177 (343)
                      ..|++++|.+.++++.+.. +.+..++..+...+...+ ++++|.+.+++..+... .+...+..+              
T Consensus        67 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~-~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  143 (327)
T 3cv0_A           67 ENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH-NANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQS  143 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTST-TTTTC------------------
T ss_pred             HcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHH
Confidence            7789999999999988753 235566666666666665 68899999988876531 222233322              


Q ss_pred             HH-HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          178 VS-SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       178 l~-~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      .. .+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...+++....  .+.+..++..+...+...|
T Consensus       144 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~  220 (327)
T 3cv0_A          144 EDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGN  220 (327)
T ss_dssp             --CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcC
Confidence            22 3778899999999999988754 336788899999999999999999999998853  3446778999999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-----------CHHHHHHHHHHHhcc
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-----------YIKVRQKVVEGLAGV  325 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----------~~~~~~~li~~~~~~  325 (343)
                      ++++|...+++..+.. +.+..++..+...|...|++++|.+.+++..+....+           +..++..+..+|.+.
T Consensus       221 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  299 (327)
T 3cv0_A          221 RPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVM  299 (327)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhc
Confidence            9999999999988753 2356788888999999999999999999987653221           477888999999999


Q ss_pred             CChhHHHHHHHHH
Q 046547          326 GEWKLATVVRQRF  338 (343)
Q Consensus       326 g~~~~a~~~~~~m  338 (343)
                      |++++|..++++.
T Consensus       300 g~~~~A~~~~~~~  312 (327)
T 3cv0_A          300 NRPDLVELTYAQN  312 (327)
T ss_dssp             TCHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999988654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.64  E-value=1e-13  Score=114.37  Aligned_cols=226  Identities=8%  Similarity=0.001  Sum_probs=184.6

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCc--cC----Hhh
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYH--PD----CGT  173 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~--~~----~~~  173 (343)
                      ..|..+-. .+...|++++|...|++..+..  .+...+..+...+...+ ++++|.+.+++..+....  ++    ..+
T Consensus         6 ~~~~~~g~-~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~-~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            6 DKEKAEGN-KFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKG-EYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHH-HHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHH-HHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcc-cHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            34555554 5667799999999999998877  77788888888877775 699999999998764321  11    578


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  253 (343)
                      +..+...+...|++++|...|++..+..  |+.       ..+...|++++|...++.+..  ..+.+...+..+...+.
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~  150 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYF  150 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHH
Confidence            8899999999999999999999998753  443       345556889999999999985  33446677889999999


Q ss_pred             hCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          254 ANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      ..|++++|...+++..+.. +.+..++..+...|...|++++|.+.+++..+.. +.+...+..+...|.+.|++++|.+
T Consensus       151 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          151 TKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            9999999999999998753 2356788889999999999999999999998764 3357889999999999999999999


Q ss_pred             HHHHHHhhc
Q 046547          334 VRQRFAELK  342 (343)
Q Consensus       334 ~~~~m~~~~  342 (343)
                      .+++..++.
T Consensus       229 ~~~~a~~~~  237 (258)
T 3uq3_A          229 TLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            999988764

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.64  E-value=1.6e-13  Score=117.32  Aligned_cols=234  Identities=9%  Similarity=-0.048  Sum_probs=185.6

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                      ..+-..-. .+...|++++|..+|+++.+.. +.+...+..+...+...+ ++++|...+++..+.. +.+..++..+..
T Consensus        22 ~~~~~~a~-~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           22 ENPMEEGL-SMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENE-KDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             SCHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            33444443 5667799999999999998754 235566777777777765 6999999999998763 446788899999


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH--------------HH-HHhcCCChhHHHHHHHHHHhcCCCCCchhH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIV--------------IG-AMSTARKTNDAVEMMKEMVLNMGLMPRQGM  244 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~  244 (343)
                      .+...|++++|.+.+++..+... .+...+..+              .. .+...|++++|...++++...  .+.+..+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  174 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQL  174 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHH
Confidence            99999999999999999987642 122333332              22 377889999999999999863  3447788


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAG  324 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  324 (343)
                      +..+...+...|++++|.+.++++.+.. +.+..++..+...|...|++++|.+.++++.+.. +.+..++..+...|..
T Consensus       175 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  252 (327)
T 3cv0_A          175 HASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSN  252 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            9999999999999999999999998753 2356788899999999999999999999988764 3467889999999999


Q ss_pred             cCChhHHHHHHHHHHhhc
Q 046547          325 VGEWKLATVVRQRFAELK  342 (343)
Q Consensus       325 ~g~~~~a~~~~~~m~~~~  342 (343)
                      .|++++|.+.+++..+..
T Consensus       253 ~g~~~~A~~~~~~a~~~~  270 (327)
T 3cv0_A          253 MSQYDLAAKQLVRAIYMQ  270 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC
Confidence            999999999999987764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.63  E-value=1.2e-12  Score=113.30  Aligned_cols=285  Identities=8%  Similarity=0.022  Sum_probs=212.7

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCC-hHHH---hhhhhhcccchHHHHHHHHhcCCCCCC-CChhhHH
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPN-PFSF---LSNFPQNHRIKVIDEMLESFIPLRPRS-RPKIAYD  103 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~  103 (343)
                      .+...+..+...+...|++++|.+.++......  |+ ...+   ...+...|+.+.+.+.++......|.. .+...+.
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  112 (359)
T 3ieg_A           35 DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAES  112 (359)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHH
Confidence            356789999999999999999999999988653  43 2333   456667788888888888776654400 1233333


Q ss_pred             HHH-----------HHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh
Q 046547          104 YLL-----------SYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG  172 (343)
Q Consensus       104 ~li-----------~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  172 (343)
                      .+.           ...+...|++++|...++++.+.. +.+...+..+...+...+ ++++|...++...+.. +.+..
T Consensus       113 ~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~  189 (359)
T 3ieg_A          113 QLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEG-EPRKAISDLKAASKLK-SDNTE  189 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTC-SCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhC-CCCHH
Confidence            331           125667899999999999998754 335566677777777765 7999999999998763 45678


Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH------------HHHHHHhcCCChhHHHHHHHHHHhcCCCCC
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYS------------IVIGAMSTARKTNDAVEMMKEMVLNMGLMP  240 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~------------~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p  240 (343)
                      ++..+...+...|++++|...|++..+... .+...+.            .+...+...|++++|...+++.... . +.
T Consensus       190 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~  266 (359)
T 3ieg_A          190 AFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT-E-PS  266 (359)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-C-CC
Confidence            899999999999999999999999887532 2233332            2366788999999999999999864 2 12


Q ss_pred             ch----hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHH
Q 046547          241 RQ----GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-YIKVR  315 (343)
Q Consensus       241 ~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~  315 (343)
                      +.    ..+..+..++.+.|++++|...++...+.. +.+..++..+...|...|++++|.+.|++..+..  | +...+
T Consensus       267 ~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~  343 (359)
T 3ieg_A          267 VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN--ENDQQIR  343 (359)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHH
T ss_pred             chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCChHHH
Confidence            22    335567789999999999999999998852 2366788889999999999999999999998754  4 45556


Q ss_pred             HHHHHHHhc
Q 046547          316 QKVVEGLAG  324 (343)
Q Consensus       316 ~~li~~~~~  324 (343)
                      ..+..+...
T Consensus       344 ~~l~~~~~~  352 (359)
T 3ieg_A          344 EGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            655555443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.61  E-value=3e-15  Score=130.53  Aligned_cols=250  Identities=8%  Similarity=0.007  Sum_probs=104.4

Q ss_pred             CccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHH
Q 046547           43 DAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAI  122 (343)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~  122 (343)
                      +.|++++|.+.++++.    .|+  +|..+.....+.+.+.++++.+.+    .+|...|..++. .+...|++++|...
T Consensus        15 ~~~~ld~A~~fae~~~----~~~--vWs~La~A~l~~g~~~eAIdsfik----a~D~~~y~~V~~-~ae~~g~~EeAi~y   83 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN----EPA--VWSQLAKAQLQKGMVKEAIDSYIK----ADDPSSYMEVVQ-AANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC----ChH--HHHHHHHHHHHcCCHHHHHHHHHc----CCCHHHHHHHHH-HHHhCCCHHHHHHH
Confidence            5577889999998873    344  443333333444445555555543    346778888886 67778999999997


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCC
Q 046547          123 LQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC  202 (343)
Q Consensus       123 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  202 (343)
                      ++..++.  .+++.+.+.++.+|.+.| +++++.++++       .|+..+|+.+...|...|++++|...|..+     
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg-~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTN-RLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhC-CHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            7776663  456777888888888875 5877777774       367779999999999999999999999877     


Q ss_pred             CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHH
Q 046547          203 VPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEV  282 (343)
Q Consensus       203 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  282 (343)
                          ..|..+..++++.|++++|.+.++.+       .++.+|..++.+|+..|+++.|......+.   +.|+  -...
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad--~l~~  212 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEE  212 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHH--HHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHh--hHHH
Confidence                47889999999999999999999887       167889999999999999999955444321   3333  3446


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhcc--CChhHHHHHH
Q 046547          283 VVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV--GEWKLATVVR  335 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--g~~~~a~~~~  335 (343)
                      ++..|.+.|++++|..+++...... +-....|+-|--.|++-  |+..+..+.|
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            8888999999999999998877554 44566777776666664  3555555444

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.61  E-value=2.2e-14  Score=125.13  Aligned_cols=267  Identities=8%  Similarity=0.004  Sum_probs=133.8

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYT  109 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~  109 (343)
                      ...+|..+..++.+.|++++|++.|.+      .+|..+|..........+.++++...+.......++..+.+.++. +
T Consensus        31 ~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~-~  103 (449)
T 1b89_A           31 EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIF-A  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHH-H
Confidence            446899999999999999999999975      356666644444444455555555544333334456778888995 8


Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVE  189 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~  189 (343)
                      +.+.|+++++.++++       .|+..+|+.+...|...| .+++|...|..+         ..|..+..++.+.|++++
T Consensus       104 Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g-~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~  166 (449)
T 1b89_A          104 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEK-MYDAAKLLYNNV---------SNFGRLASTLVHLGEYQA  166 (449)
T ss_dssp             -----CHHHHTTTTT-------CC-----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHH
T ss_pred             HHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcC-CHHHHHHHHHHh---------hhHHHHHHHHHHhccHHH
Confidence            999999999998885       377889999999888876 699999999976         589999999999999999


Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          190 AAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       190 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      |.+.++++      .++.+|..++.+|+..|+++.|......+    .+.|+.  ...++..|.+.|.+++|..+++...
T Consensus       167 AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L----~~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          167 AVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI----VVHADE--LEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT----TTCHHH--HHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH----HhCHhh--HHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            99999988      37899999999999999999996554432    233443  4579999999999999999999877


Q ss_pred             HcCCCCchhhHHHHHHHHHh--cccHhHHHHHHHHHhHCCCCC------CHHHHHHHHHHHhccCChhHHHHHH
Q 046547          270 RKGCPIGFQGYEVVVEGCLE--CREYILAGKTVMGMTERGFIP------YIKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p------~~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                      ... +.....|+-|--.|++  .++..+.++.|..  .-.++|      +...|.-++.-|...+++|.|....
T Consensus       235 ~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm  305 (449)
T 1b89_A          235 GLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM  305 (449)
T ss_dssp             TST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHH
Confidence            543 3344566666555655  4555566665542  224444      4667888999999999999887643

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.58  E-value=1.9e-12  Score=106.55  Aligned_cols=200  Identities=12%  Similarity=0.023  Sum_probs=122.5

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                      ..|..+.. .+...|++++|...|+++.+.. +.+...+..+...+...+ ++++|.+.+++..+.. +.+...+..+..
T Consensus        38 ~~~~~~a~-~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~-~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           38 DAYIQLGL-GYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEM-EPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHH-HHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            34444443 4556677777777777766543 224445555555555544 5777777777766543 234556666666


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      .|...|++++|.+.|+++.+.+..| +...+..+...+...|++++|...+++....  .+.+...+..+...+...|++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~  191 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREY  191 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCH
Confidence            7777777777777777766533333 3455666666677777777777777776642  233455666666777777777


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ++|...++...+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus       192 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          192 VPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            77777777666532 234445566666666777777777777766654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.57  E-value=2.6e-12  Score=103.50  Aligned_cols=202  Identities=9%  Similarity=-0.073  Sum_probs=138.9

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ...+..+.. .+...|++++|.+.++++.+.. +.+...+..+...+...+ ++++|.+.+++..+.. +.+..++..+.
T Consensus         8 ~~~~~~~~~-~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            8 SNIKTQLAM-EYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLK-VNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHH-HHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcC-ChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            445555554 5666788888888888877643 234556666666666654 5788888888776653 33566777777


Q ss_pred             HHHHcc-CcHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          179 SSLCAI-DQLVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       179 ~~~~~~-~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      ..+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.  .+.+...+..+...+.+.|
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcC
Confidence            788888 888888888888776333333 566777777788888888888888887752  2334667777777788888


Q ss_pred             cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ++++|...++...+..-..+...+..+...+...|+.+.|..+++.+.+.
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            88888888887766432134556666667777788888888877777654

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.57  E-value=1.8e-11  Score=102.13  Aligned_cols=223  Identities=10%  Similarity=-0.048  Sum_probs=182.5

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----ccCchhHHHHHHHHHHhcCCccCHhhH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLE----RRCQSQSVADILLEMKSIGYHPDCGTC  174 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~  174 (343)
                      ...+..+-. .+...|++++|...|++..+.+   +...+..+-..+..    .+ ++++|.+.|++..+.+   +...+
T Consensus         6 ~~a~~~lg~-~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~-~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            6 PKELVGLGA-KSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEK-NLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC-CHHHHHHHHHHHHHTT---CHHHH
T ss_pred             hHHHHHHHH-HHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCC-CHHHHHHHHHHHHHCC---CHHHH
Confidence            344444443 5667799999999999998833   34555555555555    54 6999999999998876   67788


Q ss_pred             HHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchhHHH
Q 046547          175 NYLVSSLCA----IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQGMVI  246 (343)
Q Consensus       175 ~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~  246 (343)
                      ..+-..|..    .+++++|...|++..+.+   +...+..+-..|..    .+++++|+..|+...+. +   +...+.
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~  150 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHH
Confidence            888889988    999999999999998875   67788888888988    99999999999999873 5   556777


Q ss_pred             HHHHHHHh----CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCCCCCCHHHHHHH
Q 046547          247 KVAAALRA----NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERGFIPYIKVRQKV  318 (343)
Q Consensus       247 ~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  318 (343)
                      .+-..|..    .+++++|...|++..+.+   +...+..+-..|..    .+++++|.+.|++..+.+   +...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            88888888    899999999999998864   45677778888888    999999999999998876   25677788


Q ss_pred             HHHHhc----cCChhHHHHHHHHHHhhc
Q 046547          319 VEGLAG----VGEWKLATVVRQRFAELK  342 (343)
Q Consensus       319 i~~~~~----~g~~~~a~~~~~~m~~~~  342 (343)
                      ...|..    .|++++|.+.|++..++.
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            888888    999999999999887764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.57  E-value=4.5e-13  Score=108.12  Aligned_cols=180  Identities=11%  Similarity=-0.048  Sum_probs=86.8

Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC-----------C
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA-----------R  220 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----------~  220 (343)
                      +++|...|++..+.. +.+...+..+-..+.+.|++++|...|++..+.. +.+...+..+...+...           |
T Consensus        21 ~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g   98 (217)
T 2pl2_A           21 YDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKG   98 (217)
T ss_dssp             HHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            444444444444321 2223344444444444444444444444444322 11233444444444444           6


Q ss_pred             ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHH
Q 046547          221 KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  300 (343)
                      ++++|+..+++..+.  -+-+...+..+-.++...|++++|...|++..+..  .+...+..+-..|...|++++|...|
T Consensus        99 ~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~  174 (217)
T 2pl2_A           99 YLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQY  174 (217)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            666666666666532  12234555566666666666666666666666554  45555666666666666666666666


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      ++..+.. +.+...+..+...+.+.|++++|.+.+++.
T Consensus       175 ~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          175 AKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6665543 224555666666666666666666666543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.55  E-value=1.2e-12  Score=109.01  Aligned_cols=249  Identities=10%  Similarity=-0.113  Sum_probs=169.8

Q ss_pred             hhcccchHHHHHHHHhcCCCCCCC--ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCc
Q 046547           74 PQNHRIKVIDEMLESFIPLRPRSR--PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQ  151 (343)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  151 (343)
                      ...++.+.+.+.++......+..+  +...+..+.. ++...|++++|...|+++.+.. +.+..++..+...+...+ +
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~-~   92 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGV-LYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG-N   92 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT-C
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHH-HHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcc-C
Confidence            344555666666666655433222  2455655554 6777789999999999988754 234667777777777765 6


Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKE  231 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  231 (343)
                      +++|.+.+++..+.. +.+...+..+...|...|++++|.+.|+++.+..  |+.......+..+...|++++|...++.
T Consensus        93 ~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~  169 (275)
T 1xnf_A           93 FDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            889999998887753 3356778888888899999999999999887743  4444444455555667889999999987


Q ss_pred             HHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCC--C-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC
Q 046547          232 MVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCP--I-GFQGYEVVVEGCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       232 m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                      ...  ..+++...+. +...+...++.++|...+....+....  | +..++..+...|...|++++|...|++..+.. 
T Consensus       170 ~~~--~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-  245 (275)
T 1xnf_A          170 HFE--KSDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN-  245 (275)
T ss_dssp             HHH--HSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHh--cCCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-
Confidence            775  3344444444 666777778888888888877653211  1 14677778888889999999999999887654 


Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHH
Q 046547          309 IPYIKVRQKVVEGLAGVGEWKLATVVR  335 (343)
Q Consensus       309 ~p~~~~~~~li~~~~~~g~~~~a~~~~  335 (343)
                       |+.  +.....++...|++++|.+.+
T Consensus       246 -p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 -VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             -chh--HHHHHHHHHHHHHHHhhHHHH
Confidence             422  223355777788888887765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=6.1e-12  Score=101.33  Aligned_cols=204  Identities=6%  Similarity=-0.088  Sum_probs=168.6

Q ss_pred             cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 046547          134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVI  213 (343)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  213 (343)
                      +...+..+...+...+ ++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+..++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQ-DYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            4455666666766765 6999999999998753 3457788899999999999999999999998754 34677889999


Q ss_pred             HHHhcC-CChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc
Q 046547          214 GAMSTA-RKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR  291 (343)
Q Consensus       214 ~~~~~~-~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  291 (343)
                      ..+... |++++|...++.+.. .+..| +...+..+..++...|++++|...++++.+.. +.+...+..+...+...|
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcC
Confidence            999999 999999999999986 23334 46778999999999999999999999998753 224678888899999999


Q ss_pred             cHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          292 EYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++++|.+.+++..+.....+...+..+...+...|+.+.|..+++.+.+..
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            999999999998876422467778888888999999999999999987654

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.53  E-value=7.3e-12  Score=103.04  Aligned_cols=202  Identities=12%  Similarity=0.011  Sum_probs=169.5

Q ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 046547          135 PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIG  214 (343)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  214 (343)
                      ...+..+...+...+ ++++|.+.+++..+.. +.+...+..+...|...|++++|.+.|++..+.. +.+..++..+..
T Consensus        37 ~~~~~~~a~~~~~~~-~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRG-NTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTT-CTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHH
Confidence            355666666666665 6999999999998763 4467788899999999999999999999988764 236788899999


Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccH
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREY  293 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  293 (343)
                      .+...|++++|.++++++.. .+..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...|...|++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~  191 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREY  191 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCH
Confidence            99999999999999999986 34445 56778899999999999999999999988753 23467888899999999999


Q ss_pred             hHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          294 ILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       294 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++|...++++.+.. +.+...+..+...+...|++++|.++++++.+..
T Consensus       192 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          192 VPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999988754 3567788899999999999999999999998764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=9.6e-13  Score=107.55  Aligned_cols=201  Identities=5%  Similarity=-0.056  Sum_probs=128.9

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ...|..+-. .+...|++++|...|+++.+.. +.+...+..+...+...+ ++++|.+.+++..+.. +.+...+..+.
T Consensus        23 ~~~~~~~a~-~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           23 SMTGGQQMG-RGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVN-ELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHH-HHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            344544443 5566788888888888887643 224555666666655554 5888888888877653 33566777777


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ..+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+++....  .+.+...+..+...+.+.|++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCH
Confidence            78888888888888888877653 235667777777888888888888888887752  334566777777778888888


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ++|...+++..+.. +.+..++..+...|...|++++|.+.++++.+..
T Consensus       176 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          176 DEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            88888888776642 2245567777777888888888888888776653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=3e-12  Score=106.54  Aligned_cols=227  Identities=12%  Similarity=-0.014  Sum_probs=175.4

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC--HhhHHHHHHHHHccC
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD--CGTCNYLVSSLCAID  185 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~ll~~~~~~~  185 (343)
                      .+...|++++|+..|++..+..  |+ ...+..+...+...+ ++++|...+++..+.+..|+  ...|..+...+...|
T Consensus        12 ~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~-~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           12 FLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELA-KYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTT-CHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHh-hHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            4557799999999999998754  43 346666766777765 69999999999988432222  234888899999999


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMI  265 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  265 (343)
                      ++++|.+.|++..+.. +.+..++..+...+...|++++|+..|++..+  -.+.+...+..+...+...+++++|.+.+
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR--PTTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC--SSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh--cCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988754 23567889999999999999999999999874  33445666777773444456999999999


Q ss_pred             HHHHHcCCCCc-hhhHHHHHHHHHhccc---HhHHHHHHHHHhHCC-CCCC------HHHHHHHHHHHhccCChhHHHHH
Q 046547          266 EFLERKGCPIG-FQGYEVVVEGCLECRE---YILAGKTVMGMTERG-FIPY------IKVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       266 ~~m~~~g~~p~-~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g-~~p~------~~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      ++..+.  .|+ ...+..+...+...|+   +++|...+++..+.. -.|+      ..+|..+...|...|++++|.+.
T Consensus       166 ~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  243 (272)
T 3u4t_A          166 VKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAA  243 (272)
T ss_dssp             HHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999874  344 5667777777888888   888998888876542 1233      35788899999999999999999


Q ss_pred             HHHHHhhcC
Q 046547          335 RQRFAELKS  343 (343)
Q Consensus       335 ~~~m~~~~~  343 (343)
                      +++..++.|
T Consensus       244 ~~~al~~~p  252 (272)
T 3u4t_A          244 WKNILALDP  252 (272)
T ss_dssp             HHHHHHHCT
T ss_pred             HHHHHhcCc
Confidence            999988764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.47  E-value=2.7e-12  Score=106.90  Aligned_cols=223  Identities=11%  Similarity=-0.054  Sum_probs=116.6

Q ss_pred             cCCChHHHHHHHHHHHhcCCC--c-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          112 SLHPLPLALAILQRTLRSGCV--P-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       112 ~~~~~~~a~~~~~~m~~~~~~--p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      ..|++++|+..|+++.+....  | +..++..+...+...+ ++++|...|++..+.. +.+..+|..+...|...|+++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLG-LRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcc-cHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            345566666666666554211  1 2334444444444443 4666666666665542 224555666666666666666


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +|.+.|++..+.. +.+..++..+...+...|++++|...|+++...   .|+.......+..+...|++++|...++..
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            6666666665532 123455566666666666666666666666532   233333333333444556666666666555


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC--C-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI--P-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .... +++...+ .+...+...++.++|.+.+.+..+....  | +..++..+...|.+.|++++|.+.|++..+..
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            4431 2222222 2444555555556666666655443211  0 13455566666666666666666666655543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=6.6e-12  Score=106.38  Aligned_cols=241  Identities=9%  Similarity=-0.009  Sum_probs=165.1

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhc-------CCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhc------
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRS-------GCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSI------  165 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~------  165 (343)
                      ...+..+-. .+...|++++|...++++.+.       ........+..+...+...+ ++++|...+++..+.      
T Consensus        27 ~~~~~~l~~-~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g-~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           27 LRTLHNLVI-QYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN-KYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH-HHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHhC
Confidence            456666665 677889999999999998763       22233455666666666665 799999999988754      


Q ss_pred             C-CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC------CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC-
Q 046547          166 G-YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA------ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNM-  236 (343)
Q Consensus       166 g-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-  236 (343)
                      + ......++..+...|...|++++|...|++..+.      +..| ...++..+...+...|++++|..++++..... 
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            2 2334567888999999999999999999998764      2223 35678889999999999999999999987520 


Q ss_pred             ----C-CCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc-------CCCCchhhHHH-------HHHHHHhcccHhHHH
Q 046547          237 ----G-LMPRQGMVIKVAAALRANREMWKAVEMIEFLERK-------GCPIGFQGYEV-------VVEGCLECREYILAG  297 (343)
Q Consensus       237 ----~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~~~-------li~~~~~~g~~~~a~  297 (343)
                          + .+....++..+...|...|++++|.+.++++.+.       ...+.......       +...+...+.+.++.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence                1 2223567888999999999999999999998753       12222222222       222233444455555


Q ss_pred             HHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          298 KTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       298 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..+....... ..+..++..+...|.+.|++++|.+++++..++.
T Consensus       265 ~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  308 (311)
T 3nf1_A          265 GWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSR  308 (311)
T ss_dssp             ---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            5666554332 2356778899999999999999999999988765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.46  E-value=1.2e-11  Score=99.72  Aligned_cols=198  Identities=13%  Similarity=-0.017  Sum_probs=146.6

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL  177 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  177 (343)
                      +...+..+-. .+...|++++|...|++..+.. +.+...+..+-..+...| ++++|...+++..+.. +.+...+..+
T Consensus         4 ~~~~~~~lg~-~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g-~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            4 AEQNPLRLGV-QLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLG-LVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             CCHHHHHHHH-HHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4455555554 6677899999999999998754 224455555655666655 6999999999998753 3356788888


Q ss_pred             HHHHHcc-----------CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHH
Q 046547          178 VSSLCAI-----------DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVI  246 (343)
Q Consensus       178 l~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  246 (343)
                      -..+...           |++++|...|++..+.. +-+...+..+-.++...|++++|+..|++..+. .  .+...+.
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~  155 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHH
Confidence            8899999           99999999999998753 235678888999999999999999999999974 5  7888899


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          247 KVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      .+..++...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999998743 2245678888889999999999999988653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=1e-11  Score=101.40  Aligned_cols=203  Identities=8%  Similarity=-0.074  Sum_probs=149.0

Q ss_pred             ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 046547          133 PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIV  212 (343)
Q Consensus       133 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  212 (343)
                      .....|..+...+...+ ++++|...|++..+.. +.+...+..+...+...|++++|.+.|++..+.. +.+..++..+
T Consensus        21 ~~~~~~~~~a~~~~~~~-~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   97 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFG-DYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGA   97 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHH
Confidence            34455666666666665 6889999999887743 3457788888888999999999999999887653 2367788888


Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc
Q 046547          213 IGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE  292 (343)
Q Consensus       213 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  292 (343)
                      ...+...|++++|...++++.+.  .+.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  174 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGM  174 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCC
Confidence            89999999999999999998853  34466778888899999999999999999888743 2356678888888999999


Q ss_pred             HhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          293 YILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       293 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +++|.+.+++..+.. +.+..++..+...|...|++++|.+.+++..++.
T Consensus       175 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          175 LDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999887764 3457788889999999999999999999887765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.44  E-value=2.4e-10  Score=97.27  Aligned_cols=220  Identities=9%  Similarity=-0.059  Sum_probs=131.1

Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHhc------cCch-------hHHHHHHHHHHhcCCccCHhhHHHHHHHHHc
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLER------RCQS-------QSVADILLEMKSIGYHPDCGTCNYLVSSLCA  183 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~------~~~~-------~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~  183 (343)
                      ++|..+|++..+.. +-+...|..+...+...      .+++       ++|..+|++..+.-.+-+...|..+...+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56666777766532 22334444444443321      1233       6677777777652112234466777777777


Q ss_pred             cCcHHHHHHHHHHhhhCCCCCC-Hh-hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH-hCccHHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPD-LE-SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR-ANREMWK  260 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~-~~~~~~~  260 (343)
                      .|++++|..+|++..+.  .|+ .. +|..+...+.+.|++++|..+|+...+  ..+++...|........ ..|+.++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--DARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT--STTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHcCCHHH
Confidence            77777777777777663  343 22 667777777777777777777777764  22233344433332221 2577777


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC-CCC--CHHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG-FIP--YIKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      |..+|+...+.. +-+...|..++..+.+.|++++|..+|++..... +.|  ....|..++..+.+.|+.++|..++++
T Consensus       188 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777766531 1234566666677777777777777777777652 344  355666667777777777777777777


Q ss_pred             HHhhc
Q 046547          338 FAELK  342 (343)
Q Consensus       338 m~~~~  342 (343)
                      +.+..
T Consensus       267 a~~~~  271 (308)
T 2ond_A          267 RFTAF  271 (308)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            66543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.43  E-value=8e-10  Score=101.32  Aligned_cols=302  Identities=9%  Similarity=-0.022  Sum_probs=185.6

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhh----hhcccchH----HHHHHHHhcCCCCCC-CChh
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNF----PQNHRIKV----IDEMLESFIPLRPRS-RPKI  100 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~----~~~~~~~~----~~~~~~~~~~~~~~~-p~~~  100 (343)
                      +...|...+..+.+.|+++.|..+|++....  .|++..|....    ...+..+.    +..+++......+.. ++..
T Consensus        45 ~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~  122 (530)
T 2ooe_A           45 SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQ  122 (530)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHH
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHH
Confidence            5666777888888888888888888877654  36655543222    22333332    334555554333322 3456


Q ss_pred             hHHHHHHHHhhc---------CCChHHHHHHHHHHHhcCCCccHHHHHHHHHH---H--------H-hccCchhHHH---
Q 046547          101 AYDYLLSYTLQS---------LHPLPLALAILQRTLRSGCVPVPQIRLLLSSA---W--------L-ERRCQSQSVA---  156 (343)
Q Consensus       101 ~~~~li~~~~~~---------~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~---~--------~-~~~~~~~~a~---  156 (343)
                      .|...+. ....         .|+++.|..+|++..+....+....|......   +        . ...+.+..|.   
T Consensus       123 ~w~~~~~-~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~  201 (530)
T 2ooe_A          123 IWVDYIN-FLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVA  201 (530)
T ss_dssp             HHHHHHH-HHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHH-HHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHH
Confidence            7777775 3332         47788999999998873211112233221110   0        0 0001122222   


Q ss_pred             ---------------------------------------------------------HHHHHHHhcCCccCHhhHHHHHH
Q 046547          157 ---------------------------------------------------------DILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       157 ---------------------------------------------------------~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                                                                               .+|++.... .+.+...|..+..
T Consensus       202 ~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~  280 (530)
T 2ooe_A          202 KEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQ  280 (530)
T ss_dssp             HHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence                                                                     223332221 1123444555555


Q ss_pred             HHHc-------cCcHH-------HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--hh
Q 046547          180 SLCA-------IDQLV-------EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--QG  243 (343)
Q Consensus       180 ~~~~-------~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~  243 (343)
                      .+.+       .|+++       +|..+|++..+.-.+-+...|..+...+.+.|++++|..+|+...+.   .|+  ..
T Consensus       281 ~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~  357 (530)
T 2ooe_A          281 YLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTL  357 (530)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---SSSCHHH
T ss_pred             HHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc---cccCchH
Confidence            5554       57776       88888888875323335777888888888899999999999998852   443  24


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHH-HHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEG-CLECREYILAGKTVMGMTERGFIPYIKVRQKVVEG  321 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  321 (343)
                      .|...+..+.+.|++++|.++|++..+.  .|+ ...|...... +...|+.++|..+|++..+.. +-+...|..++..
T Consensus       358 ~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~  434 (530)
T 2ooe_A          358 VYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDY  434 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            7888888888888999999999988764  232 2222222111 335788888999888877653 2257788888888


Q ss_pred             HhccCChhHHHHHHHHHHhh
Q 046547          322 LAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       322 ~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +.+.|+.++|..+|++..+.
T Consensus       435 ~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          435 LSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HTTTTCHHHHHHHHHHHHHS
T ss_pred             HHhCCCHhhHHHHHHHHHhc
Confidence            88889999999998887654

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.43  E-value=3.2e-11  Score=105.52  Aligned_cols=232  Identities=5%  Similarity=-0.041  Sum_probs=183.2

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ..|+.+- .++...|++++|+..+++..+..  |+ ...|+.+-..+...++++++|+..+++..+.. +-+...|+.+-
T Consensus        98 ~a~~~lg-~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           98 DVYDYFR-AVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHH-HHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHH-HHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            4455555 36778899999999999998854  54 45566666666666534999999999998853 33578899999


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh-Ccc
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA-NRE  257 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~~~  257 (343)
                      ..+...|++++|+..|++..+.. +-+...|..+..++...|++++|+..|+++.+.  -+-+...|+.+-.++.+ .|.
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCc
Confidence            99999999999999999998864 236788999999999999999999999999963  33467789999999998 666


Q ss_pred             HHHH-----HHHHHHHHHcCCCC-chhhHHHHHHHHHhcc--cHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccC---
Q 046547          258 MWKA-----VEMIEFLERKGCPI-GFQGYEVVVEGCLECR--EYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVG---  326 (343)
Q Consensus       258 ~~~a-----~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---  326 (343)
                      .++|     +..+++..+.  .| +...|..+...+...|  ++++|.+.+.++ + .-..+...+..+...|.+.|   
T Consensus       251 ~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~  326 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQ  326 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhccc
Confidence            5777     5888888773  45 4557888888888888  689999999888 3 22446788889999998874   


Q ss_pred             ------ChhHHHHHHHHH-Hhhc
Q 046547          327 ------EWKLATVVRQRF-AELK  342 (343)
Q Consensus       327 ------~~~~a~~~~~~m-~~~~  342 (343)
                            ..++|.++|+++ .+++
T Consensus       327 ~~~~~~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          327 CDNKEDILNKALELCEILAKEKD  349 (382)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHHHHhC
Confidence                  358999999998 6665

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.43  E-value=3.3e-11  Score=94.17  Aligned_cols=166  Identities=13%  Similarity=-0.022  Sum_probs=90.2

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      +..|..+-..|.+.|++++|.+.|++..+.. +-+..++..+..+|...|++++|...+.....  ..+-+...+..+..
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~   81 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVV--LDTTSAEAYYILGS   81 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCchhHHHHHHHHH
Confidence            4455555556666666666666666555432 12344555555566666666666666665553  22223444555555


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhH
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKL  330 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  330 (343)
                      .+...++++.|...+.+..+.. +-+...+..+-..|.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            5555666666666666555422 1133445555555666666666666666555443 2245555556666666666666


Q ss_pred             HHHHHHHHHhh
Q 046547          331 ATVVRQRFAEL  341 (343)
Q Consensus       331 a~~~~~~m~~~  341 (343)
                      |.+.|++..++
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            66666655544

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.41  E-value=6.4e-10  Score=92.67  Aligned_cols=224  Identities=9%  Similarity=-0.015  Sum_probs=173.4

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYT  109 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~  109 (343)
                      +...+..+-..+.+.|++++|.+.|++..+.+                                    +...+..+-. .
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~------------------------------------~~~a~~~lg~-~   47 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK------------------------------------ENSGCFNLGV-L   47 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT------------------------------------CHHHHHHHHH-H
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC------------------------------------CHHHHHHHHH-H
Confidence            34455556666666677777777776543311                                    2233333332 4


Q ss_pred             hhc----CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----ccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHH
Q 046547          110 LQS----LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLE----RRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSL  181 (343)
Q Consensus       110 ~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~  181 (343)
                      +..    .+++++|...|++..+.+   +...+..+-..+..    .+ ++++|...|++..+.+   +...+..+-..|
T Consensus        48 ~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~-~~~~A~~~~~~a~~~~---~~~a~~~lg~~~  120 (273)
T 1ouv_A           48 YYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQ-NTNKALQYYSKACDLK---YAEGCASLGGIY  120 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC-CHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCccc-CHHHHHHHHHHHHHcC---CccHHHHHHHHH
Confidence            555    789999999999998876   56666666666666    54 6999999999998875   677888888889


Q ss_pred             Hc----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 046547          182 CA----IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       182 ~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  253 (343)
                      ..    .+++++|.+.|++..+.+   +...+..+-..|..    .+++++|+..|+...+. +   +...+..+-..|.
T Consensus       121 ~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~  193 (273)
T 1ouv_A          121 HDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYH  193 (273)
T ss_dssp             HHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH
T ss_pred             HcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH
Confidence            88    999999999999998876   56677778888887    89999999999999863 3   4567888888899


Q ss_pred             h----CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCC
Q 046547          254 A----NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERG  307 (343)
Q Consensus       254 ~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  307 (343)
                      .    .+++++|...+++..+.+.   ...+..+-..|.+    .+++++|.+.|++..+.|
T Consensus       194 ~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          194 HGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            9    9999999999999988642   5667777888888    999999999999998876

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.41  E-value=3.1e-11  Score=99.32  Aligned_cols=192  Identities=11%  Similarity=0.008  Sum_probs=160.0

Q ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCC--CCC----Hhh
Q 046547          135 PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC--VPD----LES  208 (343)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~  208 (343)
                      ...+..+-..+...+ ++++|...+++..+..  .+...+..+..++...|++++|.+.+++..+...  .|+    ..+
T Consensus         5 a~~~~~~g~~~~~~~-~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKAR-QFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc-cHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            345666666777765 7999999999998877  7888999999999999999999999999876431  122    578


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGC  287 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~  287 (343)
                      +..+...+...|++++|...|++....   .|+.       ..+.+.|++++|...++.+...  .| +...+..+...+
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~  149 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE---HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEY  149 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc---Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHH
Confidence            899999999999999999999999863   3442       4567778999999999998874  34 455778888889


Q ss_pred             HhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          288 LECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       288 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ...|++++|...+++..+.. +.+..++..+...|...|++++|.+.+++..+..
T Consensus       150 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          150 FTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            99999999999999998765 3468889999999999999999999999988764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.40  E-value=2e-09  Score=97.71  Aligned_cols=222  Identities=10%  Similarity=-0.020  Sum_probs=106.1

Q ss_pred             CHHHHHHHHHHHhC----ccCcchHHHHHHHchhcCCCCChHHH-hhhhhh----cccchHHHHHHHHhcCCCCCCCChh
Q 046547           30 SLRTLEETVRAAVD----AKDYQQIPELLGSFEEACQNPNPFSF-LSNFPQ----NHRIKVIDEMLESFIPLRPRSRPKI  100 (343)
Q Consensus        30 ~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~p~~~  100 (343)
                      +...+..+-..+..    .++++.|.+.|+...+.|. |+.... -..+..    .++.+.+.+.++..... +   +..
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~-~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~  112 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGY-TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-G---LPQ  112 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHH
Confidence            44555555555555    6777777777777665542 222221 122222    33444444444443321 1   233


Q ss_pred             hHHHHHHHHhhc----CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhc---cCchhHHHHHHHHHHhcCCccCHhh
Q 046547          101 AYDYLLSYTLQS----LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLER---RCQSQSVADILLEMKSIGYHPDCGT  173 (343)
Q Consensus       101 ~~~~li~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~~~~~a~~~~~~m~~~g~~~~~~~  173 (343)
                      .+..+-. .+..    .+++++|...|++..+.|   +...+..+-..|...   .++.++|.+.|++..+.|   +...
T Consensus       113 a~~~Lg~-~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          113 AQQNLGV-MYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHH-HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHH-HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            3333332 3333    456777777777766654   233344443333330   234566666666665543   3445


Q ss_pred             HHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchhHH
Q 046547          174 CNYLVSSLCA----IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQGMV  245 (343)
Q Consensus       174 ~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~  245 (343)
                      +..+-..|..    .++.++|.+.|++..+.|   +...+..+...|..    .++.++|..+|+...+. +   +...+
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~  258 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ-G---NSIAQ  258 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT-T---CHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHH
Confidence            5555555554    556666666666555543   23334444444443    45555555555554431 2   22233


Q ss_pred             HHHHHHHHh----CccHHHHHHHHHHHHH
Q 046547          246 IKVAAALRA----NREMWKAVEMIEFLER  270 (343)
Q Consensus       246 ~~li~~~~~----~~~~~~a~~~~~~m~~  270 (343)
                      ..+-..|..    .++.++|...|+...+
T Consensus       259 ~~lg~~y~~g~~~~~d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          259 FRLGYILEQGLAGAKEPLKALEWYRKSAE  287 (490)
T ss_dssp             HHHHHHHHHTTTSSCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Confidence            333333333    4444455544444443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.39  E-value=1.5e-10  Score=104.36  Aligned_cols=309  Identities=10%  Similarity=-0.086  Sum_probs=193.2

Q ss_pred             CCCHHHHHHHHHHHhCccCcchHHHHHHHchhc-----C-CCCC-hHHHh---hhhhh--cccchHHHHHHHHhcCCCCC
Q 046547           28 MSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA-----C-QNPN-PFSFL---SNFPQ--NHRIKVIDEMLESFIPLRPR   95 (343)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~p~-~~~~~---~~~~~--~~~~~~~~~~~~~~~~~~~~   95 (343)
                      .....+|+.+..++...|++++|...+++....     + ..++ ..++.   ..+..  .++.+.+.+.++....+.|.
T Consensus        91 ~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~  170 (472)
T 4g1t_A           91 IRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK  170 (472)
T ss_dssp             TTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT
T ss_pred             hHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC
Confidence            345678999999999999999999999876531     1 1222 22331   11222  23455666666666666665


Q ss_pred             CCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhc---cCchhHHHHHHHHHHhcCCccCH
Q 046547           96 SRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLER---RCQSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus        96 ~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~---~~~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      .|+....-..+...+...++.++|++.+++..+..  |+ ...+..+...+...   .++.++|.+.+++..... +.+.
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~--p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~  247 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN--PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVT  247 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC--SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHH
Confidence            44322211222123456678889999999988744  43 34444433333322   245778999999887653 4456


Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc-------------------CCChhHHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST-------------------ARKTNDAVEMMKEM  232 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------------------~~~~~~a~~~~~~m  232 (343)
                      .++..+...|...|++++|...|++..+.. +-+..++..+...|..                   .+..+.|...++..
T Consensus       248 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  326 (472)
T 4g1t_A          248 DVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKA  326 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            778889999999999999999999988753 2245556655554432                   12356778888887


Q ss_pred             HhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh--hHHHHHH-HHHhcccHhHHHHHHHHHhHCC--
Q 046547          233 VLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ--GYEVVVE-GCLECREYILAGKTVMGMTERG--  307 (343)
Q Consensus       233 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~g--  307 (343)
                      .+  --+.+..++..+...+...|++++|.+.|++..+....|...  .+..+.. .+...|++++|+..|.+..+..  
T Consensus       327 ~~--~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~  404 (472)
T 4g1t_A          327 DE--ANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQK  404 (472)
T ss_dssp             HH--HCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCC
T ss_pred             hh--cCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc
Confidence            75  234456678899999999999999999999988754433221  1222222 2457889999999888765432  


Q ss_pred             ---------------------CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          308 ---------------------FIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       308 ---------------------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                                           -+.+..+|..+...|...|++++|++.|++..++.
T Consensus       405 ~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          405 SREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             cHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence                                 12356788999999999999999999999987764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.39  E-value=4.6e-09  Score=95.30  Aligned_cols=210  Identities=11%  Similarity=-0.007  Sum_probs=124.5

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh---ccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHc----cC
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLE---RRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCA----ID  185 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~----~~  185 (343)
                      .++.++|.+.|++..+.|   +...+..+-..|..   ..++.++|..+|++..+.|   +...+..+-..|..    .+
T Consensus       200 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~  273 (490)
T 2xm6_A          200 ERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAK  273 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCC
Confidence            455555555555555443   22333333333332   1234556666666655543   23344444444544    56


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC-----CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc---c
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA-----RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR---E  257 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~---~  257 (343)
                      +.++|.+.|++..+.|   +...+..+-..|...     ++.++|+.+|+...+. +   +...+..+-..|...|   +
T Consensus       274 d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y~~~g~~~~  346 (490)
T 2xm6_A          274 EPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAIYFRLGSEEE  346 (490)
T ss_dssp             CHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHSCCHHH
T ss_pred             CHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHHHHhCCCccc
Confidence            6666666666665543   233444555555554     6777777777776652 3   3345555555665544   6


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc----cCChh
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAG----VGEWK  329 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~  329 (343)
                      .++|.+.|++..+.|   +...+..|-..|..    .+++++|.+.|++..+.|   +...+..|...|..    .++.+
T Consensus       347 ~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~  420 (490)
T 2xm6_A          347 HKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYV  420 (490)
T ss_dssp             HHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             HHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            777777777777653   44566666666666    677888888888877765   45566667777776    67888


Q ss_pred             HHHHHHHHHHhh
Q 046547          330 LATVVRQRFAEL  341 (343)
Q Consensus       330 ~a~~~~~~m~~~  341 (343)
                      +|.+.|++..+.
T Consensus       421 ~A~~~~~~A~~~  432 (490)
T 2xm6_A          421 QAWAWFDTASTN  432 (490)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC
Confidence            888888776654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.38  E-value=1.4e-11  Score=108.92  Aligned_cols=240  Identities=10%  Similarity=-0.084  Sum_probs=171.4

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHhc----CCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhc----C-CccC
Q 046547          101 AYDYLLSYTLQSLHPLPLALAILQRTLRS----GCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSI----G-YHPD  170 (343)
Q Consensus       101 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g-~~~~  170 (343)
                      .|..+-. ++...|++++|...+++..+.    +-.| ....+..+-..+...+ ++++|...+++..+.    + ....
T Consensus        88 ~~~~lg~-~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~  165 (411)
T 4a1s_A           88 IYSQLGN-AYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMG-RFDEAAICCERHLTLARQLGDRLSE  165 (411)
T ss_dssp             HHHHHHH-HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHH-HHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHhhchHHH
Confidence            4444443 566779999999999887643    2122 2344555555666654 689999988877543    1 1223


Q ss_pred             HhhHHHHHHHHHccCc-----------------HHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQ-----------------LVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEM  228 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~  228 (343)
                      ..++..+...|...|+                 +++|.+.+++..+.    +..+ ...++..+...+...|++++|...
T Consensus       166 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  245 (411)
T 4a1s_A          166 GRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEH  245 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            4578888888999999                 99999888876542    1111 235788888999999999999999


Q ss_pred             HHHHHhcCCCCCc----hhHHHHHHHHHHhCccHHHHHHHHHHHHHcC--CC---CchhhHHHHHHHHHhcccHhHHHHH
Q 046547          229 MKEMVLNMGLMPR----QGMVIKVAAALRANREMWKAVEMIEFLERKG--CP---IGFQGYEVVVEGCLECREYILAGKT  299 (343)
Q Consensus       229 ~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~---p~~~~~~~li~~~~~~g~~~~a~~~  299 (343)
                      +++......-.++    ..++..+...|...|++++|...+++..+..  ..   ....++..+...|...|++++|...
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  325 (411)
T 4a1s_A          246 HQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEY  325 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9987742000111    2378888999999999999999999876531  11   1145677888889999999999999


Q ss_pred             HHHHhHC----CCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          300 VMGMTER----GFI-PYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       300 ~~~m~~~----g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +++..+.    +.. ....++..+...|...|++++|.+.+++..++.
T Consensus       326 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          326 HNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            9987653    111 124578888999999999999999999987653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.37  E-value=4.7e-11  Score=107.90  Aligned_cols=212  Identities=11%  Similarity=-0.059  Sum_probs=132.6

Q ss_pred             hHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCch-hHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHH
Q 046547          116 LPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQS-QSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVL  194 (343)
Q Consensus       116 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~  194 (343)
                      ++++++.+++..... ..+...+..+-..+... +++ ++|.+.|++..+.. +-+...|..+...|.+.|++++|.+.|
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~-g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVT-PDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSS-SSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhc-cccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            555566666544422 12344444444444444 356 77777777766542 223566777777777777777777777


Q ss_pred             HHhhhCCCCCCHhhHHHHHHHHhcC---------CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC--------cc
Q 046547          195 KGMSSAECVPDLESYSIVIGAMSTA---------RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN--------RE  257 (343)
Q Consensus       195 ~~m~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~--------~~  257 (343)
                      ++..+..  |+..++..+...+...         |++++|+..|++..+.  -+-+...|..+..+|...        |+
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccch
Confidence            7776643  5556666777777777         7777777777776642  233456667777777666        77


Q ss_pred             HHHHHHHHHHHHHcCCCC----chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          258 MWKAVEMIEFLERKGCPI----GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      +++|.+.|++..+.  .|    +...|..+-..|...|++++|.+.|++..+.. +-+...+..+...+...|++++|.+
T Consensus       237 ~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          237 SQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777776663  33    45566667777777777777777777766543 2245566666677777777777766


Q ss_pred             HHHH
Q 046547          334 VRQR  337 (343)
Q Consensus       334 ~~~~  337 (343)
                      .+.+
T Consensus       314 ~~~~  317 (474)
T 4abn_A          314 SKGK  317 (474)
T ss_dssp             HTTT
T ss_pred             Hhcc
Confidence            5433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.36  E-value=5.8e-11  Score=104.20  Aligned_cols=230  Identities=9%  Similarity=-0.040  Sum_probs=169.8

Q ss_pred             HhhcCCChHHHHHHHHHHHhc----CCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhc----C--CccCHhhHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRS----GCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSI----G--YHPDCGTCNYL  177 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g--~~~~~~~~~~l  177 (343)
                      .+...|++++|...+++..+.    +-.+ ...++..+-..+...+ ++++|...+++..+.    +  ......+++.+
T Consensus       112 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  190 (383)
T 3ulq_A          112 YELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMK-QTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLF  190 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            456779999999999998763    2122 2345566666666654 799999988887643    1  11124578888


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHh---cCCC-CCchhHHHHH
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVL---NMGL-MPRQGMVIKV  248 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~-~p~~~~~~~l  248 (343)
                      -..|...|++++|...|++..+.    +..+ ...++..+...|...|++++|++.+++...   +.+. +....++..+
T Consensus       191 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  270 (383)
T 3ulq_A          191 ATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLI  270 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHH
Confidence            89999999999999999887643    2111 134788899999999999999999998775   1133 3346778999


Q ss_pred             HHHHHhCccHHHHHHHHHHHHHc----CCCCchhhHHHHHHHHHhccc---HhHHHHHHHHHhHCCCCC-CHHHHHHHHH
Q 046547          249 AAALRANREMWKAVEMIEFLERK----GCPIGFQGYEVVVEGCLECRE---YILAGKTVMGMTERGFIP-YIKVRQKVVE  320 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p-~~~~~~~li~  320 (343)
                      ...+.+.|++++|...+++..+.    +-+.....+..+-..|...|+   +++|+.++++.   +..| ....+..+..
T Consensus       271 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          271 TQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHH
Confidence            99999999999999999987653    111122345667777888888   77788887765   3333 3456778999


Q ss_pred             HHhccCChhHHHHHHHHHHhhc
Q 046547          321 GLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       321 ~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .|...|++++|.+.+++..+++
T Consensus       348 ~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.36  E-value=2.8e-11  Score=106.55  Aligned_cols=278  Identities=12%  Similarity=-0.066  Sum_probs=170.3

Q ss_pred             CHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCC--hhhHHHHHH
Q 046547           30 SLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRP--KIAYDYLLS  107 (343)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~--~~~~~~li~  107 (343)
                      +...+...-..+.+.|++++|...|++....+                                +..|.  ...+..+-.
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--------------------------------~~~~~~~~~~~~~l~~   55 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG--------------------------------TEDLKTLSAIYSQLGN   55 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------CSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--------------------------------cccHHHHHHHHHHHHH
Confidence            44555666667777777777777777665431                                11111  123444443


Q ss_pred             HHhhcCCChHHHHHHHHHHHhc----CCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC-----ccCHhhHHHH
Q 046547          108 YTLQSLHPLPLALAILQRTLRS----GCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGY-----HPDCGTCNYL  177 (343)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~-----~~~~~~~~~l  177 (343)
                       ++...|++++|...+++..+.    +-.|. ..++..+-..+...| ++++|...+++..+...     .....++..+
T Consensus        56 -~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  133 (406)
T 3sf4_A           56 -AYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG-NFDEAIVCCQRHLDISRELNDKVGEARALYNL  133 (406)
T ss_dssp             -HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             -HHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHhcccccchHHHHHHH
Confidence             555667888888877775432    21222 233444444555544 57788877776654210     1113466777


Q ss_pred             HHHHHccCc--------------------HHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHH
Q 046547          178 VSSLCAIDQ--------------------LVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEM  232 (343)
Q Consensus       178 l~~~~~~~~--------------------~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m  232 (343)
                      ...|...|+                    +++|.+.+++..+.    +..| ...++..+...+...|++++|...+++.
T Consensus       134 ~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  213 (406)
T 3sf4_A          134 GNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQR  213 (406)
T ss_dssp             HHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHH
T ss_pred             HHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            777777888                    78887777765431    2111 1346777777788888888888888776


Q ss_pred             HhcCCCCCc----hhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          233 VLNMGLMPR----QGMVIKVAAALRANREMWKAVEMIEFLERK----GCPIG-FQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       233 ~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      .....-.++    ..++..+...+...|++++|...+++..+.    +-.+. ..++..+...|...|++++|...+++.
T Consensus       214 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          214 LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            631000111    236777777888888888888888876542    11111 346667777788888888888888776


Q ss_pred             hHC----CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          304 TER----GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       304 ~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .+.    +-.+ ...++..+...|...|++++|.+.+++..++
T Consensus       294 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          294 LAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            543    1111 1456777778888888888888888876654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.35  E-value=1e-10  Score=98.97  Aligned_cols=233  Identities=9%  Similarity=-0.024  Sum_probs=150.9

Q ss_pred             hhhhhhcccchHHHHHHHHhcCCCC-----CCCC-hhhHHHHHHHHhhcCCChHHHHHHHHHHHhc------CCCc-cHH
Q 046547           70 LSNFPQNHRIKVIDEMLESFIPLRP-----RSRP-KIAYDYLLSYTLQSLHPLPLALAILQRTLRS------GCVP-VPQ  136 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~-----~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~  136 (343)
                      ...+...|+.+.+...++....+..     ..|. ...+..+-. ++...|++++|...+++..+.      +-.| ...
T Consensus        34 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~-~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  112 (311)
T 3nf1_A           34 VIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILAL-VYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAA  112 (311)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHH
Confidence            3455677788888888887765311     1222 345555554 777889999999999998764      2233 345


Q ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHhc------CC-ccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC------CCC
Q 046547          137 IRLLLSSAWLERRCQSQSVADILLEMKSI------GY-HPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA------ECV  203 (343)
Q Consensus       137 ~~~~li~~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~  203 (343)
                      ++..+...+...+ ++++|...+++..+.      +- ......+..+...+...|++++|.++|++..+.      +..
T Consensus       113 ~~~~l~~~~~~~g-~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  191 (311)
T 3nf1_A          113 TLNNLAVLYGKRG-KYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDD  191 (311)
T ss_dssp             HHHHHHHHHHTTT-CHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTC
T ss_pred             HHHHHHHHHHHcC-cHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            5666666666654 799999999988764      22 224567888889999999999999999998764      223


Q ss_pred             C-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcC------CCCCchhHH-------HHHHHHHHhCccHHHHHHHHHHHH
Q 046547          204 P-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNM------GLMPRQGMV-------IKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       204 ~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~~p~~~~~-------~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      | ...++..+...+...|++++|...+++.....      ...+.....       ..+...+...+.+.++...+....
T Consensus       192 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  271 (311)
T 3nf1_A          192 PNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACK  271 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-------
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcC
Confidence            3 34578889999999999999999999988520      122222222       222222233334444455555544


Q ss_pred             HcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          270 RKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .. ...+..++..+...|.+.|++++|.+.|++..+
T Consensus       272 ~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          272 VD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            32 122455788889999999999999999998765

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.35  E-value=9.7e-11  Score=91.02  Aligned_cols=165  Identities=12%  Similarity=-0.020  Sum_probs=105.2

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      ..|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...+++....  .+.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~   85 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            345555566666677777777776665432 234556666666677777777777777776642  23345566666667


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA  331 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  331 (343)
                      +...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777666542 2244556666666777777777777777766553 23456666777777777777777


Q ss_pred             HHHHHHHHhh
Q 046547          332 TVVRQRFAEL  341 (343)
Q Consensus       332 ~~~~~~m~~~  341 (343)
                      .+.+++..++
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            7777766554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.35  E-value=1.9e-11  Score=104.48  Aligned_cols=276  Identities=12%  Similarity=-0.049  Sum_probs=189.3

Q ss_pred             HHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCC--hhhHHHHHHHHh
Q 046547           33 TLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRP--KIAYDYLLSYTL  110 (343)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~--~~~~~~li~~~~  110 (343)
                      .+...-..+...|++++|...|++....                                .+..|.  ...+..+-. ++
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~--------------------------------~~~~~~~~~~~~~~l~~-~~   53 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQV--------------------------------GTEDLKTLSAIYSQLGN-AY   53 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------------------CCSCHHHHHHHHHHHHH-HH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhh--------------------------------CcccHHHHHHHHHHHHH-HH
Confidence            3444455666677777777777765542                                111111  234444444 56


Q ss_pred             hcCCChHHHHHHHHHHHhc----CCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC----c-cCHhhHHHHHHH
Q 046547          111 QSLHPLPLALAILQRTLRS----GCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGY----H-PDCGTCNYLVSS  180 (343)
Q Consensus       111 ~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~----~-~~~~~~~~ll~~  180 (343)
                      ...|++++|...+++..+.    +-.|. ..++..+-..+...+ ++++|...+++..+...    . ....++..+...
T Consensus        54 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  132 (338)
T 3ro2_A           54 FYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG-NFDEAIVCCQRHLDISRELNDKVGEARALYNLGNV  132 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHcc-CHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence            6779999999999886542    22222 344555656666655 69999998888754311    1 113477888888


Q ss_pred             HHccCc--------------------HHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          181 LCAIDQ--------------------LVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       181 ~~~~~~--------------------~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                      +...|+                    +++|.+.+++....    +..| ...++..+...+...|++++|...+++....
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  212 (338)
T 3ro2_A          133 YHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  212 (338)
T ss_dssp             HHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            899999                    99999888876532    2111 2456788888999999999999999987642


Q ss_pred             C---CC-CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          236 M---GL-MPRQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       236 ~---~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .   +. .....++..+...+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|...+++..+.
T Consensus       213 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          213 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            0   11 112347888889999999999999999987642    1111 1446777888899999999999999987653


Q ss_pred             ----CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          307 ----GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       307 ----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                          +-.+ ...++..+...|.+.|++++|.+.+++..++.
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          293 AQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence                2111 24578889999999999999999999988753

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.34  E-value=2.9e-10  Score=94.46  Aligned_cols=214  Identities=9%  Similarity=-0.099  Sum_probs=152.8

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccH--HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVP--QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL  177 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  177 (343)
                      ..+..+.. ++...|++++|+..+++..+.+-.|+.  ..|..+-..+...+ ++++|.+.++...+.. +.+..++..+
T Consensus        38 ~~~~~l~~-~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~-~~~~A~~~~~~a~~~~-~~~~~~~~~l  114 (272)
T 3u4t_A           38 YIYNRRAV-CYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG-QDSLAIQQYQAAVDRD-TTRLDMYGQI  114 (272)
T ss_dssp             TTHHHHHH-HHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHS-TTCTHHHHHH
T ss_pred             HHHHHHHH-HHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc-cHHHHHHHHHHHHhcC-cccHHHHHHH
Confidence            35555554 667789999999999998874422222  23666666666665 6999999999988753 3355788889


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      ...|...|++++|.+.|++..+.. +.+..++..+...+...+++++|...|++..+.  .+.+...+..+..++...++
T Consensus       115 ~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~  191 (272)
T 3u4t_A          115 GSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDP  191 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCc
Confidence            999999999999999999887762 334566666662444456999999999998853  23346677777788887777


Q ss_pred             ---HHHHHHHHHHHHHcC-CCCc------hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHH
Q 046547          258 ---MWKAVEMIEFLERKG-CPIG------FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVE  320 (343)
Q Consensus       258 ---~~~a~~~~~~m~~~g-~~p~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  320 (343)
                         .++|...+++..+.. -.|+      ..+|..+-..|...|++++|.+.|++..+.. +-+......+-.
T Consensus       192 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~  263 (272)
T 3u4t_A          192 DTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD-PTNKKAIDGLKM  263 (272)
T ss_dssp             TCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHC-
T ss_pred             chhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-ccHHHHHHHhhh
Confidence               777888888876531 1233      2467778888999999999999999988764 224444444433

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.34  E-value=4.6e-11  Score=99.53  Aligned_cols=230  Identities=10%  Similarity=-0.020  Sum_probs=155.9

Q ss_pred             hcCCChHHHHHHHHHHHhc-------CCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhc------CC-ccCHhhHHH
Q 046547          111 QSLHPLPLALAILQRTLRS-------GCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSI------GY-HPDCGTCNY  176 (343)
Q Consensus       111 ~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~  176 (343)
                      ...|++++|+..+++..+.       ..+....++..+-..+...+ ++++|...+++..+.      +- +....++..
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN-KYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcc-cHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            3457788888888876542       11223455666666666665 799999999988754      22 234567889


Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhC------C-CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc----C-C-CCCchh
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSA------E-CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN----M-G-LMPRQG  243 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~-~~p~~~  243 (343)
                      +...|...|++++|.+.|++..+.      . .+....++..+...+...|++++|...+++....    . + .+....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999998764      1 1234677889999999999999999999998852    0 1 222456


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHc-------CCCCchhhH-HHHHHHHHhccc------HhHHHHHHHHHhHCCCC
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERK-------GCPIGFQGY-EVVVEGCLECRE------YILAGKTVMGMTERGFI  309 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~-~~li~~~~~~g~------~~~a~~~~~~m~~~g~~  309 (343)
                      ++..+...|...|++++|...+++..+.       ...+....+ ..+...+...+.      +..+...++.... ...
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCH
Confidence            7889999999999999999999988753       223333333 333323333222      2222222222111 112


Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          310 PYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       310 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ....++..+...|...|++++|.+++++..+.+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            245678889999999999999999999987764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=2.1e-09  Score=96.73  Aligned_cols=310  Identities=11%  Similarity=-0.036  Sum_probs=197.4

Q ss_pred             cCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhc-------CCCCCh-HHH---hhhhhhcccchHHHHHHHHhcCCC-
Q 046547           26 RSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEA-------CQNPNP-FSF---LSNFPQNHRIKVIDEMLESFIPLR-   93 (343)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~-~~~---~~~~~~~~~~~~~~~~~~~~~~~~-   93 (343)
                      ........|+.+-..+...|++++|++.|++..+.       ...|+. .+|   ..++...|+.+.+...++....+. 
T Consensus        46 ~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~  125 (472)
T 4g1t_A           46 NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCE  125 (472)
T ss_dssp             C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhH
Confidence            33344567999999999999999999999875431       113433 344   234556677666655555443221 


Q ss_pred             ----CCCCC-hhhHHHHHH-HHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHH--hccCchhHHHHHHHHHHh
Q 046547           94 ----PRSRP-KIAYDYLLS-YTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWL--ERRCQSQSVADILLEMKS  164 (343)
Q Consensus        94 ----~~~p~-~~~~~~li~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~--~~~~~~~~a~~~~~~m~~  164 (343)
                          +..++ ..+++..-. ......+++++|+..|++..+..  |+... +..+...+.  ...++.++|++.+++..+
T Consensus       126 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~  203 (472)
T 4g1t_A          126 KFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIR  203 (472)
T ss_dssp             HSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHH
T ss_pred             hcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhh
Confidence                11222 234433221 11223467999999999998743  55433 333322222  222356788988888876


Q ss_pred             cCCccCHhhHHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC
Q 046547          165 IGYHPDCGTCNYLVSSLCA----IDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP  240 (343)
Q Consensus       165 ~g~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p  240 (343)
                      .. +.+..++..+...+..    .|++++|.+++++..... +.+..++..+...|...|++++|...+++..+.  .+-
T Consensus       204 l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~  279 (472)
T 4g1t_A          204 LN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPN  279 (472)
T ss_dssp             HC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STT
T ss_pred             cC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCC
Confidence            53 2344555555555444    467889999999887654 345778889999999999999999999999853  333


Q ss_pred             chhHHHHHHHHHHhC-------------------ccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHH
Q 046547          241 RQGMVIKVAAALRAN-------------------REMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       241 ~~~~~~~li~~~~~~-------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  301 (343)
                      +..++..+-.+|...                   +..+.|...++...+.. +.+..++..+-..|...|++++|.+.|+
T Consensus       280 ~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  358 (472)
T 4g1t_A          280 NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQ  358 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHH
Confidence            455666665555322                   34567788888777643 2345678888899999999999999999


Q ss_pred             HHhHCCCCCCHH--HHHHHHH-HHhccCChhHHHHHHHHHHhhc
Q 046547          302 GMTERGFIPYIK--VRQKVVE-GLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       302 ~m~~~g~~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +..+....|...  .+..+.. .+...|++++|++.|++..++.
T Consensus       359 kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~  402 (472)
T 4g1t_A          359 KEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN  402 (472)
T ss_dssp             HHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC
T ss_pred             HHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            998876444321  2222222 3457899999999999887654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.31  E-value=5.2e-10  Score=97.99  Aligned_cols=312  Identities=9%  Similarity=-0.021  Sum_probs=201.1

Q ss_pred             CCCCHHHHHHHHHHH--hCccCcchHHHHHHHchh--cCCCCChH--HHhhhhhh-----cccchH---------HHHHH
Q 046547           27 SMSSLRTLEETVRAA--VDAKDYQQIPELLGSFEE--ACQNPNPF--SFLSNFPQ-----NHRIKV---------IDEML   86 (343)
Q Consensus        27 ~~~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~--~~~~p~~~--~~~~~~~~-----~~~~~~---------~~~~~   86 (343)
                      .+|+..+-+.+-..+  .+.+++++|.+++++...  .....+..  .|-.++.-     .+....         +.+.+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            345555555555555  678999999999998764  22223333  22111110     011111         11333


Q ss_pred             HHhcCCCCCCCChhh--HHHHHHHHhhcCCChHHHHHHHHHHHhcCC-Ccc----HHHHHHHHHHHHhccCchhHHHHHH
Q 046547           87 ESFIPLRPRSRPKIA--YDYLLSYTLQSLHPLPLALAILQRTLRSGC-VPV----PQIRLLLSSAWLERRCQSQSVADIL  159 (343)
Q Consensus        87 ~~~~~~~~~~p~~~~--~~~li~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~~~~~~~a~~~~  159 (343)
                      +..........+...  |.......+...|++++|+..|++..+... .++    ..++..+-..+...+ ++++|...+
T Consensus        86 ~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~-~~~~A~~~~  164 (378)
T 3q15_A           86 ETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMK-QTHVSMYHI  164 (378)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT-CHHHHHHHH
T ss_pred             HHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcC-CcHHHHHHH
Confidence            333221110001111  222222344567999999999999875321 122    234555555666655 799999988


Q ss_pred             HHHHhc----C-Ccc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHH
Q 046547          160 LEMKSI----G-YHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEM  228 (343)
Q Consensus       160 ~~m~~~----g-~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~  228 (343)
                      ++..+.    + ..+ ...+++.+-..|...|++++|.+.|++..+.    +..+ ...++..+-..|...|++++|++.
T Consensus       165 ~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~  244 (378)
T 3q15_A          165 LQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEH  244 (378)
T ss_dssp             HHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            877542    1 121 2457888889999999999999999887652    2111 245788889999999999999999


Q ss_pred             HHHHHh---cCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC----CCchhhHHHHHHHHHhccc---HhHHHH
Q 046547          229 MKEMVL---NMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGC----PIGFQGYEVVVEGCLECRE---YILAGK  298 (343)
Q Consensus       229 ~~~m~~---~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~----~p~~~~~~~li~~~~~~g~---~~~a~~  298 (343)
                      +++...   +.+.+....++..+...+.+.|++++|...+++..+..-    +.....+..+-..|...|+   +.+|+.
T Consensus       245 ~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~  324 (378)
T 3q15_A          245 FQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLS  324 (378)
T ss_dssp             HHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            998875   012233467788899999999999999999999876421    1123345566666777888   777887


Q ss_pred             HHHHHhHCCCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          299 TVMGMTERGFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       299 ~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ++++   .+..| ....+..+...|...|++++|.+.|++..+.+
T Consensus       325 ~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          325 YFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            7776   33333 34567788899999999999999999987653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.30  E-value=1.1e-10  Score=102.60  Aligned_cols=266  Identities=14%  Similarity=-0.009  Sum_probs=181.0

Q ss_pred             HHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCC-hhhHHHHHHHHh
Q 046547           32 RTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRP-KIAYDYLLSYTL  110 (343)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-~~~~~~li~~~~  110 (343)
                      ..+..+...+...|+++.|.+.+++....                         .+..    +..|. ...+..+-. ++
T Consensus        48 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~-------------------------~~~~----~~~~~~~~~~~~la~-~~   97 (406)
T 3sf4_A           48 AIYSQLGNAYFYLHDYAKALEYHHHDLTL-------------------------ARTI----GDQLGEAKASGNLGN-TL   97 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------------HHHT----TCHHHHHHHHHHHHH-HH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH-------------------------HHhc----cccHHHHHHHHHHHH-HH
Confidence            56777777888888888888888765421                         1110    11111 234444443 66


Q ss_pred             hcCCChHHHHHHHHHHHhcC----CCc-cHHHHHHHHHHHHhccCc--------------------hhHHHHHHHHHHhc
Q 046547          111 QSLHPLPLALAILQRTLRSG----CVP-VPQIRLLLSSAWLERRCQ--------------------SQSVADILLEMKSI  165 (343)
Q Consensus       111 ~~~~~~~~a~~~~~~m~~~~----~~p-~~~~~~~li~~~~~~~~~--------------------~~~a~~~~~~m~~~  165 (343)
                      ...|++++|...+++..+..    -.+ ...++..+-..+...+ +                    +++|.+.+++..+.
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  176 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKG-KSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSL  176 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH-HTCC-------CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcC-CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            77899999999999876421    111 1235555555655554 6                    78888888776432


Q ss_pred             ----CCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHhcCCChhHHHHHHHHHHhc
Q 046547          166 ----GYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC-VPD----LESYSIVIGAMSTARKTNDAVEMMKEMVLN  235 (343)
Q Consensus       166 ----g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  235 (343)
                          +-.| ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++|...+++....
T Consensus       177 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  256 (406)
T 3sf4_A          177 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  256 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                2122 245688888899999999999999998764310 111    347888899999999999999999987642


Q ss_pred             ---CCCCCc-hhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          236 ---MGLMPR-QGMVIKVAAALRANREMWKAVEMIEFLERK----GCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       236 ---~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                         .+..+. ..++..+...|...|++++|...+++..+.    +-.+. ..++..+...|...|++++|.+.+++..+.
T Consensus       257 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          257 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               111111 567888999999999999999999987653    11111 446778888899999999999999987543


Q ss_pred             ----CCCC-CHHHHHHHHHHHhccCCh
Q 046547          307 ----GFIP-YIKVRQKVVEGLAGVGEW  328 (343)
Q Consensus       307 ----g~~p-~~~~~~~li~~~~~~g~~  328 (343)
                          |..+ ...++..+...+...|+.
T Consensus       337 ~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          337 SREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence                2222 355677788888888766

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.29  E-value=4.7e-09  Score=102.53  Aligned_cols=254  Identities=11%  Similarity=0.068  Sum_probs=156.6

Q ss_pred             HHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCCh
Q 046547           37 TVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPL  116 (343)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~  116 (343)
                      +...+...|++++|..+|++...     ........+...++   ++++.+...+.    -+..+|..+-. ++.+.|++
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie~i~n---ldrAiE~Aerv----n~p~vWsqLAK-Aql~~G~~ 1121 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIEHIGN---LDRAYEFAERC----NEPAVWSQLAK-AQLQKGMV 1121 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHHHHhh---HHHHHHHHHhc----CCHHHHHHHHH-HHHhCCCH
Confidence            45566777888888888887521     11111122223333   34444433222    13456666665 66677888


Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKG  196 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  196 (343)
                      ++|.+.|.+.      -|...|.-++.++.+.| ++++|.++|....+..  +++...+.+..+|++.+++++.....  
T Consensus      1122 kEAIdsYiKA------dD~say~eVa~~~~~lG-kyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI-- 1190 (1630)
T 1xi4_A         1122 KEAIDSYIKA------DDPSSYMEVVQAANTSG-NWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI-- 1190 (1630)
T ss_pred             HHHHHHHHhc------CChHHHHHHHHHHHHcC-CHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH--
Confidence            8888888553      35556666777665554 6888888887666543  33333445777778877777533332  


Q ss_pred             hhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc
Q 046547          197 MSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG  276 (343)
Q Consensus       197 m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  276 (343)
                        +   .++...|..+-..|...|++++|..+|...          ..|..+..+|++.|++++|.+.+++.      .+
T Consensus      1191 --~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----------~ny~rLA~tLvkLge~q~AIEaarKA------~n 1249 (1630)
T 1xi4_A         1191 --N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDGARKA------NS 1249 (1630)
T ss_pred             --h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh----------hHHHHHHHHHHHhCCHHHHHHHHHHh------CC
Confidence              2   245556666777777888888888888774          25777888888888888888777755      23


Q ss_pred             hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          277 FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       277 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ..+|.-+-.+|...|++..|....-.     +..+...+..++..|.+.|.+++|+++++.-..
T Consensus      1250 ~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~ 1308 (1630)
T 1xi4_A         1250 TRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALG 1308 (1630)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            45666666666666666666654432     333455566677777777777777777765543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.29  E-value=2.6e-09  Score=90.74  Aligned_cols=183  Identities=9%  Similarity=-0.043  Sum_probs=127.0

Q ss_pred             HHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC-Hh-hHHHHHHHHHccCcHHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD-CG-TCNYLVSSLCAIDQLVEAAKV  193 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~-~~~~ll~~~~~~~~~~~a~~~  193 (343)
                      ++|..+|++..+. +.|+ ...|..+...+...+ ++++|.++|++..+.  .|+ .. .|..+...+.+.|++++|.++
T Consensus        81 ~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~-~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~  156 (308)
T 2ond_A           81 DEAANIYERAIST-LLKKNMLLYFAYADYEESRM-KYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHH
Confidence            7888888888763 2343 345666666655554 688888888888763  443 33 677788888888888888888


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHH-hcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          194 LKGMSSAECVPDLESYSIVIGAM-STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       194 ~~~m~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      |++..+... ++...|....... ...|+.++|..+|+...+.  .+-+...|..++..+.+.|+.++|..+|++..+..
T Consensus       157 ~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~  233 (308)
T 2ond_A          157 FKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcc
Confidence            888876532 2334443332222 2368888888888887752  23356777888888888888888888888888753


Q ss_pred             -CCCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          273 -CPIG--FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       273 -~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                       +.|+  ...|..++..+.+.|+.+.|..+++++.+.
T Consensus       234 ~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             4553  446777777788888888888888887764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.27  E-value=1.3e-08  Score=93.21  Aligned_cols=219  Identities=9%  Similarity=-0.050  Sum_probs=165.4

Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHh------ccCchh-------HHHHHHHHHHhcCCccCHhhHHHHHHHHHc
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLE------RRCQSQ-------SVADILLEMKSIGYHPDCGTCNYLVSSLCA  183 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~------~~~~~~-------~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~  183 (343)
                      +.+..+|++..... +-+...|......+.+      ..++++       +|..++++..+.-.+-+...|..+...+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            37788999988743 2345666666655543      134565       899999998763233457888999999999


Q ss_pred             cCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH-HHhCccHHH
Q 046547          184 IDQLVEAAKVLKGMSSAECVPD--LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA-LRANREMWK  260 (343)
Q Consensus       184 ~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~~~  260 (343)
                      .|++++|..+|++..+.  .|+  ...|......+.+.|+.++|..+|+...+.  .+.+...|...... +...|+.++
T Consensus       334 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             cCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhH
Confidence            99999999999999985  454  257888888888999999999999999853  22233333322222 336899999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC-CCCC--HHHHHHHHHHHhccCChhHHHHHHHH
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG-FIPY--IKVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      |..+|+...+.. +-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+.+++.+
T Consensus       410 A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          410 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999988742 2246788889999999999999999999998874 2332  45788888888889999999999998


Q ss_pred             HHhh
Q 046547          338 FAEL  341 (343)
Q Consensus       338 m~~~  341 (343)
                      +.+.
T Consensus       489 ~~~~  492 (530)
T 2ooe_A          489 RFTA  492 (530)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.25  E-value=6.9e-09  Score=101.40  Aligned_cols=261  Identities=14%  Similarity=0.054  Sum_probs=168.0

Q ss_pred             CCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCCh-------HHHhhhhhhcccchHHHHHHHHhcCCCCCCCCh
Q 046547           27 SMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNP-------FSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPK   99 (343)
Q Consensus        27 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~   99 (343)
                      ...+.+......++|...|.+.+|++++++..-.   |+.       ...+....-..+.+...+.+..+...     + 
T Consensus       981 e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~---~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~-----d- 1051 (1630)
T 1xi4_A          981 ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLD---NSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNY-----D- 1051 (1630)
T ss_pred             cccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcC---CCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhc-----c-
Confidence            3446667788999999999999999999988732   331       11111111111334444554443211     1 


Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                        ..- +...+...|.+++|..+|++..     -.....+.++.    .-+++++|.++.++.      -+..+|..+-.
T Consensus      1052 --~~e-IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie----~i~nldrAiE~Aerv------n~p~vWsqLAK 1113 (1630)
T 1xi4_A         1052 --APD-IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE----HIGNLDRAYEFAERC------NEPAVWSQLAK 1113 (1630)
T ss_pred             --HHH-HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH----HHhhHHHHHHHHHhc------CCHHHHHHHHH
Confidence              111 2234556788999999988852     11222233332    233578888877754      23567778888


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      ++.+.|++++|.+.|.+.      -|...|.-++.++.+.|++++|.+++....+. .  ++....+.++.+|++.++++
T Consensus      1114 Aql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~-~--~e~~Idt~LafaYAKl~rle 1184 (1630)
T 1xi4_A         1114 AQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK-A--RESYVETELIFALAKTNRLA 1184 (1630)
T ss_pred             HHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-c--ccccccHHHHHHHHhhcCHH
Confidence            888888888888888653      35667777888888888888888888876642 2  44444445788888887777


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          260 KAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      +...+.    +   .|+...|..+-..|...|++++|..+|...         ..|..+...|++.|++++|.+.+++-.
T Consensus      1185 ele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~ 1248 (1630)
T 1xi4_A         1185 ELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN 1248 (1630)
T ss_pred             HHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC
Confidence            544332    1   244555666677777788888888877763         367777777777777777777776543

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.23  E-value=2.8e-09  Score=93.12  Aligned_cols=239  Identities=9%  Similarity=-0.007  Sum_probs=174.5

Q ss_pred             hhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCC-hHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhc
Q 046547           71 SNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHP-LPLALAILQRTLRSGCVP-VPQIRLLLSSAWLER  148 (343)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~-~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~  148 (343)
                      .++...++.+.+.+.++....+.|.  +...|+.+-. ++...|+ +++|+..|++..+..  | +...|..+-..+...
T Consensus       105 ~~~~~~g~~~~Al~~~~~al~l~P~--~~~a~~~~g~-~l~~~g~d~~eAl~~~~~al~l~--P~~~~a~~~~g~~~~~~  179 (382)
T 2h6f_A          105 AVLQRDERSERAFKLTRDAIELNAA--NYTVWHFRRV-LLKSLQKDLHEEMNYITAIIEEQ--PKNYQVWHHRRVLVEWL  179 (382)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHCTT--CHHHHHHHHH-HHHHTTCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCChHHHHHHHHHHHHhCcc--CHHHHHHHHH-HHHHcccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHc
Confidence            3444556666666666666655553  3456665554 6667786 999999999998854  4 455666666666665


Q ss_pred             cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc-CCChhHH--
Q 046547          149 RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST-ARKTNDA--  225 (343)
Q Consensus       149 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~~~~a--  225 (343)
                      + ++++|+..|++..+.. +-+...|..+..++.+.|++++|+..|+++.+... -+...|+.+..++.. .|..++|  
T Consensus       180 g-~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA~~  256 (382)
T 2h6f_A          180 R-DPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVL  256 (382)
T ss_dssp             T-CCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             c-CHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHHHH
Confidence            4 6999999999998853 34678899999999999999999999999988643 367888999999998 6666888  


Q ss_pred             ---HHHHHHHHhcCCCCCchhHHHHHHHHHHhCc--cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc---------
Q 046547          226 ---VEMMKEMVLNMGLMPRQGMVIKVAAALRANR--EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR---------  291 (343)
Q Consensus       226 ---~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---------  291 (343)
                         +..|+.....  -+-+...|+.+...+.+.|  +.++|.+.+.++ + .-..+...+..+...|.+.|         
T Consensus       257 ~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          257 EREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence               4788887752  2335677888888888887  689999999887 3 22335567888888888874         


Q ss_pred             cHhHHHHHHHHH-hHCCCCC-CHHHHHHHHHHHh
Q 046547          292 EYILAGKTVMGM-TERGFIP-YIKVRQKVVEGLA  323 (343)
Q Consensus       292 ~~~~a~~~~~~m-~~~g~~p-~~~~~~~li~~~~  323 (343)
                      ..++|.++++++ .+.  .| ....|..+...+.
T Consensus       333 ~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          333 ILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence            358999999998 544  34 3445555555444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.23  E-value=1.9e-10  Score=101.58  Aligned_cols=230  Identities=11%  Similarity=-0.003  Sum_probs=173.0

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccH-----HHHHHHHHHHHhccCchhHHHHHHHHHHhc----C-CccCHhhHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVP-----QIRLLLSSAWLERRCQSQSVADILLEMKSI----G-YHPDCGTCNYLV  178 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g-~~~~~~~~~~ll  178 (343)
                      .+...|++++|...|++..+.+  |+.     ..+..+-..+...+ ++++|...+++..+.    + .......+..+.
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  133 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLG-DYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLG  133 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHccCchHHHHHHHHHH
Confidence            5667799999999999998864  432     35666666666665 799999999887643    2 123456788888


Q ss_pred             HHHHccCcHHHHHHHHHHhhhC----C-CCCCHhhHHHHHHHHhcCCC-----------------hhHHHHHHHHHHhc-
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSA----E-CVPDLESYSIVIGAMSTARK-----------------TNDAVEMMKEMVLN-  235 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~m~~~-  235 (343)
                      ..|...|++++|...+++..+.    + ......++..+...|...|+                 +++|++.+++...- 
T Consensus       134 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  213 (411)
T 4a1s_A          134 NTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLM  213 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987653    1 11234578888899999999                 99999998886531 


Q ss_pred             --CCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC-CCc----hhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          236 --MGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKGC-PIG----FQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       236 --~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                        .+-.| ...++..+...+...|++++|...+++..+..- .++    ..++..+...|...|++++|.+.+++..+..
T Consensus       214 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  293 (411)
T 4a1s_A          214 RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALA  293 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence              11112 335788889999999999999999998775311 011    2377788889999999999999999876542


Q ss_pred             C----C-CCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          308 F----I-PYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       308 ~----~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      -    . ....++..+...|...|++++|.+.+++..++
T Consensus       294 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          294 VELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1    1 12567888999999999999999999987764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.23  E-value=3.8e-09  Score=82.28  Aligned_cols=166  Identities=14%  Similarity=0.008  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 046547          135 PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIG  214 (343)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  214 (343)
                      +..|..+-..+...| ++++|.+.|++..+.. +-+..++..+...|.+.|++++|...+........ -+...+..+..
T Consensus         5 ~~iy~~lG~~~~~~g-~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKG-DFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             HHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            344555555554443 4666666666665532 22345556666666666666666666666554322 23445555556


Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHh
Q 046547          215 AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYI  294 (343)
Q Consensus       215 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  294 (343)
                      .+...++++.|...+.+...  -.+.+...+..+-..+.+.|++++|.+.|++..+.. +.+..+|..+-..|.+.|+++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIA--LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            66666666666666666653  223345556666666666666666666666666532 123445666666666667777


Q ss_pred             HHHHHHHHHhHC
Q 046547          295 LAGKTVMGMTER  306 (343)
Q Consensus       295 ~a~~~~~~m~~~  306 (343)
                      +|.+.|++..+.
T Consensus       159 ~A~~~~~~al~~  170 (184)
T 3vtx_A          159 EAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC
Confidence            777666666543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.23  E-value=1.2e-09  Score=88.43  Aligned_cols=197  Identities=10%  Similarity=-0.046  Sum_probs=142.1

Q ss_pred             ccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 046547          133 PVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIV  212 (343)
Q Consensus       133 p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  212 (343)
                      .|+..+...-..+...+ ++++|...|++..+...+++...+..+..++...|++++|.+.|++..+... -+..+|..+
T Consensus         5 ~~~~~~~~~g~~~~~~~-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAK-NYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcc-CHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHH
Confidence            34556666666666665 6999999999988875446777777788889999999999999999887542 256778888


Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCch-------hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc---hhhHHH
Q 046547          213 IGAMSTARKTNDAVEMMKEMVLNMGLMPRQ-------GMVIKVAAALRANREMWKAVEMIEFLERKGCPIG---FQGYEV  282 (343)
Q Consensus       213 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~  282 (343)
                      ...+...|++++|+..+++..+.  .+.+.       ..|..+-..+...|++++|.+.|++..+  ..|+   ...+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~  158 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD--VTSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SSCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh--cCCCcccHHHHHH
Confidence            99999999999999999998853  22233       4577777888889999999999998887  4565   345666


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          283 VVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      +-..|...|+     .+++++...+ ..+...|....  ....+.+++|...+++..++.|
T Consensus       159 l~~~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          159 LGVLFYNNGA-----DVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHH-----HHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCC
Confidence            6666655443     3445554443 22344454443  3445778999999999888764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.21  E-value=1.5e-09  Score=98.09  Aligned_cols=186  Identities=9%  Similarity=-0.030  Sum_probs=156.3

Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcH-HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQL-VEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ++++...+++.... .+.+...+..+-..+...|++ ++|.+.|++..+.. +-+...|..+..+|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            56667777765543 234678888899999999999 99999999998754 2347889999999999999999999999


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhC---------ccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc--------ccH
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRAN---------REMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC--------REY  293 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~  293 (343)
                      ...+   ..|+...+..+...+...         |++++|.+.+++..+.. +-+...|..+...|...        |++
T Consensus       162 ~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          162 GALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            9985   347778899999999999         99999999999998853 22466888888899988        999


Q ss_pred             hHHHHHHHHHhHCCCC--CCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          294 ILAGKTVMGMTERGFI--PYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       294 ~~a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ++|.+.|++..+..-.  -+...|..+...|...|++++|.+.|++..++.+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  289 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP  289 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999876411  3788999999999999999999999999887653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.21  E-value=3.6e-10  Score=94.09  Aligned_cols=224  Identities=10%  Similarity=-0.029  Sum_probs=145.0

Q ss_pred             chHHHHHHHHhcCCCC-CCCC-hhhHHHHHHHHhhcCCChHHHHHHHHHHHhc------CCCc-cHHHHHHHHHHHHhcc
Q 046547           79 IKVIDEMLESFIPLRP-RSRP-KIAYDYLLSYTLQSLHPLPLALAILQRTLRS------GCVP-VPQIRLLLSSAWLERR  149 (343)
Q Consensus        79 ~~~~~~~~~~~~~~~~-~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~~  149 (343)
                      ...++++++.+.+..+ ..|+ ...+..+-. ++...|++++|+..+++..+.      +-.| ...++..+-..+...+
T Consensus        21 ~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   99 (283)
T 3edt_B           21 VPLCKQALEDLEKTSGHDHPDVATMLNILAL-VYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG   99 (283)
T ss_dssp             HHHHHHHHHHHHHHHCSSSHHHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH-HHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhc
Confidence            3445555555443322 2233 455666664 777889999999999998754      2233 3445666666766665


Q ss_pred             CchhHHHHHHHHHHhcC-------CccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhC------CCCC-CHhhHHHHHHH
Q 046547          150 CQSQSVADILLEMKSIG-------YHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA------ECVP-DLESYSIVIGA  215 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g-------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~ll~~  215 (343)
                       ++++|.+.+++..+..       .+....++..+...|...|++++|...|++..+.      +..| ...++..+...
T Consensus       100 -~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~  178 (283)
T 3edt_B          100 -KYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASC  178 (283)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             -cHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence             7999999999887641       1234677888999999999999999999998764      2123 35678899999


Q ss_pred             HhcCCChhHHHHHHHHHHhc------CCCCCch-hHHHHHHHHHHhCcc------HHHHHHHHHHHHHcCCCCchhhHHH
Q 046547          216 MSTARKTNDAVEMMKEMVLN------MGLMPRQ-GMVIKVAAALRANRE------MWKAVEMIEFLERKGCPIGFQGYEV  282 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~------~~~~p~~-~~~~~li~~~~~~~~------~~~a~~~~~~m~~~g~~p~~~~~~~  282 (343)
                      +...|++++|...+++....      ....+.. ..+..+...+...+.      +..+...++.... .......++..
T Consensus       179 ~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  257 (283)
T 3edt_B          179 YLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTVNTTLRS  257 (283)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            99999999999999998852      0122322 233333333333222      2222222221111 11122446778


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhH
Q 046547          283 VVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      +...|...|++++|..+|++..+
T Consensus       258 la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          258 LGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            88999999999999999998764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.19  E-value=2.3e-09  Score=83.08  Aligned_cols=150  Identities=9%  Similarity=-0.024  Sum_probs=73.7

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|.+.++
T Consensus        23 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~  100 (186)
T 3as5_A           23 RYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLI  100 (186)
T ss_dssp             CHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            3445555554443321 2233444444555555555555555555544432 1234444555555555555555555555


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      +...  ..+.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+
T Consensus       101 ~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          101 KVAE--ANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHh--cCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5543  122344445555555555555555555555555432 12334455555555555566666555555443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.18  E-value=1.7e-09  Score=102.09  Aligned_cols=165  Identities=9%  Similarity=-0.025  Sum_probs=111.8

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ..+|+.+-..|.+.|++++|.+.|++..+.. +-+..+|+.+-.+|.+.|++++|+..|++..+-  -+-+...|..+-.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            4567777777777777777777777766542 123566777777777777777777777776642  1224556777777


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChh
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWK  329 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  329 (343)
                      +|...|++++|.+.|++..+.  .| +...|..+-..|...|++++|++.|++..+.. +-+...+..+...|...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            777777777777777777663  34 34567777777777777777777777776643 124666777777777777777


Q ss_pred             HHHHHHHHHHhh
Q 046547          330 LATVVRQRFAEL  341 (343)
Q Consensus       330 ~a~~~~~~m~~~  341 (343)
                      +|.+.+++..++
T Consensus       163 ~A~~~~~kal~l  174 (723)
T 4gyw_A          163 DYDERMKKLVSI  174 (723)
T ss_dssp             THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            777777776654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.17  E-value=6.5e-10  Score=94.77  Aligned_cols=230  Identities=10%  Similarity=0.007  Sum_probs=170.4

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCcc-----HHHHHHHHHHHHhccCchhHHHHHHHHHHhc----CCcc-CHhhHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPV-----PQIRLLLSSAWLERRCQSQSVADILLEMKSI----GYHP-DCGTCNYLV  178 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~ll  178 (343)
                      .+...|++++|...|+++.+..  |+     ...+..+...+...+ ++++|.+.+++..+.    +-.| ...++..+.
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           14 RLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLH-DYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            4557799999999999998764  33     245666666666665 699999998876532    2222 356788888


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHhcCCC--------------------hhHHHHHHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAEC-VPD----LESYSIVIGAMSTARK--------------------TNDAVEMMKEMV  233 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~m~  233 (343)
                      ..+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|...+++..
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            899999999999999988764211 112    3478888899999999                    999999888765


Q ss_pred             hc---CCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          234 LN---MGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPI-GFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       234 ~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      .-   .+..| ...++..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.+++..
T Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  250 (338)
T 3ro2_A          171 SLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTL  250 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            31   11112 2456888888999999999999999987642    1111 12367788888999999999999999876


Q ss_pred             HC----CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          305 ER----GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       305 ~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +.    +-.+ ...++..+...|...|++++|.+.+++..++
T Consensus       251 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          251 LLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            43    1111 2567888899999999999999999987654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.14  E-value=3.1e-09  Score=77.64  Aligned_cols=128  Identities=12%  Similarity=-0.006  Sum_probs=58.9

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 046547          210 SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE  289 (343)
Q Consensus       210 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  289 (343)
                      ..+...+...|++++|..+++++...  .+.+...+..+...+...|++++|..+++++.+.+ +.+...+..+...+..
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            33444444444444444444444431  11233344444444444455555555555444322 1123344444444555


Q ss_pred             cccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          290 CREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       290 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .|++++|.+.++++.+.. +.+..++..+...+.+.|++++|.+.++++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            555555555555544432 123444455555555555555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.10  E-value=4.2e-08  Score=85.46  Aligned_cols=189  Identities=10%  Similarity=-0.017  Sum_probs=87.6

Q ss_pred             chhHHHHHHHHHHhc----CCc--c-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCC--C--CHhhHHHHHHHHhcC
Q 046547          151 QSQSVADILLEMKSI----GYH--P-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECV--P--DLESYSIVIGAMSTA  219 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~----g~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~--~~~~~~~ll~~~~~~  219 (343)
                      ++++|...+++..+.    +..  | ....+..+-..+...|++++|...+++.......  +  ...++..+...+...
T Consensus       108 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  187 (373)
T 1hz4_A          108 FLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLAR  187 (373)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHc
Confidence            456666555554321    111  1 1233444555555666666666666655432111  1  123455555555666


Q ss_pred             CChhHHHHHHHHHHhcCCCCCc-hhHHH-----HHHHHHHhCccHHHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHhc
Q 046547          220 RKTNDAVEMMKEMVLNMGLMPR-QGMVI-----KVAAALRANREMWKAVEMIEFLERKGCPIG---FQGYEVVVEGCLEC  290 (343)
Q Consensus       220 ~~~~~a~~~~~~m~~~~~~~p~-~~~~~-----~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~  290 (343)
                      |++++|...+++...- .-.++ ...+.     ..+..+...|++++|...+++.......++   ...+..+...+...
T Consensus       188 g~~~~A~~~l~~a~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~  266 (373)
T 1hz4_A          188 GDLDNARSQLNRLENL-LGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILL  266 (373)
T ss_dssp             TCHHHHHHHHHHHHHH-HTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHH-HhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHc
Confidence            6666666666655431 11111 01111     122334556666666666655543221110   11234444555666


Q ss_pred             ccHhHHHHHHHHHhHC----CCCCCH-HHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          291 REYILAGKTVMGMTER----GFIPYI-KVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       291 g~~~~a~~~~~~m~~~----g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      |++++|...+++..+.    |..++. ..+..+..++...|+.++|...+++..+
T Consensus       267 g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          267 GEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6666666666554332    211122 2444455555666666666666655443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.08  E-value=5.4e-08  Score=78.51  Aligned_cols=195  Identities=8%  Similarity=-0.098  Sum_probs=141.9

Q ss_pred             ChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHH
Q 046547           98 PKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYL  177 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  177 (343)
                      |...+...-. .+...|++++|+..|++..+..-.++...+..+-..+...+ ++++|.+.+++..+.. +.+...|..+
T Consensus         6 ~~~~~~~~g~-~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~-~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            6 DPNQLKNEGN-DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIK-KYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhh-cHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            4444544443 56677999999999999998764367767666666666665 7999999999998753 2356788889


Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCH-------hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc---hhHHHH
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSAECVPDL-------ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR---QGMVIK  247 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~~~~~  247 (343)
                      ...|...|++++|...|++..+... .+.       .+|..+-..+...|++++|+..|++..+   ..|+   ...+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~  158 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHH
Confidence            9999999999999999999987532 233       4578888889999999999999999984   3454   566777


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +-.+|...|     ..+++++...+. .+...|....  ....+.+++|...+++..+..
T Consensus       159 l~~~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          159 LGVLFYNNG-----ADVLRKATPLAS-SNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHH-----HHHHHHHGGGTT-TCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH-----HHHHHHHHhccc-CCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            777775544     444555555432 2344444433  345677899999999988754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.08  E-value=9.6e-09  Score=90.00  Aligned_cols=164  Identities=8%  Similarity=-0.138  Sum_probs=98.5

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-----chhHHHH
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-----RQGMVIK  247 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-----~~~~~~~  247 (343)
                      ...+...|++++|...|++..+.    +-.+ ...+|..+...|...|++++|+..+++...-..-.+     ...+++.
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            34455667777777777776543    1111 234566677777777777777777776553101111     1345666


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CC-CCCHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEFLERK----GCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTER----GF-IPYIKVRQK  317 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~~  317 (343)
                      +-..|...|++++|...+++..+.    +-.+ ...++..+-..|...|++++|.+.+++..+.    +. +....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            667777777777777777766532    1111 1125666666677777777777777776552    22 223556667


Q ss_pred             HHHHHhccCChhHHHHHHHHHHhh
Q 046547          318 VVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       318 li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +...|.+.|++++|.+.+++..++
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~  293 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAY  293 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            777777777777777777766543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.07  E-value=2.3e-08  Score=83.56  Aligned_cols=144  Identities=12%  Similarity=0.074  Sum_probs=67.3

Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC-ccCHhhHHHHHHHHHccCcHHHHHHHHHHh
Q 046547          119 ALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGY-HPDCGTCNYLVSSLCAIDQLVEAAKVLKGM  197 (343)
Q Consensus       119 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  197 (343)
                      |+..|++..+.+ .++..++..+-.++...| ++++|++++.+....|. .-+...+..++..+.+.|+++.|.+.+++|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g-~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILG-DLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC-CHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            445555544433 333333333333444433 45566666555544332 123444555555566666666666666665


Q ss_pred             hhCCCCC-----CHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          198 SSAECVP-----DLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       198 ~~~~~~~-----~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      .+.  .|     +..+...+..+++.    .++.++|..+|+++..+   .|+..+-..++.++.+.|++++|.+.++.+
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            543  23     23333334433221    22555666666665432   233222233333555556666666665544


Q ss_pred             H
Q 046547          269 E  269 (343)
Q Consensus       269 ~  269 (343)
                      .
T Consensus       238 ~  238 (310)
T 3mv2_B          238 L  238 (310)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.07  E-value=6.8e-09  Score=87.48  Aligned_cols=133  Identities=10%  Similarity=-0.058  Sum_probs=64.7

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHhcC-CChhHHHHHHHHHHhc---CCCCCc-
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSA----ECVP-DLESYSIVIGAMSTA-RKTNDAVEMMKEMVLN---MGLMPR-  241 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~---~~~~p~-  241 (343)
                      .+|+.+...|.+.|++++|...|++..+.    |-.. -..+++.+...|... |++++|+..|++..+-   .+-.+. 
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            44555555555555555555555554331    1100 023455555555554 6666666666555431   000000 


Q ss_pred             hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch------hhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          242 QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF------QGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       242 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      ..+++.+...+.+.|++++|...|++..+.......      ..|..+...+...|++++|...|++..
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  226 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ  226 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            234555555666666666666666665543211111      033444445555666666666666554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.04  E-value=1.7e-08  Score=90.53  Aligned_cols=283  Identities=9%  Similarity=-0.035  Sum_probs=159.3

Q ss_pred             HHHHHhCccCcchHHHHHHHchhcCCCCChHH-HhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCC-
Q 046547           37 TVRAAVDAKDYQQIPELLGSFEEACQNPNPFS-FLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLH-  114 (343)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~-  114 (343)
                      +...+.+.|++++|.+.|++..+.|. |+... +-.++...|.....+++++.+.+.-..  +...+..+-. .+...+ 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~-~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~--~~~A~~~Lg~-~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY-SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT--SPRAQARLGR-LLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC-CTGGGTCC------------------------------CHHHHHH-HHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC--CHHHHHHHHH-HHHhCCC
Confidence            55666778999999999998887763 33332 233334455553334444443322221  3333333332 122333 


Q ss_pred             ----ChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCc--hhHHHHHHHHHHhcC----------------------
Q 046547          115 ----PLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQ--SQSVADILLEMKSIG----------------------  166 (343)
Q Consensus       115 ----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~--~~~a~~~~~~m~~~g----------------------  166 (343)
                          ++++|...|++..+.|...   .+..|-..|...++.  ..++.+.+......|                      
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGH
T ss_pred             CCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCH
Confidence                6788999999888766322   333333333332210  011222222222111                      


Q ss_pred             ----------CccCHhhHHHHHHHHHccC---cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC----CChhHHHHHH
Q 046547          167 ----------YHPDCGTCNYLVSSLCAID---QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA----RKTNDAVEMM  229 (343)
Q Consensus       167 ----------~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~  229 (343)
                                ...++..+..|-..|...|   +.++|.+.|++..+.|. ++...+..+-..|...    ++.++|+.+|
T Consensus       162 ~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          162 DDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence                      1334446777777787888   88888888888888774 4455445566666544    6888888888


Q ss_pred             HHHHhcCCCCCchhHHHHHHHH-H--HhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc-----cHhHHHHHHH
Q 046547          230 KEMVLNMGLMPRQGMVIKVAAA-L--RANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR-----EYILAGKTVM  301 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~~~li~~-~--~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~  301 (343)
                      +... . |   +...+..|-.. +  ...++.++|.+.|++..+.|   +...+..|-..|. .|     ++++|.++|+
T Consensus       241 ~~aa-~-g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~  311 (452)
T 3e4b_A          241 EKIA-P-G---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFE  311 (452)
T ss_dssp             HHHG-G-G---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHH
T ss_pred             HHHc-C-C---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHH
Confidence            8876 2 3   44455555555 3  45778899999998888776   4455666666665 45     8888999888


Q ss_pred             HHhHCCCCCCHHHHHHHHHHHhc----cCChhHHHHHHHHHHh
Q 046547          302 GMTERGFIPYIKVRQKVVEGLAG----VGEWKLATVVRQRFAE  340 (343)
Q Consensus       302 ~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~  340 (343)
                      +.. .|   +...+..|-..|..    ..+.++|.+.|++..+
T Consensus       312 ~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~  350 (452)
T 3e4b_A          312 KAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR  350 (452)
T ss_dssp             TTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT
T ss_pred             HHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh
Confidence            877 43   55666667666666    3488889988887654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.03  E-value=9.6e-08  Score=83.16  Aligned_cols=232  Identities=10%  Similarity=-0.041  Sum_probs=160.3

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHH----HHHHHHHHHHhccCchhHHHHHHHHHHhc----CCcc-CHhhHHHHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQ----IRLLLSSAWLERRCQSQSVADILLEMKSI----GYHP-DCGTCNYLVS  179 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~li~~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~ll~  179 (343)
                      .+...|++++|...+++.....-..+..    .++.+-..+...| ++++|...+++....    |... ...++..+..
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKG-ELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            4446799999999999987654222222    3344444555554 799999998887642    2111 1233566777


Q ss_pred             HHHccCcHHHHHHHHHHhhhC----CCC--C-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCC--chhHHHHHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSA----ECV--P-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMG-LMP--RQGMVIKVA  249 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~p--~~~~~~~li  249 (343)
                      .+...|++++|...+++....    +..  | ...++..+...+...|++++|...+++...... ..+  ...++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            888999999999999887642    222  2 245667788889999999999999998775211 111  235677888


Q ss_pred             HHHHhCccHHHHHHHHHHHHHcCCCCch-hhHH-----HHHHHHHhcccHhHHHHHHHHHhHCCCCC---CHHHHHHHHH
Q 046547          250 AALRANREMWKAVEMIEFLERKGCPIGF-QGYE-----VVVEGCLECREYILAGKTVMGMTERGFIP---YIKVRQKVVE  320 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~  320 (343)
                      ..+...|++++|...+++.....-.++. ..+.     .....+...|++++|...+.+.......+   ....+..+..
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~  261 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  261 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH
Confidence            8899999999999999988753211111 1121     23344779999999999999887543221   1335677888


Q ss_pred             HHhccCChhHHHHHHHHHHhh
Q 046547          321 GLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       321 ~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .+...|++++|...+++..+.
T Consensus       262 ~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          262 AQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999887543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.01  E-value=2.2e-08  Score=72.95  Aligned_cols=128  Identities=11%  Similarity=-0.003  Sum_probs=71.8

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  253 (343)
                      |..+...+...|++++|.++|+++.+.+ +.+..++..+...+...|++++|..+++++...  .+.+...+..+...+.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHH
Confidence            4445555555666666666666655432 123445555555566666666666666665532  2234445555666666


Q ss_pred             hCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          254 ANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ..|++++|.+.++++.+.. +.+..++..+...+...|++++|.+.++++.+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666655532 12344555566666666666666666666554

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.98  E-value=3e-08  Score=93.62  Aligned_cols=147  Identities=9%  Similarity=-0.011  Sum_probs=68.9

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ++++|.+.|++..+.. +-+..+|+.+-..|.+.|++++|.+.|++..+.. +-+..+|..+-.+|...|++++|++.|+
T Consensus        24 ~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~~~g~~~~A~~~~~  101 (723)
T 4gyw_A           24 NIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQDVQGALQCYT  101 (723)
T ss_dssp             CHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3444554444444321 1123444444455555555555555555544432 1123445555555555555555555555


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      +..+-  -+-+...|+.+-.+|...|++++|.+.|++..+.  .|+ ...|..+...|...|++++|.+.+++.
T Consensus       102 kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~ka  171 (723)
T 4gyw_A          102 RAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKL  171 (723)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHH
Confidence            54431  1123344555555555555555555555555442  232 334445555555555555555555443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.97  E-value=1.2e-07  Score=78.32  Aligned_cols=60  Identities=10%  Similarity=-0.016  Sum_probs=35.4

Q ss_pred             HHHHHHHhcccHhHHHHHHHHHhHCCCC-C-CHHHHHHHHHHHhcc----------CChhHHHHHHHHHHhh
Q 046547          282 VVVEGCLECREYILAGKTVMGMTERGFI-P-YIKVRQKVVEGLAGV----------GEWKLATVVRQRFAEL  341 (343)
Q Consensus       282 ~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  341 (343)
                      .+...|.+.|++++|...|+++.+..-. | ....+..+..+|...          |++++|...|+++.+.
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            3445566677777777777776654211 1 234555566666654          6667777777766654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.92  E-value=2e-08  Score=84.55  Aligned_cols=204  Identities=11%  Similarity=0.046  Sum_probs=146.3

Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhc--cCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHH
Q 046547          118 LALAILQRTLRSGCVPVPQIRLLLSSAWLER--RCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLK  195 (343)
Q Consensus       118 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  195 (343)
                      +|.+++.+..+. .+++...| .+    ...  .+++++|...+++.               ...|...|++++|...|+
T Consensus         3 ~a~~~~~~a~k~-~~~~~~~~-~~----~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   61 (292)
T 1qqe_A            3 DPVELLKRAEKK-GVPSSGFM-KL----FSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFL   61 (292)
T ss_dssp             CHHHHHHHHHHH-SSCCCTHH-HH----HSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHH
T ss_pred             cHHHHHHHHHHH-hCcCCCcc-hh----cCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            466777776654 23322222 22    222  22478888888776               345778899999999998


Q ss_pred             HhhhC----CCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC-chhHHHHHHHHHHhC-ccHHHHHHHH
Q 046547          196 GMSSA----ECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP-RQGMVIKVAAALRAN-REMWKAVEMI  265 (343)
Q Consensus       196 ~m~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~-~~~~~a~~~~  265 (343)
                      +....    |-.++ ..+|+.+..+|...|++++|+..+++...-   .|-.+ -..+++.+-..|... |++++|...|
T Consensus        62 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~  141 (292)
T 1qqe_A           62 KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCY  141 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHH
Confidence            77543    32222 568999999999999999999999987641   12111 145788899999996 9999999999


Q ss_pred             HHHHHc----CCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCH------HHHHHHHHHHhccCChhHHHHH
Q 046547          266 EFLERK----GCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYI------KVRQKVVEGLAGVGEWKLATVV  334 (343)
Q Consensus       266 ~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~~~~~li~~~~~~g~~~~a~~~  334 (343)
                      ++..+.    +-.+. ..++..+...|.+.|++++|...|++..+.......      ..|..+..++...|++++|...
T Consensus       142 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  221 (292)
T 1qqe_A          142 ELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAART  221 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            988753    11111 346788889999999999999999998876432221      2567788889999999999999


Q ss_pred             HHHHHhhc
Q 046547          335 RQRFAELK  342 (343)
Q Consensus       335 ~~~m~~~~  342 (343)
                      |++..++.
T Consensus       222 ~~~al~l~  229 (292)
T 1qqe_A          222 LQEGQSED  229 (292)
T ss_dssp             HHGGGCC-
T ss_pred             HHHHHhhC
Confidence            99877654

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.90  E-value=7.4e-07  Score=74.88  Aligned_cols=212  Identities=10%  Similarity=-0.057  Sum_probs=142.6

Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHh---hHHHHHHHHHccCcHHHHHHHHHH
Q 046547          120 LAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCG---TCNYLVSSLCAIDQLVEAAKVLKG  196 (343)
Q Consensus       120 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~  196 (343)
                      ...+.+.......|+..+...+...+   +-.++.   ++.    .....+..   .+...+..+...|++++|.+++++
T Consensus        31 ~~~~s~~e~g~~~~~~~~l~~i~~~l---~~~~~~---~~~----~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~  100 (293)
T 3u3w_A           31 QSEVSRIESGAVYPSMDILQGIAAKL---QIPIIH---FYE----VLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWN  100 (293)
T ss_dssp             HHHHHHHHTTSCCCCHHHHHHHHHHH---TCCTHH---HHH----TTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHh---CcCHHH---HhC----CCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            34455555444567777766665543   112221   221    11122222   233346778889999999999999


Q ss_pred             hhhCC-CCCCH----hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc----hhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          197 MSSAE-CVPDL----ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR----QGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       197 m~~~~-~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      ..+.. ..|+.    ..|..+...+...|++++|+..+++......-.++    ..+++.+...|...|++++|...+++
T Consensus       101 ~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~  180 (293)
T 3u3w_A          101 ELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQ  180 (293)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            87643 23332    23445677777888999999999998862111223    23688999999999999999999998


Q ss_pred             HHH----c-CCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCCC-HHHHHHHHHHHhccCC-hhHHHHHH
Q 046547          268 LER----K-GCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER----GFIPY-IKVRQKVVEGLAGVGE-WKLATVVR  335 (343)
Q Consensus       268 m~~----~-g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~-~~~a~~~~  335 (343)
                      ..+    . +..+. ..+|..+...|.+.|++++|.+.+++..+.    +..+. ..+|..+..+|.+.|+ +++|.+.+
T Consensus       181 al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~  260 (293)
T 3u3w_A          181 ILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAY  260 (293)
T ss_dssp             HHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence            874    1 22222 236778888899999999999999887643    32232 6788889999999995 69999999


Q ss_pred             HHHHhh
Q 046547          336 QRFAEL  341 (343)
Q Consensus       336 ~~m~~~  341 (343)
                      ++..++
T Consensus       261 ~~Al~i  266 (293)
T 3u3w_A          261 KKASFF  266 (293)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.89  E-value=2.6e-07  Score=74.44  Aligned_cols=177  Identities=12%  Similarity=-0.044  Sum_probs=100.0

Q ss_pred             HHHHhccCchhHHHHHHHHHHhcCCc-c-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHH
Q 046547          143 SAWLERRCQSQSVADILLEMKSIGYH-P-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDL----ESYSIVIGAM  216 (343)
Q Consensus       143 ~~~~~~~~~~~~a~~~~~~m~~~g~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~  216 (343)
                      ..+...+ ++++|...|+++.+.... | ....+..+..+|.+.|++++|...|++..+..  |+.    ..+-.+..++
T Consensus        12 ~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~~~~g~~~   88 (225)
T 2yhc_A           12 QQKLQDG-NWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVMYMRGLTN   88 (225)
T ss_dssp             HHHHHHT-CHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHH
T ss_pred             HHHHHcC-CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHHHHHHHHH
Confidence            3445554 577888888877664211 1 12456666777777888888888887776643  222    1233333333


Q ss_pred             hc------------------CCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          217 ST------------------ARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       217 ~~------------------~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      ..                  .|+.++|+..|+++.+  ..+-+...+.+.....          .+...+.        .
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~--~~P~~~~a~~a~~~l~----------~~~~~~~--------~  148 (225)
T 2yhc_A           89 MALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR--GYPNSQYTTDATKRLV----------FLKDRLA--------K  148 (225)
T ss_dssp             HHHHC--------------CCHHHHHHHHHHHHHHT--TCTTCTTHHHHHHHHH----------HHHHHHH--------H
T ss_pred             HhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH--HCcCChhHHHHHHHHH----------HHHHHHH--------H
Confidence            32                  3455666666666553  2222222222111100          0000000        0


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHCCCC-C-CHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTERGFI-P-YIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      ..-.+...|.+.|++++|...|+++.+..-. | ....+..+..+|.+.|++++|.+.++.+....
T Consensus       149 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          149 YEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            1123455678889999999999988775311 1 13567788889999999999999988876543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.89  E-value=2.7e-07  Score=80.63  Aligned_cols=226  Identities=6%  Similarity=-0.094  Sum_probs=156.1

Q ss_pred             hhcccchHHHHHHHHhcCCCCCCCC----hhhHHHHHHHHhhcCCChHHHHHHHHHHHhc----C-CCc-cHHHHHHHHH
Q 046547           74 PQNHRIKVIDEMLESFIPLRPRSRP----KIAYDYLLSYTLQSLHPLPLALAILQRTLRS----G-CVP-VPQIRLLLSS  143 (343)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~----~-~~p-~~~~~~~li~  143 (343)
                      ...|+...+.+.++....+.+..++    ..++..+- .++...|+++.|...+++..+.    + ..+ ...+++.+-.
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg-~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVA-EAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHH-HHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            4566666666666665544332233    23454444 3677889999999999987642    1 111 2344555655


Q ss_pred             HHHhccCchhHHHHHHHHHHhc----CCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhh-----CCCCCCHhhHHHHH
Q 046547          144 AWLERRCQSQSVADILLEMKSI----GYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSS-----AECVPDLESYSIVI  213 (343)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~~~~~ll  213 (343)
                      .+...+ ++++|.+.+++..+.    +-.+ ...+++.+-..|...|++++|...|++..+     .. +....++..+.
T Consensus       191 ~y~~~~-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la  268 (378)
T 3q15_A          191 NYDDFK-HYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLS  268 (378)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHH
T ss_pred             HHHHhC-CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHH
Confidence            666654 799999998887643    2111 245788888999999999999999998876     33 23367888899


Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCC---CCCchhHHHHHHHHHHhCcc---HHHHHHHHHHHHHcCCCCc-hhhHHHHHHH
Q 046547          214 GAMSTARKTNDAVEMMKEMVLNMG---LMPRQGMVIKVAAALRANRE---MWKAVEMIEFLERKGCPIG-FQGYEVVVEG  286 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~~~---~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~-~~~~~~li~~  286 (343)
                      ..+.+.|++++|...+++...-..   -+.....+..+-..+...++   +.+|...++.   .+..|+ ...+..+...
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHH
Confidence            999999999999999999885322   22223445666666667777   7777777765   333333 3356678888


Q ss_pred             HHhcccHhHHHHHHHHHhH
Q 046547          287 CLECREYILAGKTVMGMTE  305 (343)
Q Consensus       287 ~~~~g~~~~a~~~~~~m~~  305 (343)
                      |...|++++|.+.|++..+
T Consensus       346 y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999998754

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.86  E-value=3.2e-07  Score=76.68  Aligned_cols=181  Identities=9%  Similarity=-0.020  Sum_probs=134.2

Q ss_pred             HHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCC-CCCHhhHHHHHHHHhcCCChhHHHHHHHHHH
Q 046547          155 VADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC-VPDLESYSIVIGAMSTARKTNDAVEMMKEMV  233 (343)
Q Consensus       155 a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  233 (343)
                      +...|++....+ .++..++..+..++...|++++|++++.+-...|. .-+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            677888877665 45556666788889999999999999998866653 2356778889999999999999999999997


Q ss_pred             hcCCCCC-----chhHHHHHHHHHH--hCc--cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          234 LNMGLMP-----RQGMVIKVAAALR--ANR--EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       234 ~~~~~~p-----~~~~~~~li~~~~--~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      +.   .|     +..+...|..+++  ..|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       164 ~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            53   56     3566677776633  333  899999999998764  3553344455558999999999999998765


Q ss_pred             HC-----C----CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          305 ER-----G----FIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       305 ~~-----g----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      +.     .    -+-|..+...+|......|+  +|.++++++.+..|
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence            43     1    13367777566655555676  88899999887653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.84  E-value=4.3e-07  Score=74.87  Aligned_cols=171  Identities=8%  Similarity=-0.031  Sum_probs=90.8

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCcc----HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCC-c-cCHhhHHHHHHHHHc
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPV----PQIRLLLSSAWLERRCQSQSVADILLEMKSIGY-H-PDCGTCNYLVSSLCA  183 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~-~-~~~~~~~~ll~~~~~  183 (343)
                      +...|++++|...|+++.+..  |+    ...+..+-..+...+ ++++|...|+...+... . .....+..+..++..
T Consensus        25 ~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~-~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~  101 (261)
T 3qky_A           25 FYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNK-EYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYK  101 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhC-cHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHH
Confidence            445577777777777777643  33    334444444555554 57777777777766421 1 113345555566666


Q ss_pred             --------cCcHHHHHHHHHHhhhCCCCCCH-hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          184 --------IDQLVEAAKVLKGMSSAECVPDL-ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       184 --------~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                              .|++++|...|++..+..  |+. .....+              ..+......     -...+..+...|.+
T Consensus       102 ~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~--------------~~~~~~~~~-----~~~~~~~la~~~~~  160 (261)
T 3qky_A          102 LSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDAT--------------QKIRELRAK-----LARKQYEAARLYER  160 (261)
T ss_dssp             HCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHH--------------HHHHHHHHH-----HHHHHHHHHHHHHH
T ss_pred             hcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHH--------------HHHHHHHHH-----HHHHHHHHHHHHHH
Confidence                    777777777777766542  322 111111              001111100     00112444556666


Q ss_pred             CccHHHHHHHHHHHHHcCCCCc----hhhHHHHHHHHHhc----------ccHhHHHHHHHHHhHC
Q 046547          255 NREMWKAVEMIEFLERKGCPIG----FQGYEVVVEGCLEC----------REYILAGKTVMGMTER  306 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  306 (343)
                      .|++++|...|+...+..  |+    ...+..+..+|...          |++++|...|+++.+.
T Consensus       161 ~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          161 RELYEAAAVTYEAVFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            667777777666666532  22    23444455555544          6667777777766654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.84  E-value=1.3e-06  Score=73.29  Aligned_cols=169  Identities=10%  Similarity=-0.076  Sum_probs=106.9

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC-----HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC--CCCc--h
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD-----LESYSIVIGAMSTARKTNDAVEMMKEMVLNMG--LMPR--Q  242 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~p~--~  242 (343)
                      ..+...+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|+..+++......  ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3444556677778888888888877665432211     12233455566777788888888877763111  1111  3


Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHH---c-CCCC--chhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCC-C
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLER---K-GCPI--GFQGYEVVVEGCLECREYILAGKTVMGMTER----GFIP-Y  311 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~-g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~  311 (343)
                      .+|+.+-..|...|++++|...+++..+   . +-.+  ...+|..+...|...|++++|...+++..+.    +..+ -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            4677777888888888888888887662   1 1111  1146677777788888888888888776543    1111 1


Q ss_pred             HHHHHHHHHHHhccCChhHH-HHHHHHHHh
Q 046547          312 IKVRQKVVEGLAGVGEWKLA-TVVRQRFAE  340 (343)
Q Consensus       312 ~~~~~~li~~~~~~g~~~~a-~~~~~~m~~  340 (343)
                      ..+|..+...|.+.|++++| ...+++..+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            56677778888888888888 666666543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.83  E-value=1.5e-06  Score=77.78  Aligned_cols=16  Identities=13%  Similarity=0.019  Sum_probs=10.4

Q ss_pred             CcchHHHHHHHchhcC
Q 046547           46 DYQQIPELLGSFEEAC   61 (343)
Q Consensus        46 ~~~~a~~~~~~m~~~~   61 (343)
                      ++++|.+.|++..+.|
T Consensus        89 ~~~~A~~~~~~Aa~~g  104 (452)
T 3e4b_A           89 EHHEAESLLKKAFANG  104 (452)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            5567777777666554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.82  E-value=9.5e-07  Score=70.48  Aligned_cols=177  Identities=10%  Similarity=0.003  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC----cHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID----QLVEAAK  192 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~----~~~~a~~  192 (343)
                      .+|++.|++..+.|   +...+..+-..|... +++++|.++|++..+.|   ++..+..|-..|.. +    ++++|.+
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~-~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~   74 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSS-GDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQ   74 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHH
Confidence            35667777776654   444555554455454 46777888777777655   44556666666666 5    7777887


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCC-CchhHHHHHHHHHHh----CccHHHHHH
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLM-PRQGMVIKVAAALRA----NREMWKAVE  263 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~~~~----~~~~~~a~~  263 (343)
                      .|++..+.|   +...+..|-..|..    .+++++|+.+|++..+. +.. .+...+..|-..|..    .++.++|..
T Consensus        75 ~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           75 LAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            777776654   45556666666665    67777777777777642 321 125566666667766    667777777


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHhc-c-----cHhHHHHHHHHHhHCC
Q 046547          264 MIEFLERKGCPIGFQGYEVVVEGCLEC-R-----EYILAGKTVMGMTERG  307 (343)
Q Consensus       264 ~~~~m~~~g~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~g  307 (343)
                      .|++..+.+  .+...+..|-..|... |     +.++|..+|++..+.|
T Consensus       151 ~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          151 YFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            777776651  2333455555555432 2     6777777777766665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.80  E-value=2.5e-07  Score=73.65  Aligned_cols=165  Identities=11%  Similarity=-0.004  Sum_probs=110.4

Q ss_pred             HHHhccCchhHHHHHHHHHHhcCCcc-CHhhHHH----------------HHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 046547          144 AWLERRCQSQSVADILLEMKSIGYHP-DCGTCNY----------------LVSSLCAIDQLVEAAKVLKGMSSAECVPDL  206 (343)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  206 (343)
                      .+...| ++++|...|++..+.  .| +...|..                +...|.+.|++++|...|++..+.. +-+.
T Consensus        13 ~~~~~g-~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~   88 (208)
T 3urz_A           13 AAIEAG-QNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNV   88 (208)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHCC-CHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCH
Confidence            445554 699999999998875  34 3455666                7788888899999999998887754 2356


Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc--HHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE--MWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      ..+..+...+...|++++|+..|++..+.  -+-+..++..+-.+|...|+  .+.+...++....  ..|....+...-
T Consensus        89 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g  164 (208)
T 3urz_A           89 DCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDG  164 (208)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHH
Confidence            77888888888999999999999988852  23356677777777765543  3444555554432  222222333334


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHH
Q 046547          285 EGCLECREYILAGKTVMGMTERGFIPYIKVRQKV  318 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  318 (343)
                      .++...|++++|...|++..+.  .|+......+
T Consensus       165 ~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          165 LSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            4566688889999999888754  5765544433

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.80  E-value=2.4e-06  Score=68.15  Aligned_cols=175  Identities=10%  Similarity=-0.017  Sum_probs=112.8

Q ss_pred             HHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC----ChhHHHHHH
Q 046547          154 SVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR----KTNDAVEMM  229 (343)
Q Consensus       154 ~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~  229 (343)
                      +|.+.|++..+.|   ++..+..+-..|...+++++|.+.|++..+.|   +...+..|-..|.. +    +.++|.++|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4666777776654   55666667777777777778877777777664   44555666666666 5    777777777


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHh----CccHHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHh----cccHhHHHHHH
Q 046547          230 KEMVLNMGLMPRQGMVIKVAAALRA----NREMWKAVEMIEFLERKGCP-IGFQGYEVVVEGCLE----CREYILAGKTV  300 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~~~~a~~~~  300 (343)
                      +...+. |   +...+..|-..|..    .+++++|.+.|++..+.|.. .+...+..|-..|..    .+++++|..+|
T Consensus        77 ~~A~~~-g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           77 EKAVEA-G---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHT-T---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHC-C---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            777652 3   44556666666665    66777787777777765431 014556666666666    66777777777


Q ss_pred             HHHhHCCCCCCHHHHHHHHHHHhcc-C-----ChhHHHHHHHHHHhh
Q 046547          301 MGMTERGFIPYIKVRQKVVEGLAGV-G-----EWKLATVVRQRFAEL  341 (343)
Q Consensus       301 ~~m~~~g~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~  341 (343)
                      ++..+.+  .+...+..|-..|... |     +.++|.+.|++..+.
T Consensus       153 ~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          153 KGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            7776652  2333455555555543 2     777777777766543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.78  E-value=2.3e-07  Score=85.67  Aligned_cols=153  Identities=9%  Similarity=-0.038  Sum_probs=113.0

Q ss_pred             CchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          150 CQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                      +++++|.+.+++..+.. +.+...+..+...+...|++++|.+.|++..+.. +.+..++..+..+|...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            36788999998887642 3346788888899999999999999999988754 235778888999999999999999999


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---ccHhHHHHHHHHHhHC
Q 046547          230 KEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC---REYILAGKTVMGMTER  306 (343)
Q Consensus       230 ~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~  306 (343)
                      ++..+.  -+.+...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+...+...   |++++|.+.+++..+.
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            998863  23456788999999999999999999999988753 22456788888889999   9999999999998876


Q ss_pred             C
Q 046547          307 G  307 (343)
Q Consensus       307 g  307 (343)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            5

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.75  E-value=5.1e-07  Score=76.52  Aligned_cols=184  Identities=12%  Similarity=0.011  Sum_probs=113.8

Q ss_pred             HHHhccCchhHHHHHHHHHHhc----CCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHH
Q 046547          144 AWLERRCQSQSVADILLEMKSI----GYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSA----ECVP-DLESYSIVI  213 (343)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll  213 (343)
                      .|... +++++|...+.+..+.    |-.+ -..+|+.+...|.+.|++++|...|++..+.    |-.. -..+++.+-
T Consensus        45 ~~~~~-g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           45 AFKNA-KQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33344 3577777777766432    1111 1346777777888888888888888765432    2111 135677777


Q ss_pred             HHHhcCCChhHHHHHHHHHHhc---CCCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCCch-hhHHHHH
Q 046547          214 GAMSTARKTNDAVEMMKEMVLN---MGLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPIGF-QGYEVVV  284 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~-~~~~~li  284 (343)
                      ..|.. |++++|+..|++...-   .+-.+ ...+++.+...|.+.|++++|...|++..+.    +..+.. ..+..+.
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            77877 8888888888876631   11111 1356777888888888888888888877652    211111 2455556


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCCCCCC------HHHHHHHHHHHhccCChhHHHH
Q 046547          285 EGCLECREYILAGKTVMGMTERGFIPY------IKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g~~p~------~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      ..+...|++++|...|++.. .  .|+      ......++.++ ..|+.+.+.+
T Consensus       203 ~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            66777788888888888877 3  231      22344555555 5666665555

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.71  E-value=5e-07  Score=76.57  Aligned_cols=200  Identities=9%  Similarity=-0.013  Sum_probs=143.4

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      .|++++|.+++++..+..- ..          +...++++++|...|...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4678888888888765321 11          112134677777777664               456778899999999


Q ss_pred             HHHHhhhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC-chhHHHHHHHHHHhCccHHHHHH
Q 046547          193 VLKGMSSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP-RQGMVIKVAAALRANREMWKAVE  263 (343)
Q Consensus       193 ~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~  263 (343)
                      .|.+..+.    |-.+ -..+|+.+...|...|++++|+..|++...-   .|-.+ -..+++.+-..|.. |++++|..
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            98877542    2111 1457888999999999999999999986631   12211 24577888888888 99999999


Q ss_pred             HHHHHHHc----CCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCCC-HHHHHHHHHHHhccCChhHHHH
Q 046547          264 MIEFLERK----GCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTER----GFIPY-IKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       264 ~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      .|++..+.    |-.+ ...++..+-..|.+.|++++|+..|++..+.    +..+. ...+..+...+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99987652    1111 1357788888999999999999999998753    22222 2366677778888899999999


Q ss_pred             HHHHHH
Q 046547          334 VRQRFA  339 (343)
Q Consensus       334 ~~~~m~  339 (343)
                      .|++..
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999876

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.70  E-value=1.4e-05  Score=67.18  Aligned_cols=226  Identities=8%  Similarity=-0.045  Sum_probs=159.2

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhcc-CchhHHHHHHHHHHhcCCccCHhhHHHHHHHH----Hc
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERR-CQSQSVADILLEMKSIGYHPDCGTCNYLVSSL----CA  183 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~-~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~----~~  183 (343)
                      ..+....++|++.++++...  .|+..| |+.--..+...+ ..++++++.++.+..... -+..+|+.--..+    ..
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~  119 (306)
T 3dra_A           43 MKAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMEL  119 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHh
Confidence            33434456899999999884  476655 444433433333 378999999999987532 2334454333333    33


Q ss_pred             c---CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChh--HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc-
Q 046547          184 I---DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTN--DAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE-  257 (343)
Q Consensus       184 ~---~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-  257 (343)
                      .   +++++++++++++.+.. +-+-.+|+----.+...|.++  ++++.++.+.+.  -+-|...|+---..+.+.+. 
T Consensus       120 l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~  196 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHL  196 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGG
T ss_pred             ccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcccc
Confidence            4   78999999999998754 336667776666777778888  999999999963  33466677766666667676 


Q ss_pred             -----HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH-HHHHHHHHhHCC--CCCCHHHHHHHHHHHhccCChh
Q 046547          258 -----MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL-AGKTVMGMTERG--FIPYIKVRQKVVEGLAGVGEWK  329 (343)
Q Consensus       258 -----~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~  329 (343)
                           ++++++.++.+..... -|...|+-+-..+.+.|+..+ +..+..++.+.+  -..+...+..+...|.+.|+.+
T Consensus       197 ~~~~~~~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          197 ATDNTIDEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             chhhhHHHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                 8999999999887543 266678777777777777444 556776665543  1346788899999999999999


Q ss_pred             HHHHHHHHHHh-hc
Q 046547          330 LATVVRQRFAE-LK  342 (343)
Q Consensus       330 ~a~~~~~~m~~-~~  342 (343)
                      +|.++++.+.+ ++
T Consensus       276 ~A~~~~~~l~~~~D  289 (306)
T 3dra_A          276 ESRTVYDLLKSKYN  289 (306)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccC
Confidence            99999999885 54

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.70  E-value=2.5e-06  Score=68.67  Aligned_cols=174  Identities=11%  Similarity=-0.031  Sum_probs=111.5

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCC-cc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH--hhHHHHHHHHHc--
Q 046547          110 LQSLHPLPLALAILQRTLRSGCV-PV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC--GTCNYLVSSLCA--  183 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~-p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~ll~~~~~--  183 (343)
                      +...|++++|...|+++.+.... |. ...+..+..++.+.+ ++++|...|++..+.......  ..+..+..++..  
T Consensus        14 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~-~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~   92 (225)
T 2yhc_A           14 KLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNA-DLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALD   92 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhh
Confidence            45669999999999999875421 11 245556666777765 699999999999875322111  134444444443  


Q ss_pred             ----------------cCcHHHHHHHHHHhhhCCCCCCHh-hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHH
Q 046547          184 ----------------IDQLVEAAKVLKGMSSAECVPDLE-SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVI  246 (343)
Q Consensus       184 ----------------~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  246 (343)
                                      .|++++|...|+++.+..  |+.. .+.+...          ...+...+.         ...-
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~----------l~~~~~~~~---------~~~~  151 (225)
T 2yhc_A           93 DSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKR----------LVFLKDRLA---------KYEY  151 (225)
T ss_dssp             C--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHH----------HHHHHHHHH---------HHHH
T ss_pred             hhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHH----------HHHHHHHHH---------HHHH
Confidence                            578999999999998753  4432 2221111          111111111         1123


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHcCCCCch----hhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          247 KVAAALRANREMWKAVEMIEFLERKGCPIGF----QGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      .+...|.+.|++++|...|+.+.+.  .|+.    ..+..+..+|.+.|+.++|.+.++.+...+
T Consensus       152 ~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          152 SVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            4556677888888888888888764  2332    356677778888888888888888877654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.68  E-value=1.9e-06  Score=68.36  Aligned_cols=122  Identities=14%  Similarity=0.113  Sum_probs=85.3

Q ss_pred             HHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC
Q 046547          141 LSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR  220 (343)
Q Consensus       141 li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  220 (343)
                      +-..+...+ ++++|.+.|++.    +.|+...+..+...|...|++++|.+.|++..+.. +.+...+..+..++...|
T Consensus        12 ~g~~~~~~~-~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           12 EGVLAADKK-DWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHTT-CHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhC-CHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcc
Confidence            333444544 577888777665    35567777777788888888888888888776643 235667777777888888


Q ss_pred             ChhHHHHHHHHHHhcCCCCCc----------------hhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          221 KTNDAVEMMKEMVLNMGLMPR----------------QGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ++++|+..|+...+.  .+.+                ...+..+..++.+.|++++|...|+...+
T Consensus        86 ~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             CHHHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            888888888877752  1222                25677777777788888888888887776

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.68  E-value=2.8e-07  Score=71.20  Aligned_cols=160  Identities=11%  Similarity=0.006  Sum_probs=92.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH-H
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA-L  252 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~  252 (343)
                      +......+...|++++|...|++..+.. +-+...+..+...+...|++++|+..++.....   .|+...+..+... +
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLEL   84 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHH
Confidence            3344455666777777777777665432 123555666666777777777777777766532   2233222221111 1


Q ss_pred             HhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHHHhccCChhH
Q 046547          253 RANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLAGVGEWKL  330 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~  330 (343)
                      ...++...|...+++..+.  .| +...+..+-..+...|++++|...|+++.+..-.+ +...+..+...+...|+.++
T Consensus        85 ~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            1112222356666666553  34 34566666777777777777777777776654222 24566677777777777777


Q ss_pred             HHHHHHHHH
Q 046547          331 ATVVRQRFA  339 (343)
Q Consensus       331 a~~~~~~m~  339 (343)
                      |...|++..
T Consensus       163 A~~~y~~al  171 (176)
T 2r5s_A          163 IASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.67  E-value=8.8e-07  Score=70.37  Aligned_cols=127  Identities=6%  Similarity=-0.132  Sum_probs=89.5

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      .+..+...+...|++++|...|++..    .|+..++..+...+...|++++|+..|++....  .+.+...|..+..++
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            34455667777888888888887663    467778888888888888888888888887752  234566777888888


Q ss_pred             HhCccHHHHHHHHHHHHHcCCC--------------C-chhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          253 RANREMWKAVEMIEFLERKGCP--------------I-GFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ...|++++|.+.|+...+..-.              | ....+..+...|.+.|++++|.+.|++..+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8888888888888887764211              1 114555666667777777777777776654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.65  E-value=8.8e-07  Score=74.27  Aligned_cols=166  Identities=11%  Similarity=-0.007  Sum_probs=106.6

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV  248 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  248 (343)
                      .+...+..+-..+...|++++|...|++..+.. +-+...+..+...+...|++++|...++.....   .|+.......
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~  190 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLV  190 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHH
Confidence            344555566666777788888888887776643 224566777777777788888888877776542   3443322222


Q ss_pred             -HHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC-CCHHHHHHHHHHHhccC
Q 046547          249 -AAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI-PYIKVRQKVVEGLAGVG  326 (343)
Q Consensus       249 -i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g  326 (343)
                       ...+...++.+.|...+++..+.. +.+...+..+-..|...|++++|...|.++....-. .+...+..+...|...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence             222455566666777777766632 224556667777777888888888888777765421 12556777777788888


Q ss_pred             ChhHHHHHHHHHH
Q 046547          327 EWKLATVVRQRFA  339 (343)
Q Consensus       327 ~~~~a~~~~~~m~  339 (343)
                      +.++|...+++-.
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            8888777776543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.64  E-value=2.5e-07  Score=87.24  Aligned_cols=126  Identities=9%  Similarity=-0.069  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      .+..+...+.+.|++++|...|++..+.. +-+...|..+-.++...|++++|+..|++..+.  -+-+...|..+-.++
T Consensus       435 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~  511 (681)
T 2pzi_A          435 LPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAATA  511 (681)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHH
Confidence            34444444444444444444444444321 112334444444444444444444444444421  111233344444444


Q ss_pred             HhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHh
Q 046547          253 RANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMT  304 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  304 (343)
                      .+.|++++ .+.|++..+..  | +...|..+-..|.+.|++++|.+.|++..
T Consensus       512 ~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  561 (681)
T 2pzi_A          512 ELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAVRTLDEVP  561 (681)
T ss_dssp             HHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence            44444444 44444444321  2 22334444444444444444444444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.64  E-value=3.2e-06  Score=67.16  Aligned_cols=163  Identities=8%  Similarity=-0.061  Sum_probs=107.9

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHH-HHHH----------------HHHHHHhccCchhHHHHHHHHHHhcCCccCHh
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQ-IRLL----------------LSSAWLERRCQSQSVADILLEMKSIGYHPDCG  172 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~----------------li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  172 (343)
                      +...|++++|+..|++..+..  |+.. .|..                +-..+... +++++|...|++..+.. +-+..
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~-g~~~~A~~~~~~al~~~-p~~~~   89 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKN-RNYDKAYLFYKELLQKA-PNNVD   89 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHC-CCCHH
Confidence            446689999999999988743  6543 3433                44455555 46899999998887753 33567


Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCC--hhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARK--TNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      .+..+...+...|++++|...|++..+.. +-+..++..+...|...|+  ...+...++...   ...|....+...-.
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~a~~~~g~  165 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS---SPTKMQYARYRDGL  165 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh---CCCchhHHHHHHHH
Confidence            88888888999999999999999888753 2346677777777765543  334455555443   22233333334445


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHH
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEV  282 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  282 (343)
                      ++...|++++|...|++..+  ..|+......
T Consensus       166 ~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~  195 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVIL--RFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTT--TSCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH--hCCCHHHHHH
Confidence            56667889999999998876  5677554433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.63  E-value=4.4e-07  Score=71.42  Aligned_cols=155  Identities=10%  Similarity=-0.069  Sum_probs=80.3

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhh----CCCCC-CHhhHHHHHHHHhcCCChhHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSS----AECVP-DLESYSIVIGAMSTARKTNDA  225 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~-~~~~~~~ll~~~~~~~~~~~a  225 (343)
                      ++++|.++++.+.. .......++..+-..+...|++++|...+++...    .+..| ...++..+...+...|++++|
T Consensus         7 ~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   85 (203)
T 3gw4_A            7 DYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAA   85 (203)
T ss_dssp             CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            46666664444332 1122345566666666666777776666666543    11111 234455566666666666666


Q ss_pred             HHHHHHHHhc---CCCCC--chhHHHHHHHHHHhCccHHHHHHHHHHHHHc---CCCCc--hhhHHHHHHHHHhcccHhH
Q 046547          226 VEMMKEMVLN---MGLMP--RQGMVIKVAAALRANREMWKAVEMIEFLERK---GCPIG--FQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       226 ~~~~~~m~~~---~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~--~~~~~~li~~~~~~g~~~~  295 (343)
                      ...+++...-   .+-.|  ....+..+...+...|++++|...+++..+.   .-.+.  ..++..+-..+...|++++
T Consensus        86 ~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  165 (203)
T 3gw4_A           86 RRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLE  165 (203)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHH
Confidence            6666665431   11111  1234555556666666666666666655421   00111  1223445555666666666


Q ss_pred             HHHHHHHHhHC
Q 046547          296 AGKTVMGMTER  306 (343)
Q Consensus       296 a~~~~~~m~~~  306 (343)
                      |.+.+++..+.
T Consensus       166 A~~~~~~al~~  176 (203)
T 3gw4_A          166 AQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666655443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.62  E-value=1.7e-06  Score=72.57  Aligned_cols=165  Identities=10%  Similarity=-0.000  Sum_probs=123.3

Q ss_pred             cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH-HH
Q 046547          134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYS-IV  212 (343)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~l  212 (343)
                      +...+..+-..+...| ++++|...|++..+.. +-+...+..+...+.+.|++++|...+++.....  |+..... ..
T Consensus       116 ~~~~~~~~a~~~~~~g-~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQES-NYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCC-CHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHH
Confidence            3444445555556655 6999999999987753 3356778888899999999999999999887653  4543322 22


Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHhcc
Q 046547          213 IGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCP-IGFQGYEVVVEGCLECR  291 (343)
Q Consensus       213 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g  291 (343)
                      ...+...++.++|+..+++...  --+.+...+..+...+...|++++|...+.+..+..-. .+...+..+...|...|
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~--~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVA--ENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHh--cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            2336677888889999998885  33456778899999999999999999999999875321 12567888999999999


Q ss_pred             cHhHHHHHHHHHh
Q 046547          292 EYILAGKTVMGMT  304 (343)
Q Consensus       292 ~~~~a~~~~~~m~  304 (343)
                      +.++|...+++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999988887654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.62  E-value=9.7e-05  Score=69.10  Aligned_cols=133  Identities=11%  Similarity=0.097  Sum_probs=84.7

Q ss_pred             CCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH----hhhhhhccc---chHHHHHHHHhcCCCCCCCChhh
Q 046547           29 SSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF----LSNFPQNHR---IKVIDEMLESFIPLRPRSRPKIA  101 (343)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~~~~~~~~---~~~~~~~~~~~~~~~~~~p~~~~  101 (343)
                      -+...|..++..+.+.+.++.+..+|+.+...  -|....+    +..-...+.   .+.+.++++......+..|++..
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            58889999999999999999999999998865  4554433    444445556   77888888887765544478888


Q ss_pred             HHHHHHHHhhcCCCh--------HHHHHHHHHHH-hcCC-Ccc-HHHHHHHHHHHHh--------ccCchhHHHHHHHHH
Q 046547          102 YDYLLSYTLQSLHPL--------PLALAILQRTL-RSGC-VPV-PQIRLLLSSAWLE--------RRCQSQSVADILLEM  162 (343)
Q Consensus       102 ~~~li~~~~~~~~~~--------~~a~~~~~~m~-~~~~-~p~-~~~~~~li~~~~~--------~~~~~~~a~~~~~~m  162 (343)
                      |...+. +....++.        +.+.++|+... ..|. .|+ ...|...+.....        ..++++.+..+|+..
T Consensus       142 W~~Yl~-f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          142 WLSYIT-YVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHH-HHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHH-HHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            888886 44333332        34457777755 3465 554 3566666643211        111245566666666


Q ss_pred             Hh
Q 046547          163 KS  164 (343)
Q Consensus       163 ~~  164 (343)
                      ..
T Consensus       221 L~  222 (679)
T 4e6h_A          221 LC  222 (679)
T ss_dssp             TT
T ss_pred             Hh
Confidence            53

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.62  E-value=1.2e-06  Score=80.80  Aligned_cols=153  Identities=15%  Similarity=0.013  Sum_probs=111.7

Q ss_pred             CCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      .|++++|.+.+++..+..  |+ ...+..+-..+...+ ++++|.+.+++..+.. +.+...+..+...|...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g-~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR--PQDFVAWLMLADAELGMG-DTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            378999999999987743  44 566666666766665 7999999999998753 335778889999999999999999


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC---ccHHHHHHHHHHH
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN---REMWKAVEMIEFL  268 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m  268 (343)
                      +.|++..+.. +.+...+..+..++...|++++|.+.+++..+.  .+.+...+..+..++...   |+.++|.+.+++.
T Consensus        78 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           78 VLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9999988754 235778999999999999999999999999863  234567889999999999   9999999999999


Q ss_pred             HHcC
Q 046547          269 ERKG  272 (343)
Q Consensus       269 ~~~g  272 (343)
                      .+.+
T Consensus       155 l~~~  158 (568)
T 2vsy_A          155 VAQG  158 (568)
T ss_dssp             HHHT
T ss_pred             HhcC
Confidence            8754

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.61  E-value=2.3e-06  Score=64.79  Aligned_cols=128  Identities=9%  Similarity=-0.147  Sum_probs=71.4

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      ..+..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++....  .+.+...+..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            445555566666666666666666665532 224555666666666666666666666666542  23344556666666


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCchhhHH--HHHHHHHhcccHhHHHHHHHHH
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGFQGYE--VVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      +...|++++|...+++..+..- .+...+.  .+...+...|++++|.+.+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666666655321 1222222  2222255556666666665543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.60  E-value=4.6e-07  Score=85.53  Aligned_cols=154  Identities=10%  Similarity=-0.055  Sum_probs=130.1

Q ss_pred             HccCcHHHHHHHHHHhh--------hCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 046547          182 CAIDQLVEAAKVLKGMS--------SAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  253 (343)
                      ...|++++|.+.+++..        +. .+.+...+..+..++...|++++|+..|++..+.  -+-+...|..+-.++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            77899999999999987        32 2335677888899999999999999999999852  2346678899999999


Q ss_pred             hCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          254 ANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       254 ~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      ..|++++|.+.|++..+.  .| +...|..+-..|.+.|++++ .+.|++..+.+ +-+...|..+..+|.+.|++++|.
T Consensus       479 ~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999874  34 45678888889999999999 99999988765 236778999999999999999999


Q ss_pred             HHHHHHHhhc
Q 046547          333 VVRQRFAELK  342 (343)
Q Consensus       333 ~~~~~m~~~~  342 (343)
                      +.|++..++.
T Consensus       555 ~~~~~al~l~  564 (681)
T 2pzi_A          555 RTLDEVPPTS  564 (681)
T ss_dssp             HHHHTSCTTS
T ss_pred             HHHHhhcccC
Confidence            9999877664

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.59  E-value=6.2e-06  Score=69.19  Aligned_cols=166  Identities=6%  Similarity=-0.127  Sum_probs=113.6

Q ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHhcCCccC-----HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCC---CCC--Hh
Q 046547          138 RLLLSSAWLERRCQSQSVADILLEMKSIGYHPD-----CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAEC---VPD--LE  207 (343)
Q Consensus       138 ~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~  207 (343)
                      +...+..+...+ ++++|.+.+++..+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        78 l~~~~~~~~~~~-~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           78 FKDQVIMLCKQK-RYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHhh-hHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            334455555655 58888888877665432211     12233455566778899999999888765321   122  44


Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHH---hcCCCCC--chhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCC-ch
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMV---LNMGLMP--RQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPI-GF  277 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~  277 (343)
                      +|+.+...|...|++++|+..|++..   +..+-.+  ...++..+...|.+.|++++|...+++..+.    +..+ -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            78888899999999999999999877   2212222  1257888899999999999999999987642    1111 14


Q ss_pred             hhHHHHHHHHHhcccHhHH-HHHHHHHh
Q 046547          278 QGYEVVVEGCLECREYILA-GKTVMGMT  304 (343)
Q Consensus       278 ~~~~~li~~~~~~g~~~~a-~~~~~~m~  304 (343)
                      .+|..+-..|.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5777888889999999999 77777654

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.57  E-value=9.5e-06  Score=68.05  Aligned_cols=175  Identities=10%  Similarity=-0.014  Sum_probs=120.0

Q ss_pred             HHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh---hHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          158 ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLE---SYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       158 ~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      .+..+......|+..+...+...+.-.-+     .++.    .....+..   .+...+..+...|++++|..++++...
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~~-----~~~~----~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPII-----HFYE----VLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCTH-----HHHH----TTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCHH-----HHhC----CCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            34444443456777766666665543211     1121    11122222   233447788999999999999999986


Q ss_pred             cCCCCCchh----HHHHHHHHHHhCccHHHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          235 NMGLMPRQG----MVIKVAAALRANREMWKAVEMIEFLERKGCP-IG----FQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       235 ~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      .....|+..    .+..+...+...+++++|...+++..+.... ++    ..+|+.+...|...|++++|...|++..+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            433444432    3445667777888999999999999874322 22    22688888899999999999999999874


Q ss_pred             C-----CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          306 R-----GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       306 ~-----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      .     +..| ...++..+...|.+.|++++|.+.+++..++
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~  225 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            2     2222 2447889999999999999999999987764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.57  E-value=3e-07  Score=69.05  Aligned_cols=143  Identities=10%  Similarity=-0.169  Sum_probs=107.7

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          178 VSSLCAIDQLVEAAKVLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       178 l~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      -..+...|++++|+..+......  .| +...+-.+-..|...|++++|++.|++..+.  -+-+..+|..+-.+|.+.|
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            34456678999999999887653  23 3455667888999999999999999998852  3346788999999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHH-HHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          257 EMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKT-VMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      ++++|...|++..+.  .| +...|..+...|.+.|++++|.+. +++..+.. +-+..+|......+...|+
T Consensus        80 ~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           80 NTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             chHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            999999999998874  45 456788888889999998876654 57776643 2256777766666666664

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.56  E-value=1.6e-06  Score=66.90  Aligned_cols=155  Identities=6%  Similarity=-0.035  Sum_probs=88.3

Q ss_pred             HHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH-HhcCCCh
Q 046547          144 AWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGA-MSTARKT  222 (343)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~  222 (343)
                      .+...| ++++|...+++..+.. +.+...+..+...+...|++++|...|++.....  |+...+..+... +...+..
T Consensus        15 ~~~~~g-~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~   90 (176)
T 2r5s_A           15 ELLQQG-EHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAAE   90 (176)
T ss_dssp             HHHHTT-CHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHcC-CHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhccc
Confidence            334443 4666666666654421 2234556666666666777777777666655432  233222221111 1111223


Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  301 (343)
                      .+|+..+++..+.  -+-+...+..+..++...|++++|...|++..+..-.+ +...+..+...+...|+.++|...|+
T Consensus        91 ~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           91 SPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             CHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             chHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            3466677776642  22245667777777777888888888877777643221 23466677777777788777777776


Q ss_pred             HHh
Q 046547          302 GMT  304 (343)
Q Consensus       302 ~m~  304 (343)
                      +..
T Consensus       169 ~al  171 (176)
T 2r5s_A          169 RQL  171 (176)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.55  E-value=6.2e-07  Score=67.29  Aligned_cols=136  Identities=13%  Similarity=-0.004  Sum_probs=97.7

Q ss_pred             cCchhHHHHHHHHHHhcCCcc-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHH
Q 046547          149 RCQSQSVADILLEMKSIGYHP-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVE  227 (343)
Q Consensus       149 ~~~~~~a~~~~~~m~~~g~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  227 (343)
                      .+++++|+..++.....  .| +...+-.+-..|.+.|++++|.+.|++..+.. +-+..+|..+-.+|...|++++|+.
T Consensus        10 ~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~   86 (150)
T 4ga2_A           10 KADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVE   86 (150)
T ss_dssp             HHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHH
Confidence            34678888888776553  33 34456667788889999999999999888753 2357788888899999999999999


Q ss_pred             HHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHH-HHHHHHcCCCCc-hhhHHHHHHHHHhcc
Q 046547          228 MMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEM-IEFLERKGCPIG-FQGYEVVVEGCLECR  291 (343)
Q Consensus       228 ~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~-~~~m~~~g~~p~-~~~~~~li~~~~~~g  291 (343)
                      .|+...+.  -+-+..+|..+...|.+.|+.++|.+. +++..+  +.|+ ..+|...-..+...|
T Consensus        87 ~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~--l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           87 CYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK--LFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhC
Confidence            99988852  233567788888888888888766554 577666  3453 455665555555555

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.52  E-value=6.7e-06  Score=76.90  Aligned_cols=220  Identities=10%  Similarity=-0.023  Sum_probs=155.8

Q ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHH-HHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHH
Q 046547          117 PLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVA-DILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLK  195 (343)
Q Consensus       117 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~-~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  195 (343)
                      +.+..+|++....- .-+...|-.....+... ++.++|. ++|+..... .+.+...|-..+...-+.|+++.|.++|+
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~-~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEK-NTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHH-SCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhc-CcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            44667888887642 23445555555544444 4577886 999998864 34455566677778888999999999999


Q ss_pred             HhhhCC---------CCCC------------HhhHHHHHHHHhcCCChhHHHHHHHHHHhc-CCCCCchhHHHHHHHHHH
Q 046547          196 GMSSAE---------CVPD------------LESYSIVIGAMSTARKTNDAVEMMKEMVLN-MGLMPRQGMVIKVAAALR  253 (343)
Q Consensus       196 ~m~~~~---------~~~~------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~~~  253 (343)
                      ++.+..         ..|+            ..+|...+....+.|..+.|..+|...... ....+......+.+.  .
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE--~  480 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIE--Y  480 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHH--H
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHH--H
Confidence            987631         0132            336777788888889999999999999863 122233333333333  2


Q ss_pred             hC-ccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC--CHHHHHHHHHHHhccCChhH
Q 046547          254 AN-REMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP--YIKVRQKVVEGLAGVGEWKL  330 (343)
Q Consensus       254 ~~-~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~  330 (343)
                      +. ++.+.|..+|+...+. ++-+...+...+......|+.+.|..+|+........+  ....|...+.--.+.|+.+.
T Consensus       481 ~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~  559 (679)
T 4e6h_A          481 HISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNS  559 (679)
T ss_dssp             TTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHH
T ss_pred             HhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            33 5599999999998875 33344455677787888999999999999988765322  34578888887888999999


Q ss_pred             HHHHHHHHHhhc
Q 046547          331 ATVVRQRFAELK  342 (343)
Q Consensus       331 a~~~~~~m~~~~  342 (343)
                      +.++.+++.+.-
T Consensus       560 ~~~v~~R~~~~~  571 (679)
T 4e6h_A          560 VRTLEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhC
Confidence            999999998754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=5.9e-06  Score=58.87  Aligned_cols=95  Identities=11%  Similarity=-0.002  Sum_probs=43.2

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGC  287 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  287 (343)
                      ++..+...+...|++++|.++++++...  .+.+..++..+...+.+.|++++|..+++++.+.. +.+..++..+...|
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            3444444444445555555544444431  12233344444444555555555555555444321 11233444444445


Q ss_pred             HhcccHhHHHHHHHHHhH
Q 046547          288 LECREYILAGKTVMGMTE  305 (343)
Q Consensus       288 ~~~g~~~~a~~~~~~m~~  305 (343)
                      ...|++++|...++++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.50  E-value=7.6e-06  Score=61.80  Aligned_cols=127  Identities=6%  Similarity=-0.089  Sum_probs=58.0

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCL  288 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  288 (343)
                      +..+...+...|++++|...|+.....  .+.+..++..+..++...|++++|...+++..+.. +.+...+..+...+.
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            444444455555555555555554431  12234445555555555555555555555544421 112334444444555


Q ss_pred             hcccHhHHHHHHHHHhHCCCCCCHHHHH--HHHHHHhccCChhHHHHHHHHHH
Q 046547          289 ECREYILAGKTVMGMTERGFIPYIKVRQ--KVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       289 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                      ..|++++|...|++..+..- .+...+.  .....+...|++++|.+.+++..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            55555555555555444321 1222222  22222444555555555554443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.47  E-value=6.2e-06  Score=59.32  Aligned_cols=117  Identities=12%  Similarity=-0.097  Sum_probs=60.4

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEG  286 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  286 (343)
                      ..+..+...+...|++++|...+++....  .+.+...+..+...+...|++++|.+.++...+.. +.+...+..+...
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            34444555555555555555555555531  22234455555555555666666666665555431 1123445555555


Q ss_pred             HHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          287 CLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       287 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      |...|++++|.+.|++..+.. +.+...+..+...+.+.|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            666666666666666555442 1234445555555555554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.44  E-value=5.8e-06  Score=59.86  Aligned_cols=103  Identities=15%  Similarity=0.016  Sum_probs=75.9

Q ss_pred             CCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhH
Q 046547          202 CVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGY  280 (343)
Q Consensus       202 ~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  280 (343)
                      +.|+ ...+...-..|.+.|++++|++.|++..+  --+.+..+|..+-.+|.+.|++++|...+++..+.. +.+...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVK--RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHH
Confidence            3344 35577777888888888888888888775  234466778888888888888888888888877642 1245577


Q ss_pred             HHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          281 EVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       281 ~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ..+-..|...|++++|.+.|++..+..
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            777778888888888888888877653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=7.8e-06  Score=58.21  Aligned_cols=98  Identities=10%  Similarity=-0.002  Sum_probs=69.1

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|..+++++...  .+.+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHH
Confidence            4556666677777777777777777776543 234566777777777778888888888777752  2345666777777


Q ss_pred             HHHhCccHHHHHHHHHHHHHc
Q 046547          251 ALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .+...|++++|...++++.+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHh
Confidence            777888888888888777663

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.43  E-value=1.9e-06  Score=66.29  Aligned_cols=123  Identities=7%  Similarity=-0.002  Sum_probs=92.4

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH-HHhCccH-
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA-LRANREM-  258 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~-  258 (343)
                      +...|++++|...+++..+.. +.+...+..+...|...|++++|...|++....  .+.+...+..+..+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcc
Confidence            456788888999998877653 345678888889999999999999999998752  23356677777777 7788888 


Q ss_pred             -HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          259 -WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       259 -~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                       ++|...++...+.. +.+...+..+...|...|++++|...|++..+..
T Consensus        97 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           97 TAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence             99999999888753 2245677778888999999999999999888764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.42  E-value=8.1e-06  Score=59.03  Aligned_cols=96  Identities=13%  Similarity=-0.030  Sum_probs=42.7

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEG  286 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  286 (343)
                      ..+..+...+...|++++|...|++...  -.+.+...+..+...+...|++++|...+++..+.. +.+...+..+...
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3344444444444444444444444442  112233444444444444455555555544444321 1123344444444


Q ss_pred             HHhcccHhHHHHHHHHHhH
Q 046547          287 CLECREYILAGKTVMGMTE  305 (343)
Q Consensus       287 ~~~~g~~~~a~~~~~~m~~  305 (343)
                      |.+.|++++|.+.|++..+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555554443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.39  E-value=5.4e-06  Score=62.12  Aligned_cols=102  Identities=7%  Similarity=-0.012  Sum_probs=79.0

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVV  284 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li  284 (343)
                      ...+..+-..+...|++++|+..|+....  --+-+...|..+-.+|...|++++|...|++..+.  .| +...|..+-
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg  111 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHH
Confidence            45667777888888999999999988885  23446777888888888889999999999888874  34 355777788


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCCCCCCHH
Q 046547          285 EGCLECREYILAGKTVMGMTERGFIPYIK  313 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  313 (343)
                      .+|...|++++|...|++..+..  |+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~--~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHS--NDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCHH
Confidence            88888999999999888887754  5543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.36  E-value=5.3e-06  Score=65.06  Aligned_cols=155  Identities=9%  Similarity=-0.032  Sum_probs=72.6

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHh----cCCcc-CHhhHHHHHHHHHccCcH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKS----IGYHP-DCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~----~g~~~-~~~~~~~ll~~~~~~~~~  187 (343)
                      .|++++|.+.++.... ........+..+-..+...+ ++++|...+++..+    .|..| ...++..+-..+...|++
T Consensus         5 ~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            5 AHDYALAERQAQALLA-HPATASGARFMLGYVYAFMD-RFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             --CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhC-cHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            3566666664433322 11123334444444444433 46666666555543    11111 234455555556666666


Q ss_pred             HHHHHHHHHhhhC----CCCC--CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC-chhHHHHHHHHHHhCcc
Q 046547          188 VEAAKVLKGMSSA----ECVP--DLESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP-RQGMVIKVAAALRANRE  257 (343)
Q Consensus       188 ~~a~~~~~~m~~~----~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~  257 (343)
                      ++|...+++..+.    +-.|  ...++..+...+...|++++|...+++....   .+..+ -..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            6666666554432    1111  1234555555566666666666666655421   11111 01224555555666666


Q ss_pred             HHHHHHHHHHHH
Q 046547          258 MWKAVEMIEFLE  269 (343)
Q Consensus       258 ~~~a~~~~~~m~  269 (343)
                      +++|.+.+++..
T Consensus       163 ~~~A~~~~~~al  174 (203)
T 3gw4_A          163 LLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666655543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.36  E-value=0.00048  Score=62.16  Aligned_cols=170  Identities=11%  Similarity=-0.030  Sum_probs=84.3

Q ss_pred             HHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          155 VADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       155 a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      +..+|++.... .+.+...|-..+..+.+.|++++|..+|++....   |.......   .|+...+.++.   ++.+.+
T Consensus       198 v~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~~---~~~l~~  267 (493)
T 2uy1_A          198 MHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEAV---YGDLKR  267 (493)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTHH---HHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhHH---HHHHHH
Confidence            44566665553 2344566777777777888999999999988876   43322111   12111111111   222221


Q ss_pred             cC--------CC---CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHH--HHHHHHHhcccHhHHHHHHH
Q 046547          235 NM--------GL---MPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYE--VVVEGCLECREYILAGKTVM  301 (343)
Q Consensus       235 ~~--------~~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~  301 (343)
                      ..        +.   .....+|...+....+.++.+.|..+|+.. ... ..+...|.  +.+... ..++.+.|..+|+
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~-~~~d~~~ar~ife  344 (493)
T 2uy1_A          268 KYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYY-ATGSRATPYNIFS  344 (493)
T ss_dssp             HTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHH-HHCCSHHHHHHHH
T ss_pred             HHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHH-HCCChHHHHHHHH
Confidence            10        00   011234555555555666677777777766 211 11222332  112211 1224677777777


Q ss_pred             HHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          302 GMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       302 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      ...+.. +-+...+...++-..+.|+.+.|..+|++.
T Consensus       345 ~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          345 SGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            665542 112333444455555566666666666553

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.35  E-value=3.1e-05  Score=57.93  Aligned_cols=102  Identities=8%  Similarity=-0.025  Sum_probs=80.7

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+-..+.+.|++++|...|++..... +-+...|..+-.+|...|++++|+..|++...-  -+-+...|..+-.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHHH
Confidence            4566777778888999999999999888753 235777888888899999999999999988852  2335677888888


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCch
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGF  277 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~  277 (343)
                      +|.+.|++++|...|+...+.  .|+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~  137 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDE  137 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCH
Confidence            899999999999999988874  3554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.35  E-value=1.1e-05  Score=57.97  Aligned_cols=119  Identities=11%  Similarity=-0.040  Sum_probs=81.2

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVA  249 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  249 (343)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++.....  .+.+...+..+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~   87 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHH
Confidence            34566667777777888888888888776543 235666777777788888888888888887752  233466777777


Q ss_pred             HHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc
Q 046547          250 AALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE  292 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  292 (343)
                      ..+...|++++|...+++..+.. +.+...+..+...+...|+
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            78888888888888888777642 1234455555556655554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.35  E-value=3.1e-06  Score=63.29  Aligned_cols=109  Identities=11%  Similarity=-0.046  Sum_probs=84.5

Q ss_pred             HHHHhhhCCCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          193 VLKGMSSAECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       193 ~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .|++....  .| +...+..+...+...|++++|+..|+....  --+.+...|..+-.+|...|++++|...|++....
T Consensus         9 ~~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A            9 TIAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCV--LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             SHHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHH--cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            44444432  34 355677788889999999999999999885  33446778888888999999999999999998874


Q ss_pred             CCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          272 GCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      . +.+...+..+-..|...|++++|.+.|++..+.
T Consensus        85 ~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           85 D-IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             S-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3 124567777888899999999999999988765

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.35  E-value=1.6e-05  Score=57.34  Aligned_cols=116  Identities=12%  Similarity=-0.065  Sum_probs=78.3

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVA  249 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  249 (343)
                      +...+..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++....  .+.+...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHHH
Confidence            45566777777777888888888888776643 235667777777788888888888888877752  233566777777


Q ss_pred             HHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhc
Q 046547          250 AALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLEC  290 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~  290 (343)
                      .++.+.|++++|.+.+++..+.  .|+ ...+..+...+...
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDL--DSSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CGGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHh
Confidence            7888888888888888877663  232 23444444444433

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.34  E-value=1.2e-05  Score=61.82  Aligned_cols=115  Identities=8%  Similarity=0.013  Sum_probs=56.7

Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH-HhcCCCh--hHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGA-MSTARKT--NDAVEM  228 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~--~~a~~~  228 (343)
                      +++|...++...+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  ++|...
T Consensus        26 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~  103 (177)
T 2e2e_A           26 PEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTRAM  103 (177)
T ss_dssp             -CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHH
Confidence            444444454444321 2233445555555555555555555555554432 1233444444444 4455555  566666


Q ss_pred             HHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       229 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ++.....  .+.+...+..+...+...|++++|...+++..+
T Consensus       104 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          104 IDKALAL--DSNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHh--CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            6555532  122344455555555666666666666665554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.33  E-value=1.5e-05  Score=57.64  Aligned_cols=101  Identities=14%  Similarity=-0.056  Sum_probs=75.5

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      ..+...-..|.+.|++++|.+.|++..+.. +.+..+|..+..++...|++++|+..|+...+  --+.+...|..+-.+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIR--LDSKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHH--hhhhhhHHHHHHHHH
Confidence            456667777888888888888888877653 23567778888888888888888888888775  223456678888888


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCCch
Q 046547          252 LRANREMWKAVEMIEFLERKGCPIGF  277 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p~~  277 (343)
                      +...|++++|.+.|++..+  +.|+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~--l~P~~  114 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQ--VDPSN  114 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCcCC
Confidence            8888888888888888776  34543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.31  E-value=1.8e-05  Score=67.77  Aligned_cols=130  Identities=10%  Similarity=-0.126  Sum_probs=93.8

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--------------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD--------------LESYSIVIGAMSTARKTNDAVEMMKEMVLNM  236 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  236 (343)
                      ...+..+-..|.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..++...+. 
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  225 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL-  225 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            45667777777788888888888887766432211              467788888888888888888888888752 


Q ss_pred             CCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHH-HHHHHHHh
Q 046547          237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILA-GKTVMGMT  304 (343)
Q Consensus       237 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  304 (343)
                       -+.+...|..+-.+|...|++++|...|++..+.  .| +...+..+...+.+.|+.++| ..+++.|.
T Consensus       226 -~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 -DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             2346677888888888888888888888887764  34 455677777778888888877 34555553

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.31  E-value=8.6e-06  Score=67.94  Aligned_cols=85  Identities=15%  Similarity=0.083  Sum_probs=37.4

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      +...|++++|...|++..+..  | +...|..+-..+.+.+ ++++|...+++..+.. +.+...+..+..+|...|+++
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~-~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~   89 (281)
T 2c2l_A           14 LFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQ-QPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYD   89 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            334455555555555554432  2 2333333333333332 3555555555544321 122334444444455555555


Q ss_pred             HHHHHHHHhh
Q 046547          189 EAAKVLKGMS  198 (343)
Q Consensus       189 ~a~~~~~~m~  198 (343)
                      +|...|++..
T Consensus        90 ~A~~~~~~al   99 (281)
T 2c2l_A           90 EAIANLQRAY   99 (281)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.30  E-value=1.7e-05  Score=55.29  Aligned_cols=94  Identities=7%  Similarity=-0.041  Sum_probs=42.8

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC---chhhHHHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI---GFQGYEVVV  284 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p---~~~~~~~li  284 (343)
                      .+..+...+...|++++|...++...+.  .+.+...+..+...+...|++++|.+.+++..+.  .|   +...+..+.
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~l~   83 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINV--IEDEYNKDVWAAKA   83 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--SCCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccchHHHHHHHH
Confidence            3444444455555555555555554431  1223344444444455555555555555544442  12   233444444


Q ss_pred             HHHHhc-ccHhHHHHHHHHHhH
Q 046547          285 EGCLEC-REYILAGKTVMGMTE  305 (343)
Q Consensus       285 ~~~~~~-g~~~~a~~~~~~m~~  305 (343)
                      ..+... |++++|.+.+++...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhh
Confidence            444444 455555554444443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.27  E-value=1.9e-05  Score=67.70  Aligned_cols=130  Identities=9%  Similarity=-0.078  Sum_probs=108.8

Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc----------------hhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR----------------QGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +...+..+-..+.+.|++++|+..|++.... .  |+                ...|..+..+|.+.|++++|...+++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~-~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  222 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW-L--EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKA  222 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-T--TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-h--hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3567888889999999999999999998863 2  33                478999999999999999999999999


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHH-HHHHHHHH
Q 046547          269 ERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA-TVVRQRFA  339 (343)
Q Consensus       269 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  339 (343)
                      .+.. +.+...|..+-.+|...|++++|...|++..+.. +-+...+..+...+.+.|+.++| .+.|+.|.
T Consensus       223 l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          223 LELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8853 2356788888999999999999999999998764 23677888999999999999999 45666654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.26  E-value=2.2e-05  Score=56.45  Aligned_cols=98  Identities=18%  Similarity=0.054  Sum_probs=73.8

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVE  285 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~  285 (343)
                      ...+..+-..+...|++++|+..|++..+.  .+.+...|..+..++.+.|++++|...+++..+.. +.+...|..+-.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            445667777888888888888888888752  33456778888888888888888888888887743 123556777777


Q ss_pred             HHHhcccHhHHHHHHHHHhHC
Q 046547          286 GCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .+...|++++|...|++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            888888888888888877654

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.26  E-value=2.5e-05  Score=54.85  Aligned_cols=100  Identities=13%  Similarity=-0.050  Sum_probs=79.4

Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      ....+..+...+...|++++|...|+.....  .+.+...+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a   79 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            3456777888888999999999999998853  33467778888888889999999999999887743 22466777888


Q ss_pred             HHHHhcccHhHHHHHHHHHhHCC
Q 046547          285 EGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ..+...|++++|.+.+++..+.+
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHHcC
Confidence            88899999999999998887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.26  E-value=4.3e-05  Score=63.03  Aligned_cols=205  Identities=9%  Similarity=-0.085  Sum_probs=129.0

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHH-------HHHHhccCchhHHHHHHHHHHhcCCccCH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLS-------SAWLERRCQSQSVADILLEMKSIGYHPDC  171 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li-------~~~~~~~~~~~~a~~~~~~m~~~g~~~~~  171 (343)
                      ..|..-+.  + ..++...|.+.|.+..+..  |+ ...|+-++       ..+....+ ..+++..+..  ..++.|+.
T Consensus         9 ~~~~~~~~--~-~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r-~~~a~~~~~~--~l~l~p~~   80 (282)
T 4f3v_A            9 SLFESAVS--M-LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWY-SRRNFGQLSG--SVQISMST   80 (282)
T ss_dssp             HHHHHHHH--H-TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHH-TGGGTTHHHH--TTTCCGGG
T ss_pred             HHHHHHhc--c-cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHH-HHHHHHHHHH--HhcCChhh
Confidence            34555553  3 4689999999999998854  43 34455443       12222111 1222222222  22333321


Q ss_pred             ----------------------hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          172 ----------------------GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       172 ----------------------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                                            ..+-.+...+...|++++|.++|+.+...+  |+....-.+-..+.+.+++++|+..|
T Consensus        81 l~a~~~~~g~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l  158 (282)
T 4f3v_A           81 LNARIAIGGLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQV  158 (282)
T ss_dssp             GCCEEECCTTTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhhhccCCcccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHH
Confidence                                  122335566788899999999999887654  44335555666888999999999999


Q ss_pred             HHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          230 KEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG--FQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       230 ~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      +..... . .|.  ...+..+-.++...|++++|+..|++.......|.  .......-.++.+.|+.++|...|+++..
T Consensus       159 ~~a~~~-~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a  236 (282)
T 4f3v_A          159 KSAGKW-P-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT  236 (282)
T ss_dssp             TTGGGC-S-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhcc-C-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            855431 1 221  23677778888999999999999998875433254  22344455668889999999999999987


Q ss_pred             CCCCCCHHHHHHH
Q 046547          306 RGFIPYIKVRQKV  318 (343)
Q Consensus       306 ~g~~p~~~~~~~l  318 (343)
                      ..  |+...+..|
T Consensus       237 ~~--P~~~~~~aL  247 (282)
T 4f3v_A          237 TH--PEPKVAAAL  247 (282)
T ss_dssp             HS--CCHHHHHHH
T ss_pred             cC--CcHHHHHHH
Confidence            64  554444443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.25  E-value=2.3e-05  Score=57.10  Aligned_cols=100  Identities=10%  Similarity=-0.093  Sum_probs=81.2

Q ss_pred             CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHH
Q 046547          204 PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVV  283 (343)
Q Consensus       204 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  283 (343)
                      .+...+..+...+...|++++|+..|+.....  .+.+...|..+..++...|++++|...++...+.. +.+...+..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            45677888888999999999999999998853  33456788888889999999999999999888743 2245677788


Q ss_pred             HHHHHhcccHhHHHHHHHHHhHC
Q 046547          284 VEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       284 i~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ...|...|++++|...|++..+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            88899999999999999887754

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.25  E-value=1.9e-05  Score=59.90  Aligned_cols=99  Identities=14%  Similarity=0.045  Sum_probs=82.1

Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      +...+..+...+...|++++|+..|++....  .+-+...|..+..+|.+.|++++|...+++..+.. +-+...|..+-
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4567888888999999999999999998853  23467788899999999999999999999988753 22466788888


Q ss_pred             HHHHhcccHhHHHHHHHHHhHC
Q 046547          285 EGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..|...|++++|.+.|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            8899999999999999988765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.24  E-value=2.9e-05  Score=57.22  Aligned_cols=109  Identities=9%  Similarity=-0.099  Sum_probs=85.0

Q ss_pred             CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc----hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhh
Q 046547          204 PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR----QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQG  279 (343)
Q Consensus       204 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  279 (343)
                      .+...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|...+++..+.. +.+...
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHH
Confidence            3566788888899999999999999999884   2455    6778888889999999999999999887742 224567


Q ss_pred             HHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHH
Q 046547          280 YEVVVEGCLECREYILAGKTVMGMTERGFIP-YIKVRQKV  318 (343)
Q Consensus       280 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~l  318 (343)
                      +..+...|...|++++|.+.|++..+..  | +...+..+
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l  139 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSLE--PKNKVFQEAL  139 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC--SSCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHH
Confidence            7778888999999999999999887653  4 34444433

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.23  E-value=0.00032  Score=59.73  Aligned_cols=224  Identities=8%  Similarity=-0.084  Sum_probs=139.0

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHcc-C-
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAI-D-  185 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~-~-  185 (343)
                      ...+....++|+++++++....  |+..| |+.--..+...+..++++++.++.+.... +-+..+|+.--..+.+. + 
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCS
T ss_pred             HHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCC
Confidence            3445455678899998888744  65544 44433333333335788888888887653 33455666555555554 5 


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChh--------HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTN--------DAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      ++++++++++++.+.. +-|-.+|+--.-.+...|.++        ++++.++++.+.  -+-|...|+-.-..+.+.++
T Consensus       140 ~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~  216 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPG  216 (349)
T ss_dssp             CCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTT
T ss_pred             ChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccc
Confidence            7788888888888654 235555554444444444455        888888888863  23466677777666666665


Q ss_pred             -------HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccH--------------------hHHHHHHHHHhHCC---
Q 046547          258 -------MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREY--------------------ILAGKTVMGMTERG---  307 (343)
Q Consensus       258 -------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~m~~~g---  307 (343)
                             ++++++.+++...... -|...|+-+-..+.+.|+.                    .....+..++...+   
T Consensus       217 ~~~~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (349)
T 3q7a_A          217 AETSSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPE  295 (349)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCS
T ss_pred             cccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccccc
Confidence                   6788888888777432 2455666555555555543                    23333333333322   


Q ss_pred             --CCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 046547          308 --FIPYIKVRQKVVEGLAGVGEWKLATVVRQRFA  339 (343)
Q Consensus       308 --~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  339 (343)
                        -.++......|.+.|...|+.++|.++++.+.
T Consensus       296 ~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          296 DTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             SCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence              13577788888899999999999999998885

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.23  E-value=1.8e-05  Score=58.52  Aligned_cols=98  Identities=11%  Similarity=-0.089  Sum_probs=79.4

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVE  285 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~  285 (343)
                      ...+..+...+...|++++|...|+....  .-+.+...|..+-.++.+.|++++|...|+...+.. +.+...+..+-.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCM--LDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            44566677888899999999999999885  334467778888899999999999999999988753 224556777888


Q ss_pred             HHHhcccHhHHHHHHHHHhHC
Q 046547          286 GCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .|...|++++|.+.|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            899999999999999988765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.21  E-value=1.2e-05  Score=60.17  Aligned_cols=134  Identities=10%  Similarity=-0.092  Sum_probs=75.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc----hhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCC-chh
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR----QGMVIKVAAALRANREMWKAVEMIEFLERK----GCPI-GFQ  278 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~  278 (343)
                      ++..+...+...|++++|...+++......-.++    ..++..+...+...|++++|.+.+++..+.    +-.+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4445555555566666666655554431000011    134555666666666666666666665432    1111 123


Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTER----GFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      ++..+...+...|++++|.+.+++..+.    +..+ ...++..+...|...|++++|.+.+++..++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4555666677777777777777765432    2111 2345667777778888888888888776654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.21  E-value=0.0002  Score=63.31  Aligned_cols=165  Identities=7%  Similarity=-0.092  Sum_probs=74.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCCH----hhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC-chhH
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPDL----ESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP-RQGM  244 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~  244 (343)
                      +..+...|...|++++|.+.+......- ..++.    .+.+.+-..+...|+.+.|..++.....-   .+..+ -..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            3445555555555555555555543210 01111    11222222333445555555555544320   11111 1234


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHc--CC--CC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC----CCCCC--HH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERK--GC--PI-GFQGYEVVVEGCLECREYILAGKTVMGMTER----GFIPY--IK  313 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~--g~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~  313 (343)
                      +..+...|...|++++|..++.+....  +.  .| ...+|..++..|...|++++|..++++....    +..|.  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            555555556666666666655554421  11  11 1224555555566666666666665554321    11111  23


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHH
Q 046547          314 VRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       314 ~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      .+..+...+...|++++|...|.+.
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            3444445555556666665555443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.21  E-value=1.3e-05  Score=57.58  Aligned_cols=96  Identities=10%  Similarity=-0.046  Sum_probs=46.1

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC--CCc----hhhHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGC--PIG----FQGYEV  282 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~~~~~  282 (343)
                      +..+...+...|++++|...|+.....  .+.+...+..+...+...|++++|...++...+..-  .++    ..++..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            444444455555555555555554431  122344445555555555555555555555443210  111    334444


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHC
Q 046547          283 VVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +...|...|++++|.+.|++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            555555555666666555555543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.20  E-value=2.9e-05  Score=54.00  Aligned_cols=95  Identities=9%  Similarity=-0.064  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC--CHHHHHHHHHH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIP--YIKVRQKVVEG  321 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~  321 (343)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.  +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34444444555555555555555544422 1123344444445555555555555555544432 11  24444555555


Q ss_pred             Hhcc-CChhHHHHHHHHHHh
Q 046547          322 LAGV-GEWKLATVVRQRFAE  340 (343)
Q Consensus       322 ~~~~-g~~~~a~~~~~~m~~  340 (343)
                      +... |++++|.+.+++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHhCCHHHHHHHHHHHhh
Confidence            5555 555555555555444

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.19  E-value=2.9e-05  Score=56.20  Aligned_cols=94  Identities=10%  Similarity=-0.062  Sum_probs=40.1

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC--CCCc----hhhHHHH
Q 046547          210 SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG--CPIG----FQGYEVV  283 (343)
Q Consensus       210 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~~~~~l  283 (343)
                      ..+-..+.+.|++++|+..|++..+-  -+-+...|+.+-.+|.+.|++++|++.+++..+..  ..++    ..+|..+
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            33444444444444444444444421  11223344444444444444444444444443210  0000    1133344


Q ss_pred             HHHHHhcccHhHHHHHHHHHhH
Q 046547          284 VEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       284 i~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      -..+...|++++|++.|++...
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4445555555555555555443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.19  E-value=7.6e-05  Score=52.31  Aligned_cols=99  Identities=13%  Similarity=-0.072  Sum_probs=77.6

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVA  249 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  249 (343)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++....  .+.+...+..+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a   79 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHH
Confidence            34567777788888899999999998887653 235677788888888889999999998888752  234567788888


Q ss_pred             HHHHhCccHHHHHHHHHHHHHc
Q 046547          250 AALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .++...|++++|.+.++...+.
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHc
Confidence            8888899999999988888763

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.16  E-value=0.00062  Score=57.15  Aligned_cols=185  Identities=9%  Similarity=-0.049  Sum_probs=104.9

Q ss_pred             ChHHHHHHHHHHHhcCCCccH-HHHHHHHHHH----Hhcc--CchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcH
Q 046547          115 PLPLALAILQRTLRSGCVPVP-QIRLLLSSAW----LERR--CQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQL  187 (343)
Q Consensus       115 ~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~----~~~~--~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~  187 (343)
                      +++++++.++.+....  |.. .+|+---..+    ...+  +++++++++++.+.+.. +-+..+|+.-...+.+.|++
T Consensus        84 ~~~eeL~~~~~~L~~n--Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~  160 (306)
T 3dra_A           84 NLYDELDWCEEIALDN--EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLH  160 (306)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCT
T ss_pred             cHHHHHHHHHHHHHHC--cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccc
Confidence            6777777777766543  322 2222221111    1110  34666777777776542 33445555555555555666


Q ss_pred             H--HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCC------hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          188 V--EAAKVLKGMSSAECVPDLESYSIVIGAMSTARK------TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       188 ~--~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      +  ++++.++++.+... -|-..|+.--..+...++      ++++++.++.+..  --+-|...|+-+-..+.+.|+..
T Consensus       161 ~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~  237 (306)
T 3dra_A          161 NDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSI  237 (306)
T ss_dssp             TCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCG
T ss_pred             ChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCCh
Confidence            5  77777777766543 245555554445555554      6777777777764  33445666666666666666533


Q ss_pred             -HHHHHHHHHHHcC--CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          260 -KAVEMIEFLERKG--CPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       260 -~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                       .+..+..+..+.+  -..+......+...|.+.|+.++|.++++.+.+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          238 TQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence             3444555544322  123455666777777777888888888887765

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.15  E-value=2.2e-05  Score=56.40  Aligned_cols=99  Identities=6%  Similarity=-0.062  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCCc----hhHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMG-LMPR----QGMVI  246 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~p~----~~~~~  246 (343)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++....... ..++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345556666666777777777777666543 23455666666667777777777777776654200 0111    55666


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          247 KVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .+..++...|++++|.+.|+...+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            6677777777777777777776663

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.13  E-value=1.5e-05  Score=66.40  Aligned_cols=193  Identities=7%  Similarity=-0.163  Sum_probs=127.1

Q ss_pred             cHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 046547          134 VPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVI  213 (343)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  213 (343)
                      +...+..+-..+...+ ++++|...|++..+.. +.+...|..+..+|.+.|++++|...+++..+.. +-+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g-~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGR-KYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4455666666666665 6999999999998753 3367888889999999999999999999988753 33577888899


Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCch-hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc
Q 046547          214 GAMSTARKTNDAVEMMKEMVLNMGLMPRQ-GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE  292 (343)
Q Consensus       214 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  292 (343)
                      .++...|++++|...|+...+.   .|+. ..+...+....+.   .++.. +..........+......+ ..+ ..|+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l-~~l-~~~~  150 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYL-TRL-IAAE  150 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHH-HHH-HHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHH-HHH-HHHH
Confidence            9999999999999999987752   2221 1222222222221   11111 2223333344444443333 333 3799


Q ss_pred             HhHHHHHHHHHhHCCCCCCH-HHHHHHHHHHhcc-CChhHHHHHHHHHHh
Q 046547          293 YILAGKTVMGMTERGFIPYI-KVRQKVVEGLAGV-GEWKLATVVRQRFAE  340 (343)
Q Consensus       293 ~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~-g~~~~a~~~~~~m~~  340 (343)
                      .++|.+.+++..+.  .|+. .....+-..+.+. +.+++|.++|++..+
T Consensus       151 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          151 RERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99999999887754  4543 3334444444444 678899999987654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.13  E-value=1.6e-05  Score=59.40  Aligned_cols=134  Identities=11%  Similarity=-0.091  Sum_probs=84.5

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCC-CC----HhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC-ch
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECV-PD----LESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP-RQ  242 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~  242 (343)
                      .++..+-..+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++....   .+-.+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45566666667777777777777665542110 11    135666777777778888887777775531   11111 13


Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERK----GCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ..+..+...+...|++++|.+.+++..+.    +..+ ...++..+...|...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            45667777778888888888888776532    2111 133566677778888888888888887654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.12  E-value=6.8e-05  Score=53.83  Aligned_cols=97  Identities=15%  Similarity=0.061  Sum_probs=68.7

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+-..+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..++...+.  -+.+...|..+..
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            3455666667777788888888887776643 235667777777778888888888888877752  2334566777777


Q ss_pred             HHHhCccHHHHHHHHHHHHH
Q 046547          251 ALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ++...|++++|...|++..+
T Consensus        81 ~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           81 AQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHH
Confidence            78888888888888877665

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.10  E-value=3.3e-05  Score=55.90  Aligned_cols=107  Identities=8%  Similarity=-0.033  Sum_probs=75.0

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc-CCCCCc----hhHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN-MGLMPR----QGMV  245 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~p~----~~~~  245 (343)
                      ...+..+...+.+.|++++|++.|++..+.. +-+..+|+.+-.+|...|++++|++.+++..+- ....++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            3456677788888888888888888877653 234677888888888888888888888877641 011111    2356


Q ss_pred             HHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhH
Q 046547          246 IKVAAALRANREMWKAVEMIEFLERKGCPIGFQGY  280 (343)
Q Consensus       246 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  280 (343)
                      ..+-.++...|++++|.+.|++..+  ..||..+.
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            6677778888888888888888766  34555443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.10  E-value=0.0033  Score=53.19  Aligned_cols=222  Identities=8%  Similarity=-0.059  Sum_probs=144.8

Q ss_pred             cCCChH-HHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccC---------chhHHHHHHHHHHhcCCccCHhhHHHHHHH
Q 046547          112 SLHPLP-LALAILQRTLRSGCVPVPQI-RLLLSSAWLERRC---------QSQSVADILLEMKSIGYHPDCGTCNYLVSS  180 (343)
Q Consensus       112 ~~~~~~-~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~---------~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~  180 (343)
                      +.|.++ +|++.++.+...  .|+..| |+.--..+...+.         .+++++.+++.+.... +-+..+|+.--..
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445554 789999999874  476655 3322212111111         1567888888887643 3356677766666


Q ss_pred             HHccC--cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCC-hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC--
Q 046547          181 LCAID--QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARK-TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN--  255 (343)
Q Consensus       181 ~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~--  255 (343)
                      +.+.|  ++++++.+++.+.+... -|-..|+---..+...|. ++++++.++.+.+.  -+-|...|+-.-..+.+.  
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSC
T ss_pred             HhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhh
Confidence            66666  48999999999987643 366677766666677777 58999999999863  344666666655555443  


Q ss_pred             ------------ccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhc-----------ccHhHHHHHHHHHhHCCCCCC
Q 046547          256 ------------REMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLEC-----------REYILAGKTVMGMTERGFIPY  311 (343)
Q Consensus       256 ------------~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~g~~p~  311 (343)
                                  +.++++++.+......  .| |...|+-+-..+.+.           +.++++++.++++.+..  ||
T Consensus       195 ~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd  270 (331)
T 3dss_A          195 QPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PE  270 (331)
T ss_dssp             CC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TT
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--cc
Confidence                        5688899999988874  34 445555444344443           46788999999988754  54


Q ss_pred             H-HHHHH---HHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          312 I-KVRQK---VVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       312 ~-~~~~~---li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      . .++-+   +..+....|..+++...++++.+++|
T Consensus       271 ~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp  306 (331)
T 3dss_A          271 NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  306 (331)
T ss_dssp             CHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCG
T ss_pred             cchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCc
Confidence            2 22222   22233356888899999999998875

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.09  E-value=0.00023  Score=52.18  Aligned_cols=98  Identities=7%  Similarity=-0.129  Sum_probs=81.8

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD----LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMV  245 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~  245 (343)
                      +...+..+...+...|++++|.+.|++..+..  |+    ...+..+..++...|++++|+..++.....  .+.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHH
Confidence            56677888888999999999999999988753  55    677888888999999999999999998853  23456778


Q ss_pred             HHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          246 IKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       246 ~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      ..+..++...|++++|...|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            88888999999999999999998874

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.09  E-value=0.00013  Score=60.15  Aligned_cols=191  Identities=9%  Similarity=-0.090  Sum_probs=113.3

Q ss_pred             hcccchHHHHHHHHhcCCCCCCCChhhHHHHHH------HHhhcCCChHHHHHHHHHHHhcCCCccHHHH--H-------
Q 046547           75 QNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLS------YTLQSLHPLPLALAILQRTLRSGCVPVPQIR--L-------  139 (343)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~------~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--~-------  139 (343)
                      ..++...+.+.+.....+.|.  ....|..++.      ..+...++..+++..+.  ...++.|+....  +       
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~--~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~--~~l~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES--ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLS--GSVQISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHH--HTTTCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh--hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHH--HHhcCChhhhhhhhccCCcccc
Confidence            356677777777777766554  2456665541      01111111222222222  233455655321  1       


Q ss_pred             -------------HHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC-
Q 046547          140 -------------LLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD-  205 (343)
Q Consensus       140 -------------~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-  205 (343)
                                   .+...+...+ ++++|.++|+.+...+  |+....-.+-..+.+.+++++|+..|+...... .|. 
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g-~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~  169 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQG-NYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFL  169 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHT-CHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCC-CHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-Cccc
Confidence                         1223344544 6888888888877643  433344445557778888888888887554422 111 


Q ss_pred             -HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc
Q 046547          206 -LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG  276 (343)
Q Consensus       206 -~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  276 (343)
                       ...+..+-.++...|++++|+..|++... ....|.  .......-.++.+.|+.++|..+|+++...  .|+
T Consensus       170 ~~~a~~~LG~al~~LG~~~eAl~~l~~a~~-g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~  240 (282)
T 4f3v_A          170 AGAAGVAHGVAAANLALFTEAERRLTEAND-SPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPE  240 (282)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-STTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHhc-CCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence             23566777888888888888888888874 233243  234556666777888888888888888874  355

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.09  E-value=8.6e-05  Score=58.10  Aligned_cols=128  Identities=9%  Similarity=-0.101  Sum_probs=67.9

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCC-CC--------------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECV-PD--------------LESYSIVIGAMSTARKTNDAVEMMKEMVLNMG  237 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  237 (343)
                      .+..+-..+...|++++|...|++..+.... |+              ..+|..+..++...|++++|+..++....  -
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~--~  117 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK--I  117 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--H
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--h
Confidence            3444455555666666666666655543211 10              24566666666677777777777776664  2


Q ss_pred             CCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHH-HHHHHHh
Q 046547          238 LMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAG-KTVMGMT  304 (343)
Q Consensus       238 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~-~~~~~m~  304 (343)
                      .+.+...+..+..+|...|++++|.+.|++..+.  .| +...+..+...+...++.+++. ..+..+.
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            2334556666666677777777777777766653  23 3345555555555555555554 3444443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.08  E-value=8.5e-05  Score=58.14  Aligned_cols=159  Identities=8%  Similarity=-0.061  Sum_probs=104.6

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--------------h
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--------------Q  242 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--------------~  242 (343)
                      .+.+....|+++++.+.|+.-... .......+..+...+...|++++|+..|++......-.|+              .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             ------------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            344455566666666666532221 1113456777888899999999999999999852111221              2


Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGL  322 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  322 (343)
                      ..|..+..+|.+.|++++|...++...+.. +.+...+..+-.+|...|++++|.+.|++..+.. +-+...+..+...+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            688889999999999999999999988752 2356678888889999999999999999988764 23567778888888


Q ss_pred             hccCChhHHH-HHHHHH
Q 046547          323 AGVGEWKLAT-VVRQRF  338 (343)
Q Consensus       323 ~~~g~~~~a~-~~~~~m  338 (343)
                      ...|+.+++. ..+..|
T Consensus       167 ~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            8888777776 444443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.08  E-value=6.3e-05  Score=56.02  Aligned_cols=97  Identities=9%  Similarity=-0.014  Sum_probs=64.6

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+...+...|++++|...|++..... +.+...|..+-.++...|++++|+..|+.....  -+.+...+..+-.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM--DIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHH
Confidence            3455556666777777777777777766543 235566666777777777777777777777642  2334556667777


Q ss_pred             HHHhCccHHHHHHHHHHHHH
Q 046547          251 ALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +|...|++++|...|+...+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777665

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.08  E-value=6.5e-05  Score=54.01  Aligned_cols=94  Identities=12%  Similarity=-0.081  Sum_probs=74.0

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch---hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc----hhhHHH
Q 046547          210 SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ---GMVIKVAAALRANREMWKAVEMIEFLERKGCPIG----FQGYEV  282 (343)
Q Consensus       210 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~  282 (343)
                      ..+...+...|++++|...|+..... . +.+.   ..+..+..++.+.|++++|...++...+..  |+    ...+..
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL-Y-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-C-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH-C-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHH
Confidence            34567788899999999999998863 2 2223   477788888999999999999999988743  33    455677


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          283 VVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +...+...|++++|...|+++.+..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            7788899999999999999988764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.07  E-value=5.1e-05  Score=54.36  Aligned_cols=91  Identities=7%  Similarity=-0.138  Sum_probs=47.7

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHh
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLE  289 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~  289 (343)
                      .+...+.+.|++++|+..|+...+.  -+.+...|..+-.++...|++++|...|++..+.  .| +...+..+...|..
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3444555556666666666555531  2224445555555555556666666666555542  22 23344455555555


Q ss_pred             cccHhHHHHHHHHHhH
Q 046547          290 CREYILAGKTVMGMTE  305 (343)
Q Consensus       290 ~g~~~~a~~~~~~m~~  305 (343)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5556666555555543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.05  E-value=8.9e-05  Score=65.53  Aligned_cols=162  Identities=8%  Similarity=-0.057  Sum_probs=113.6

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCC----------------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch-
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPD----------------LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ-  242 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-  242 (343)
                      .+.+.|++++|.+.|....+......                ...+..+...|...|++++|.+.+.......+..++. 
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSK   92 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchH
Confidence            45566777777777777665432111                1236778999999999999999998876422222222 


Q ss_pred             ---hHHHHHHHHHHhCccHHHHHHHHHHHHH----cCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC--CC--CC
Q 046547          243 ---GMVIKVAAALRANREMWKAVEMIEFLER----KGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTER--GF--IP  310 (343)
Q Consensus       243 ---~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~--~p  310 (343)
                         .+.+.+-..+...|+.++|..++.....    .+..+. ..++..+...|...|++++|..++++....  +.  .|
T Consensus        93 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~  172 (434)
T 4b4t_Q           93 TVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKP  172 (434)
T ss_dssp             HHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCST
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccch
Confidence               2233333344456899999999988764    233333 447778889999999999999999987643  21  22


Q ss_pred             -CHHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          311 -YIKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       311 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                       ...++..++..|...|++++|..++++....
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          173 SLVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence             3567889999999999999999999887654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.04  E-value=0.00013  Score=53.02  Aligned_cols=99  Identities=8%  Similarity=-0.099  Sum_probs=83.2

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV  248 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  248 (343)
                      .+...+..+...+...|++++|...|++..... +.+...|..+..++...|++++|...++.....  .+.+...+..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CchhHHHHHHH
Confidence            456788888889999999999999999987754 235778888999999999999999999998863  23467788899


Q ss_pred             HHHHHhCccHHHHHHHHHHHHH
Q 046547          249 AAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ..++...|++++|...|+...+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999998875

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.03  E-value=5.9e-05  Score=55.60  Aligned_cols=95  Identities=8%  Similarity=-0.069  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      .+..+...+.+.|++++|...|++..... +.+...|..+..++...|++++|+..|+.....  -+.+...+..+..+|
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALM--DINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHH
Confidence            34445555666777777777777666543 224556666666677777777777777776642  233445566666677


Q ss_pred             HhCccHHHHHHHHHHHHH
Q 046547          253 RANREMWKAVEMIEFLER  270 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~  270 (343)
                      ...|++++|...|+...+
T Consensus        97 ~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            777777777777776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.01  E-value=0.00015  Score=54.77  Aligned_cols=100  Identities=13%  Similarity=-0.061  Sum_probs=86.4

Q ss_pred             cCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH
Q 046547          169 PDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV  248 (343)
Q Consensus       169 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  248 (343)
                      .+...+..+...+.+.|++++|...|++..+.. +-+...|..+..+|...|++++|+..|+...+.  -+-+...|..+
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l   85 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            346678888899999999999999999998754 236788999999999999999999999999863  24457889999


Q ss_pred             HHHHHhCccHHHHHHHHHHHHHc
Q 046547          249 AAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      ..+|...|++++|...|++..+.
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHh
Confidence            99999999999999999998874

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.93  E-value=0.00014  Score=65.37  Aligned_cols=117  Identities=10%  Similarity=-0.138  Sum_probs=59.0

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      .+.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++|+..+++..+  --+.+...|..+..+|...|+++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHH
Confidence            3445566666666666555432 12345555566666666666666666666553  22234455555666666666666


Q ss_pred             HHHHHHHHHHHcCCCCc-hhhHHHHHHH--HHhcccHhHHHHHHH
Q 046547          260 KAVEMIEFLERKGCPIG-FQGYEVVVEG--CLECREYILAGKTVM  301 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p~-~~~~~~li~~--~~~~g~~~~a~~~~~  301 (343)
                      +|.+.+++..+.  .|+ ...+..+-.+  +.+.|++++|.+.++
T Consensus        92 eA~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666665543  122 2233333333  555566666666655

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.91  E-value=1.8e-05  Score=56.27  Aligned_cols=105  Identities=10%  Similarity=-0.068  Sum_probs=75.7

Q ss_pred             cCCChhHHHHHHHHHHhcCC--CCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhH
Q 046547          218 TARKTNDAVEMMKEMVLNMG--LMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      ..|++++|+..|++..+ .+  -+-+...+..+..+|...|++++|...|++..+..- -+...+..+..++...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHH
Confidence            46889999999999985 23  233567788999999999999999999999987532 246678888889999999999


Q ss_pred             HHHHHHHHhHCC-CCCCHHHHHHHHHHHhc
Q 046547          296 AGKTVMGMTERG-FIPYIKVRQKVVEGLAG  324 (343)
Q Consensus       296 a~~~~~~m~~~g-~~p~~~~~~~li~~~~~  324 (343)
                      |...+++..... -.|+...|...+..|.+
T Consensus        80 A~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            999999987653 22334445445544443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.88  E-value=5.2e-05  Score=68.27  Aligned_cols=121  Identities=8%  Similarity=-0.078  Sum_probs=93.2

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHh
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLE  289 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~  289 (343)
                      .+...+.+.|++++|++.|++..+.  -+-+...|..+..+|.+.|++++|.+.+++..+.  .| +...|..+-..|..
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3444567889999999999999863  3345788999999999999999999999999885  34 46688888899999


Q ss_pred             cccHhHHHHHHHHHhHCCCCCCHHHHHHHHHH--HhccCChhHHHHHHH
Q 046547          290 CREYILAGKTVMGMTERGFIPYIKVRQKVVEG--LAGVGEWKLATVVRQ  336 (343)
Q Consensus       290 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~a~~~~~  336 (343)
                      .|++++|.+.|++..+..- -+...+..+..+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999887531 133445555555  888999999999887

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.84  E-value=0.00048  Score=49.29  Aligned_cols=91  Identities=9%  Similarity=0.088  Sum_probs=58.8

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCC-H---hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc---hhHHHHHH
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPD-L---ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR---QGMVIKVA  249 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~~~~~li  249 (343)
                      +...+...|++++|...|++..+..  |+ .   ..+..+..++...|++++|...|+..... . +.+   ...+..+.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR-Y-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-C-CCCcccHHHHHHHH
Confidence            4455666777777777777766543  22 2   35556666777777777777777777642 1 112   44566667


Q ss_pred             HHHHhCccHHHHHHHHHHHHHc
Q 046547          250 AALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       250 ~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      .++...|++++|...|+...+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777777663

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.82  E-value=0.00014  Score=65.40  Aligned_cols=125  Identities=6%  Similarity=-0.068  Sum_probs=75.8

Q ss_pred             HhcCCChhHHHHHHHHHHhc--CCC---CC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHc-----C-CCCc-hhhHHH
Q 046547          216 MSTARKTNDAVEMMKEMVLN--MGL---MP-RQGMVIKVAAALRANREMWKAVEMIEFLERK-----G-CPIG-FQGYEV  282 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~--~~~---~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~  282 (343)
                      +-..|++++|+.++++..+.  .-+   .| ...+++.|..+|...|++++|..++++..+-     | -.|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44667777777777665531  011   12 2455777777777777777777777765531     1 1232 336677


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHC-----CC-CC-CHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          283 VVEGCLECREYILAGKTVMGMTER-----GF-IP-YIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~-----g~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      |-..|...|++++|+.++++..+-     |- .| ...+.+.+-.++...|.+++|+.+|.++.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777765431     21 12 233455666666677777777777777654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.81  E-value=0.00041  Score=62.03  Aligned_cols=131  Identities=10%  Similarity=-0.089  Sum_probs=97.4

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--------------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD--------------LESYSIVIGAMSTARKTNDAVEMMKEMVLNM  236 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  236 (343)
                      ...|..+-..|.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+. 
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  346 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL-  346 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            45677777888888999999999888876421111              477888888999999999999999998852 


Q ss_pred             CCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHH-HHHHHhH
Q 046547          237 GLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGK-TVMGMTE  305 (343)
Q Consensus       237 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~-~~~~m~~  305 (343)
                       -+.+...|..+-.+|...|++++|...|++..+  +.| +...+..+-..+.+.|+.+++.+ ++..|..
T Consensus       347 -~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          347 -DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             -STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             -CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             334677888888999999999999999998887  344 34577777788888888887764 4555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.81  E-value=0.0002  Score=53.94  Aligned_cols=101  Identities=5%  Similarity=0.001  Sum_probs=79.2

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC------C----------CCCchhHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNM------G----------LMPRQGMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~----------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      ...+...-..+.+.|++++|+..|.......      .          -+.+...|..+..+|.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            4567778888999999999999999987510      0          11234678888889999999999999999988


Q ss_pred             HcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          270 RKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       270 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +.. +.+...|..+-.+|...|++++|...|++.....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            743 2246678888888999999999999999887753

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.81  E-value=0.0002  Score=64.36  Aligned_cols=127  Identities=13%  Similarity=-0.035  Sum_probs=96.1

Q ss_pred             HHHccCcHHHHHHHHHHhhhC---CCCC----CHhhHHHHHHHHhcCCChhHHHHHHHHHHhc-----CCCCCc-hhHHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSA---ECVP----DLESYSIVIGAMSTARKTNDAVEMMKEMVLN-----MGLMPR-QGMVI  246 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~p~-~~~~~  246 (343)
                      .+...|++++|..++++..+.   -..|    ...+++.|..+|...|++++|..++++...-     ..-.|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355789999999999887642   1222    3568999999999999999999988886631     112333 46699


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHH-----cCC-CCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          247 KVAAALRANREMWKAVEMIEFLER-----KGC-PIG-FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~-----~g~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .|...|...|++++|..++++..+     .|- .|+ ..+.+.+-.++...|.+++|+.++..+++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998663     132 232 335667777888999999999999998764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.80  E-value=0.00033  Score=50.01  Aligned_cols=91  Identities=12%  Similarity=0.016  Sum_probs=44.4

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      +...+.+.|++++|...|++..+.. +-+...|..+-.++...|++++|+..|++..+.  -+-+...+..+..++...|
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            3344455555555555555554432 123444445555555555555555555555431  1123344455555555555


Q ss_pred             cHHHHHHHHHHHHH
Q 046547          257 EMWKAVEMIEFLER  270 (343)
Q Consensus       257 ~~~~a~~~~~~m~~  270 (343)
                      ++++|...+++..+
T Consensus       100 ~~~~A~~~~~~al~  113 (121)
T 1hxi_A          100 NANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.77  E-value=6.4e-05  Score=53.30  Aligned_cols=60  Identities=12%  Similarity=0.040  Sum_probs=24.4

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMV  233 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  233 (343)
                      .+..+...|...|++++|...|++..+... -+..++..+..++...|++++|+..+++..
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333344444444444444444444433221 123333344444444444444444444433

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.75  E-value=0.00026  Score=52.81  Aligned_cols=64  Identities=14%  Similarity=-0.031  Sum_probs=40.2

Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHC-----CCCCC-HHHH----HHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTER-----GFIPY-IKVR----QKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-~~~~----~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .|..+-.++.+.|++++|+..+++.++.     .+.|+ ...|    .....++...|++++|++.|++..++.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~  132 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  132 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            5555556666666666666666665553     12343 3455    666677777777777777777776654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.70  E-value=0.00065  Score=60.75  Aligned_cols=126  Identities=15%  Similarity=-0.046  Sum_probs=100.4

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc-------------hhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR-------------QGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      ...|..+-..+.+.|++++|+..|++......-.++             ...|..+..+|.+.|++++|...+++..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            456778889999999999999999998852111111             5789999999999999999999999998753


Q ss_pred             CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          273 CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       273 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                       +.+...|..+-.+|...|++++|...|++..+.. +-+...+..+...+.+.|+.++|.+
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~  406 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDR  406 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             2256688888899999999999999999988753 2256678888888999998888764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.70  E-value=0.00023  Score=60.90  Aligned_cols=148  Identities=11%  Similarity=-0.046  Sum_probs=61.8

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+-..+.+.|++++|...|++....  .|+...       +...|+.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            344555556666677777777777766543  233221       11112222211111   0        125666666


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHH-HhccCCh
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEG-LAGVGEW  328 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~-~~~~g~~  328 (343)
                      +|.+.|++++|...++...+.. +.+...|..+-.+|...|++++|...|++..+.  .|+ ...+..+... ....+..
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALY  315 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHH
Confidence            6667777777777777666532 123456666666677777777777777666543  232 2333333333 2234555


Q ss_pred             hHHHHHHHHHHhh
Q 046547          329 KLATVVRQRFAEL  341 (343)
Q Consensus       329 ~~a~~~~~~m~~~  341 (343)
                      +.+.+.|.+|.+.
T Consensus       316 ~~a~~~~~~~l~~  328 (338)
T 2if4_A          316 QKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHhhCC
Confidence            6666666665543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.69  E-value=0.00051  Score=59.59  Aligned_cols=27  Identities=7%  Similarity=-0.032  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhh
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSS  199 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~  199 (343)
                      .+..+-..+.+.|++++|.+.|++..+
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~  251 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLR  251 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            456666777778888888887777664

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.67  E-value=0.019  Score=48.92  Aligned_cols=190  Identities=9%  Similarity=-0.101  Sum_probs=111.5

Q ss_pred             cCC-ChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccC-chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH-
Q 046547          112 SLH-PLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRC-QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV-  188 (343)
Q Consensus       112 ~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~-  188 (343)
                      ..| +++++++.++.+.....+ +..+|+---..+....+ ++++++++++.+.+.. +-+..+|+.-...+.+.|.++ 
T Consensus       100 ~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~  177 (349)
T 3q7a_A          100 SLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGR  177 (349)
T ss_dssp             HTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccc
Confidence            345 478888888887764421 33344444333323212 4667777777776543 234455554444444444444 


Q ss_pred             -------HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCC-------hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 046547          189 -------EAAKVLKGMSSAECVPDLESYSIVIGAMSTARK-------TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA  254 (343)
Q Consensus       189 -------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  254 (343)
                             ++++.++++.+... -|...|+..-..+.+.++       ++++++.+++...  --+-|...|+-+-..+.+
T Consensus       178 ~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~  254 (349)
T 3q7a_A          178 ISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKH  254 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHh
Confidence                   77888888877543 366677766666666665       5778888877774  334466667665555555


Q ss_pred             CccH--------------------HHHHHHHHHHHHcC-----CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          255 NREM--------------------WKAVEMIEFLERKG-----CPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       255 ~~~~--------------------~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      .|..                    ....++..++...+     -.++......|...|...|+.++|.++++.+.+.
T Consensus       255 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          255 FSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             TTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            5432                    23333333333221     1346667778888899999999999999988654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.66  E-value=0.00067  Score=58.83  Aligned_cols=124  Identities=11%  Similarity=0.008  Sum_probs=99.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcC-------------CCCC-chhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNM-------------GLMP-RQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-------------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      ..+..+-..+.+.|++++|+..|++..+-.             ...| +..+|..+..+|.+.|++++|.+.+++..+. 
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-
Confidence            346777888999999999999999887400             0122 4577889999999999999999999999874 


Q ss_pred             CCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 046547          273 CPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       273 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                       .| +...|..+-.+|...|++++|.+.|++..+.. +-+...+..+...+...++.+++.+
T Consensus       303 -~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 -DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             34 46678888889999999999999999988764 2256777778888888888887765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.59  E-value=0.0017  Score=48.63  Aligned_cols=103  Identities=15%  Similarity=0.061  Sum_probs=69.4

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhC-------CC----------CCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSA-------EC----------VPDLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-------~~----------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      ..+...-..+.+.|++++|...|.+....       .-          +.+...|..+..+|.+.|++++|+..++....
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            34455556666777777777777665543       00          11235677777888888888888888888775


Q ss_pred             cCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          235 NMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       235 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      -  -+.+...|..+-.+|...|++++|...|+...+  +.|+..
T Consensus        92 ~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~p~~~  131 (162)
T 3rkv_A           92 R--EETNEKALFRRAKARIAAWKLDEAEEDLKLLLR--NHPAAA  131 (162)
T ss_dssp             H--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGH
T ss_pred             c--CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh--cCCCCH
Confidence            2  234566777888888888888888888888776  345543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.56  E-value=0.0038  Score=45.52  Aligned_cols=110  Identities=8%  Similarity=-0.077  Sum_probs=55.4

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----CccHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----NREMWKA  261 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a  261 (343)
                      ++++|.+.|++..+.|. |+..    |-..|...+.+++|.++|+...+. |   +...+..|-..|..    .++.++|
T Consensus        10 d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            44555555555555441 2222    344444444555555555555542 2   33444455555554    4556666


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCC
Q 046547          262 VEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERG  307 (343)
Q Consensus       262 ~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  307 (343)
                      .+.|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666555543   23344444444554    556666666666655555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.52  E-value=0.0051  Score=55.48  Aligned_cols=186  Identities=10%  Similarity=-0.035  Sum_probs=117.0

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhc---------CC--
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSI---------GY--  167 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~---------g~--  167 (343)
                      ...|-..+. .+...|+++.|..+|++....   |........   |.... +.++.   ++.+.+.         +.  
T Consensus       213 ~~lW~~ya~-~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~---y~~~~-e~~~~---~~~l~~~~~~~~~~~~~~~~  281 (493)
T 2uy1_A          213 EEVYFFYSE-YLIGIGQKEKAKKVVERGIEM---SDGMFLSLY---YGLVM-DEEAV---YGDLKRKYSMGEAESAEKVF  281 (493)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHH---CCSSHHHHH---HHHHT-TCTHH---HHHHHHHTC----------C
T ss_pred             HHHHHHHHH-HHHHcCCHHHHHHHHHHHHhC---CCcHHHHHH---HHhhc-chhHH---HHHHHHHHHhhccchhhhhc
Confidence            456666665 566789999999999999886   554433222   22211 11222   2222211         00  


Q ss_pred             -ccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH--HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhH
Q 046547          168 -HPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYS--IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGM  244 (343)
Q Consensus       168 -~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~  244 (343)
                       ......|-..+....+.+.++.|.++|+.....+  .+...|.  +.+.... .++.+.|..+|+...+..+-  +...
T Consensus       282 ~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~--~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~--~~~~  356 (493)
T 2uy1_A          282 SKELDLLRINHLNYVLKKRGLELFRKLFIELGNEG--VGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPD--STLL  356 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSC--CCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTT--CHHH
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCC--CChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCC--CHHH
Confidence             1112456666676767788999999999882211  2333343  3333322 23699999999998864322  3344


Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      +...++...+.|+.+.|..+|+...     .....|...+..=...|+.+.+.+++++..+
T Consensus       357 ~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          357 KEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5667777778899999999999862     2456677777766778999999888887763

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.50  E-value=0.0039  Score=45.49  Aligned_cols=110  Identities=7%  Similarity=-0.121  Sum_probs=89.5

Q ss_pred             CChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhH
Q 046547          220 RKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYIL  295 (343)
Q Consensus       220 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~  295 (343)
                      ++.++|+++|++..+. | .|+..    |-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4678999999999874 6 33333    6666777788999999999998875   45677777777877    889999


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhc----cCChhHHHHHHHHHHhh
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAG----VGEWKLATVVRQRFAEL  341 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~  341 (343)
                      |.++|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            999999999887   56677778888888    89999999999987664

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.48  E-value=0.00012  Score=50.98  Aligned_cols=62  Identities=16%  Similarity=0.004  Sum_probs=29.4

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ..+..+...+...|++++|+..|++...  -.+.+...+..+-.++.+.|++++|.+.+++..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLIT--AQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3344444445555555555555555443  1122334444455555555555555555555443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.43  E-value=0.043  Score=46.37  Aligned_cols=191  Identities=7%  Similarity=-0.086  Sum_probs=128.5

Q ss_pred             HhccCchhHHHHHHHHHHhcCCccCH-hhHHHH---HHHHHccC-------cHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 046547          146 LERRCQSQSVADILLEMKSIGYHPDC-GTCNYL---VSSLCAID-------QLVEAAKVLKGMSSAECVPDLESYSIVIG  214 (343)
Q Consensus       146 ~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~l---l~~~~~~~-------~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  214 (343)
                      .+.+.-.++|+++++.+...  .|+. .+|+.=   +.......       .+++++.+++.+.... +-+..+|+.--.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34554445889999998874  4433 334432   22222211       2678899999988754 235666666666


Q ss_pred             HHhcCC--ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc-HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-
Q 046547          215 AMSTAR--KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE-MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC-  290 (343)
Q Consensus       215 ~~~~~~--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-  290 (343)
                      .+...|  .+++++.+++.+.+.  -+-+...|+---..+...|. ++++++.++.+.+.... |...|+.....+.+. 
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHS
T ss_pred             HHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhh
Confidence            666666  489999999999963  34466677766666777787 69999999999986543 566676655554443 


Q ss_pred             -------------ccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhcc-----------CChhHHHHHHHHHHhhcC
Q 046547          291 -------------REYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGV-----------GEWKLATVVRQRFAELKS  343 (343)
Q Consensus       291 -------------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~  343 (343)
                                   +.++++++.+.+..... +-|...|+.+-..+.+.           +.++++++.++++.++.|
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~p  269 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEP  269 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCc
Confidence                         56889999999988764 23667776554444444           457889999998887653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.37  E-value=0.00025  Score=49.23  Aligned_cols=95  Identities=15%  Similarity=0.068  Sum_probs=74.9

Q ss_pred             CchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-------H
Q 046547          240 PRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-------I  312 (343)
Q Consensus       240 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-------~  312 (343)
                      ++...+..+-..+...|++++|.+.|++..+.. +.+...+..+-..|.+.|++++|.+.+++..+..  |+       .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHH
Confidence            356678888899999999999999999988753 2256678888889999999999999999988653  44       5


Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHH
Q 046547          313 KVRQKVVEGLAGVGEWKLATVVRQR  337 (343)
Q Consensus       313 ~~~~~li~~~~~~g~~~~a~~~~~~  337 (343)
                      ..+..+..++...|+.+.|.+.+++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHHH
Confidence            5666777777777877777655443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.35  E-value=0.00064  Score=58.17  Aligned_cols=116  Identities=9%  Similarity=-0.044  Sum_probs=86.7

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVE  285 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~  285 (343)
                      ...+..+-..+.+.|++++|+..|++....   .|+...       +...++.+++..-+.          ...|..+-.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            455777778888899999999999987742   344321       234445554443221          137778888


Q ss_pred             HHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          286 GCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +|.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|.+.|++..++.
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~  294 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA  294 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999988764 3367889999999999999999999999987664

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.25  E-value=0.0026  Score=44.47  Aligned_cols=98  Identities=7%  Similarity=-0.093  Sum_probs=72.0

Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMG  302 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  302 (343)
                      ++|+..|++..+  .-+.+...+..+...|...|++++|...+++..+.. +.+...|..+-..|...|++++|...|++
T Consensus         2 ~~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            467888888874  334567788999999999999999999999988753 22456788888899999999999999998


Q ss_pred             HhHCCC-CCCHHHHHHHHHHHh
Q 046547          303 MTERGF-IPYIKVRQKVVEGLA  323 (343)
Q Consensus       303 m~~~g~-~p~~~~~~~li~~~~  323 (343)
                      ..+..- .++......+...+.
T Consensus        79 al~~~~~~~~~~~~~~l~~~l~  100 (115)
T 2kat_A           79 GLAAAQSRGDQQVVKELQVFLR  100 (115)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHhccccccHHHHHHHHHHHH
Confidence            876421 123444444444333

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.24  E-value=0.0047  Score=46.05  Aligned_cols=96  Identities=14%  Similarity=-0.013  Sum_probs=47.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCC-C-----C-----HhhHHHHHHHHhcCCChhHHHHHHHHHHhc----CCC
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAECV-P-----D-----LESYSIVIGAMSTARKTNDAVEMMKEMVLN----MGL  238 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~  238 (343)
                      +...-..+.+.|++++|...|++..+.... |     +     ...|+.+-.++.+.|++++|+..++...+-    ..+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            344445566667777777777766553211 1     1     114555555555555555555555554420    011


Q ss_pred             CCc-hhHH----HHHHHHHHhCccHHHHHHHHHHHH
Q 046547          239 MPR-QGMV----IKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       239 ~p~-~~~~----~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      .|+ ...|    ...-.++...|++++|+..|++..
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            232 2233    444444455555555555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.18  E-value=0.0031  Score=44.06  Aligned_cols=79  Identities=8%  Similarity=-0.088  Sum_probs=64.9

Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFL  268 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  268 (343)
                      +|...|++..+.. +.+...+..+...+...|++++|+..|+.....  -+.+...|..+..++...|++++|...|++.
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5677888877654 345778888999999999999999999998863  2345678889999999999999999999988


Q ss_pred             HH
Q 046547          269 ER  270 (343)
Q Consensus       269 ~~  270 (343)
                      .+
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.13  E-value=0.007  Score=39.81  Aligned_cols=78  Identities=10%  Similarity=-0.015  Sum_probs=38.5

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGL  322 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  322 (343)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            344455555555555555555555555432 1133344555555556666666666665555432 11334444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.12  E-value=0.0023  Score=43.64  Aligned_cols=87  Identities=10%  Similarity=-0.176  Sum_probs=64.4

Q ss_pred             CchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC-CCCCHHHHHHH
Q 046547          240 PRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG-FIPYIKVRQKV  318 (343)
Q Consensus       240 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~l  318 (343)
                      -+...+..+-.+|...|++++|...|++..+..- .+...|..+-..|...|++++|.+.|++..+.. -.++......+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l   83 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSEL   83 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHH
Confidence            3567788889999999999999999999887532 245578888889999999999999999876542 12455555555


Q ss_pred             HHHHhccCC
Q 046547          319 VEGLAGVGE  327 (343)
Q Consensus       319 i~~~~~~g~  327 (343)
                      ...+.+.+.
T Consensus        84 ~~~l~~~~~   92 (100)
T 3ma5_A           84 QDAKLKAEG   92 (100)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHccc
Confidence            555554443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.12  E-value=0.04  Score=50.55  Aligned_cols=36  Identities=6%  Similarity=-0.313  Sum_probs=21.2

Q ss_pred             ccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          291 REYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       291 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      +.++++++.+++..... +-|...|..+-..+.+.|+
T Consensus       206 ~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          206 NVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence            55677777777666543 2245566665555555555

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.00  E-value=0.039  Score=50.58  Aligned_cols=118  Identities=7%  Similarity=-0.105  Sum_probs=77.4

Q ss_pred             hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc--cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc-cHhHHHH
Q 046547          222 TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR--EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR-EYILAGK  298 (343)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~  298 (343)
                      ++++++.++.+.+  .-+-+..+|+---..+.+.+  +++++++.++++.+.... |...|+.--..+.+.| .++++++
T Consensus        89 ~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~  165 (567)
T 1dce_A           89 VKAELGFLESCLR--VNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELA  165 (567)
T ss_dssp             HHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHH
Confidence            6777777777775  23345556666666666667  668888888887775432 5556666666666667 7778888


Q ss_pred             HHHHHhHCCCCCCHHHHHHHHHHHhcc--------------CChhHHHHHHHHHHhhcC
Q 046547          299 TVMGMTERGFIPYIKVRQKVVEGLAGV--------------GEWKLATVVRQRFAELKS  343 (343)
Q Consensus       299 ~~~~m~~~g~~p~~~~~~~li~~~~~~--------------g~~~~a~~~~~~m~~~~~  343 (343)
                      .++++.+... -|...|+.....+.+.              +.++++.+.+++..+++|
T Consensus       166 ~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          166 FTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             HHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHCC-CCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCC
Confidence            8887776542 2566666555555442              567888888888776653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.91  E-value=0.011  Score=38.86  Aligned_cols=61  Identities=10%  Similarity=0.001  Sum_probs=29.8

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .+..+...+...|++++|+..|++....  .+.+...+..+..++.+.|++++|...+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3444444455555555555555554431  122334445555555555555555555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.87  E-value=0.0066  Score=41.29  Aligned_cols=64  Identities=9%  Similarity=-0.025  Sum_probs=54.1

Q ss_pred             CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          205 DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       205 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +...+..+..+|...|++++|+..|++..+.  -+.+...|..+-.+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5677888899999999999999999998863  233566788999999999999999999998765

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.78  E-value=0.0059  Score=53.91  Aligned_cols=90  Identities=13%  Similarity=-0.027  Sum_probs=43.7

Q ss_pred             HHHhCccHHHHHHHHHHHHHc--C-CCCc----hhhHHHHHHHHHhcccHhHHHHHHHHHhHC-----C-CCCC-HHHHH
Q 046547          251 ALRANREMWKAVEMIEFLERK--G-CPIG----FQGYEVVVEGCLECREYILAGKTVMGMTER-----G-FIPY-IKVRQ  316 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~--g-~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~~~  316 (343)
                      .+.+.|++++|..++++..+.  . +.|+    ..+++.|...|...|++++|+.++++..+-     | -.|+ ..+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            344455555555555555432  1 1111    224555555555556666655555554321     1 1121 33455


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHh
Q 046547          317 KVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       317 ~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .|...|...|++++|..++++..+
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            555556666666666655555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.77  E-value=0.0047  Score=54.57  Aligned_cols=86  Identities=10%  Similarity=-0.017  Sum_probs=53.5

Q ss_pred             CccHHHHHHHHHHHHHc---CCCC---c-hhhHHHHHHHHHhcccHhHHHHHHHHHhHC-----C-CCCC-HHHHHHHHH
Q 046547          255 NREMWKAVEMIEFLERK---GCPI---G-FQGYEVVVEGCLECREYILAGKTVMGMTER-----G-FIPY-IKVRQKVVE  320 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~---g~~p---~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~li~  320 (343)
                      .|++++|..++++..+.   -+.|   + ..+++.|...|...|++++|+.++++..+-     | -.|+ ..+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            45677777777765531   1112   2 246677777777777777777777765432     2 1232 445777777


Q ss_pred             HHhccCChhHHHHHHHHHHh
Q 046547          321 GLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       321 ~~~~~g~~~~a~~~~~~m~~  340 (343)
                      .|...|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            77777777777777776654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.71  E-value=0.0077  Score=44.79  Aligned_cols=87  Identities=10%  Similarity=-0.108  Sum_probs=46.1

Q ss_pred             CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhccc----------HhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc
Q 046547          255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECRE----------YILAGKTVMGMTERGFIPYIKVRQKVVEGLAG  324 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  324 (343)
                      .+.+++|.+.++...+.. +-+...|..+-.++...++          +++|+..|++..+.. +-+...|..+..+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            344555555555555422 1133344444444444443          346666666665543 1145556666666665


Q ss_pred             c-----------CChhHHHHHHHHHHhhcC
Q 046547          325 V-----------GEWKLATVVRQRFAELKS  343 (343)
Q Consensus       325 ~-----------g~~~~a~~~~~~m~~~~~  343 (343)
                      .           |++++|++.|++..++++
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            5           367777777777666653

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.71  E-value=0.0071  Score=53.39  Aligned_cols=88  Identities=5%  Similarity=-0.074  Sum_probs=67.6

Q ss_pred             cCCChhHHHHHHHHHHhc--CCCCC----chhHHHHHHHHHHhCccHHHHHHHHHHHHHc-----C-CCCc-hhhHHHHH
Q 046547          218 TARKTNDAVEMMKEMVLN--MGLMP----RQGMVIKVAAALRANREMWKAVEMIEFLERK-----G-CPIG-FQGYEVVV  284 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~--~~~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~li  284 (343)
                      ..|++++|+.++++..+.  .-+.|    ...+++.|..+|...|++++|..++++..+-     | -.|+ ..+|+.|-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            457889999999886642  12222    2477999999999999999999999987642     2 2344 34788999


Q ss_pred             HHHHhcccHhHHHHHHHHHhH
Q 046547          285 EGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       285 ~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.65  E-value=0.037  Score=47.23  Aligned_cols=74  Identities=7%  Similarity=-0.152  Sum_probs=53.9

Q ss_pred             CCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHH
Q 046547          239 MPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQ  316 (343)
Q Consensus       239 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  316 (343)
                      +.+..+|.++...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+++....  .|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            4566777777666666788888888888888754  67666666667777888888888888877654  46666653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.58  E-value=0.024  Score=41.67  Aligned_cols=82  Identities=18%  Similarity=0.154  Sum_probs=54.2

Q ss_pred             ChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCC-c-h-hhHHHHHHHHHhcccHh
Q 046547          221 KTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR---EMWKAVEMIEFLERKGCPI-G-F-QGYEVVVEGCLECREYI  294 (343)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p-~-~-~~~~~li~~~~~~g~~~  294 (343)
                      ....+.+-|.+.... +. ++..+...+..++++.+   +.+++..++++..+.. .| + . ..|+ |--+|.+.|+++
T Consensus        13 ~l~~~~~~y~~e~~~-~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~-LAv~~~kl~~Y~   88 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFY-LAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHHHT-TC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHH-HHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHHcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHH-HHHHHHHccCHH
Confidence            345566666666542 33 67777777777888877   6668888888877754 24 1 1 2333 344567888888


Q ss_pred             HHHHHHHHHhHC
Q 046547          295 LAGKTVMGMTER  306 (343)
Q Consensus       295 ~a~~~~~~m~~~  306 (343)
                      +|.++++.+.+.
T Consensus        89 ~A~~y~~~lL~i  100 (152)
T 1pc2_A           89 KALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            888888887764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.55  E-value=0.017  Score=51.05  Aligned_cols=61  Identities=13%  Similarity=0.040  Sum_probs=26.4

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhc-----CCCCCc-hhHHHHHHHHHHhCccHHHHHHHHHH
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLN-----MGLMPR-QGMVIKVAAALRANREMWKAVEMIEF  267 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~  267 (343)
                      .+++.+..+|...|++++|+.++++...-     ..-.|+ ..+++.|-..|...|++++|..++++
T Consensus       330 ~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~  396 (429)
T 3qwp_A          330 KVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRL  396 (429)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            34444555555555555555444443310     011111 23344444445555555555444444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.53  E-value=0.12  Score=36.85  Aligned_cols=136  Identities=14%  Similarity=0.033  Sum_probs=77.6

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      .+++..++..+...   ..+..-||.+|--....-+=+-..++++...+.   .|.          ..+|+......-+-
T Consensus        22 ~v~qGveii~k~~~---ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~C~~   85 (172)
T 1wy6_A           22 YIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVECGV   85 (172)
T ss_dssp             CHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHcC---CCCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHHHHH
Confidence            46666666666554   224445555555555555555555555554432   221          12333333333333


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      .+-      .+....+.-+..+...|+-|+-.+++.++.. +.+|++...-.+-.+|.+.|+..+|.+++.+..++|++
T Consensus        86 ~~n------~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           86 INN------TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HTT------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             Hhc------chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            222      1334556666777777777777777777543 34556666666777788888888888888887777764

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.42  E-value=0.05  Score=46.44  Aligned_cols=68  Identities=7%  Similarity=-0.219  Sum_probs=59.3

Q ss_pred             CCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          274 PIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       274 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      ..+..+|.++...+...|++++|...++++...+  |+...|..+-..+.-.|++++|.+.+++..++.|
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            4567788888777777899999999999999886  8888888888999999999999999999888764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.41  E-value=0.13  Score=49.17  Aligned_cols=179  Identities=11%  Similarity=-0.014  Sum_probs=106.6

Q ss_pred             cCCChHHHHH-HHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHH
Q 046547          112 SLHPLPLALA-ILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEA  190 (343)
Q Consensus       112 ~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a  190 (343)
                      ..+++++|.+ ++..     + |+......++..+ ...+..++|.++.+.       |.     .-.......|+++.|
T Consensus       611 ~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l-~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A  671 (814)
T 3mkq_A          611 LRGEIEEAIENVLPN-----V-EGKDSLTKIARFL-EGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLA  671 (814)
T ss_dssp             HTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHH-HHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHH
T ss_pred             HhCCHHHHHHHHHhc-----C-CchHHHHHHHHHH-HhCCChHHheecCCC-------cc-----hheehhhhcCCHHHH
Confidence            3478888876 5522     1 1011224555444 444567777765532       11     112345678999999


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       191 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .++.+.+      .+...|..+...+.+.|+++.|.+.|..+..          |..+...+...++.+...++.+....
T Consensus       672 ~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          672 RDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             HHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            8886544      3577899999999999999999999998762          55666666667777776666665555


Q ss_pred             cCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC--------CCCCCH----HHHHHHHHHHhccCChhHH
Q 046547          271 KGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER--------GFIPYI----KVRQKVVEGLAGVGEWKLA  331 (343)
Q Consensus       271 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------g~~p~~----~~~~~li~~~~~~g~~~~a  331 (343)
                      .|      -++.-...|.+.|++++|.+++.++...        ...|..    ......-..+...|+.+.|
T Consensus       736 ~~------~~~~A~~~~~~~g~~~~a~~~~~~~~~~~~A~~lA~~~~~~~~~i~~~~~~~~~~L~~~~~~~~a  802 (814)
T 3mkq_A          736 TG------KFNLAFNAYWIAGDIQGAKDLLIKSQRFSEAAFLGSTYGLGDNEVNDIVTKWKENLILNGKNTVS  802 (814)
T ss_dssp             TT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             cC------chHHHHHHHHHcCCHHHHHHHHHHcCChHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccchhHH
Confidence            43      2233344455666666666666554321        122333    3444444555566664433

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.36  E-value=0.011  Score=44.03  Aligned_cols=58  Identities=12%  Similarity=0.035  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC-----------ccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN-----------REMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      ++|+..|++..+-  -+-+...|..+-.+|...           |++++|.+.|++..+  +.|+...|..-+
T Consensus        63 ~eAi~~le~AL~l--dP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al  131 (158)
T 1zu2_A           63 QEAITKFEEALLI--DPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            4555555555531  111334455555555544           366666666666665  455555444333

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.34  E-value=0.024  Score=54.24  Aligned_cols=151  Identities=9%  Similarity=-0.060  Sum_probs=96.6

Q ss_pred             CchhHHHH-HHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHH
Q 046547          150 CQSQSVAD-ILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEM  228 (343)
Q Consensus       150 ~~~~~a~~-~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  228 (343)
                      +++++|.+ ++..     ++ +......++..+.+.|.++.|.++.++       |.     .-.......|++++|.++
T Consensus       613 ~~~~~a~~~~l~~-----i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          613 GEIEEAIENVLPN-----VE-GKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLARDL  674 (814)
T ss_dssp             TCHHHHHHHTGGG-----CC-CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHhc-----CC-chHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHHHHH
Confidence            46777766 4422     11 122337778888889999999876632       11     113345667999999998


Q ss_pred             HHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC
Q 046547          229 MKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       229 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                      .+.+       .+...|..+...+.+.++++.|.+.|..+.+         |..+...|...|+.+...++-+.....|-
T Consensus       675 ~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~  738 (814)
T 3mkq_A          675 LTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK  738 (814)
T ss_dssp             HTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc
Confidence            6543       3667999999999999999999999998753         33444555556666666665555554441


Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          309 IPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       309 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                            ++....+|.+.|++++|.+++.++.+
T Consensus       739 ------~~~A~~~~~~~g~~~~a~~~~~~~~~  764 (814)
T 3mkq_A          739 ------FNLAFNAYWIAGDIQGAKDLLIKSQR  764 (814)
T ss_dssp             ------HHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             ------hHHHHHHHHHcCCHHHHHHHHHHcCC
Confidence                  23333445555566666555555443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.28  E-value=0.017  Score=38.82  Aligned_cols=58  Identities=12%  Similarity=0.089  Sum_probs=48.1

Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCC-chh-hHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPI-GFQ-GYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      ....+.+.|++++|...+++..+.  .| +.. .+..+-..|...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            455678899999999999998874  34 445 77788888999999999999999988764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.24  E-value=0.032  Score=38.21  Aligned_cols=66  Identities=6%  Similarity=-0.095  Sum_probs=50.8

Q ss_pred             chhHHHHHHHHHHhCccHHHHHHHHHHHHHcC------CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          241 RQGMVIKVAAALRANREMWKAVEMIEFLERKG------CPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       241 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +..-+-.|-..+.+.++++.|...|+...+.-      -.+....+..|..+|.+.|+++.|..++++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44556677888889999999999998876531      1234567888888899999999999999888764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.05  E-value=0.016  Score=38.86  Aligned_cols=81  Identities=9%  Similarity=-0.073  Sum_probs=59.8

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCchh-HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHh
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG-MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLE  289 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~  289 (343)
                      ....+...|++++|+..|++..+.  .+.+.. .+..+-.++...|++++|.+.|++..+.  .|+.. .+..       
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~-------   74 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--NPDSPALQAR-------   74 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHHH-------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHH-------
Confidence            456778899999999999999863  233556 8888999999999999999999999874  34432 2211       


Q ss_pred             cccHhHHHHHHHHHh
Q 046547          290 CREYILAGKTVMGMT  304 (343)
Q Consensus       290 ~g~~~~a~~~~~~m~  304 (343)
                       +.+.++...|++..
T Consensus        75 -~~~~~a~~~~~~~~   88 (99)
T 2kc7_A           75 -KMVMDILNFYNKDM   88 (99)
T ss_dssp             -HHHHHHHHHHCCTT
T ss_pred             -HHHHHHHHHHHHHh
Confidence             55666666665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.68  E-value=0.075  Score=35.52  Aligned_cols=67  Identities=7%  Similarity=-0.091  Sum_probs=51.3

Q ss_pred             CCchhHHHHHHHHHHhCcc---HHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          239 MPRQGMVIKVAAALRANRE---MWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       239 ~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +.|...+..+..++...++   .++|..++++..+.  .|+ ......+-..+.+.|++++|...|+++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4566777788887765554   78999999998873  454 4466666677889999999999999998764

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.40  E-value=0.38  Score=36.29  Aligned_cols=129  Identities=10%  Similarity=0.018  Sum_probs=90.4

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ....+.|+++.|.++-+++      -+...|..|-......|+++-|.+.|.....          +..+.-.|.-.|+.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCH
Confidence            3456788999998887765      3678899999999999999999999888752          56676777778888


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          259 WKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                      +...++-+.....|      -++.-...+...|+++++.++|.+.   |-.|....      .....|-.+.|.++.+++
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            77776666655544      3455666777889999999998643   43332111      122256677777776654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.38  E-value=0.54  Score=35.45  Aligned_cols=125  Identities=10%  Similarity=-0.074  Sum_probs=92.0

Q ss_pred             hccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHH
Q 046547          147 ERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAV  226 (343)
Q Consensus       147 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  226 (343)
                      +.| +++.|.++.+++      -+...|..|-......|+++-|.+.|....+         +..+.-.|...|+.++..
T Consensus        17 ~lg-~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           17 EYG-NLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HTT-CHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             hcC-CHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            444 699999988765      4678999999999999999999999998764         456666777788888877


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHH
Q 046547          227 EMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGM  303 (343)
Q Consensus       227 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  303 (343)
                      ++-+....+ |      -++.-...+.-.|+++++.++|.+   .|.-|....      .....|..+.|.++.+++
T Consensus        81 kla~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~---~~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAE---GGSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHH---TTCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHH---CCChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            776665543 3      366777778889999999999864   333332221      122366678888888766

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.20  E-value=0.2  Score=35.42  Aligned_cols=87  Identities=18%  Similarity=0.129  Sum_probs=45.6

Q ss_pred             hcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH---HHHHHHHHHHcCCCC-chhhHH-HHHHHHHhcc
Q 046547          217 STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK---AVEMIEFLERKGCPI-GFQGYE-VVVEGCLECR  291 (343)
Q Consensus       217 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~g~~p-~~~~~~-~li~~~~~~g  291 (343)
                      ........+.+-|...... |. |+..+--.+..++++..+...   ++.++++..+.+ .| ...-|. .|--++.+.|
T Consensus        12 ~~~~~l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg   88 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLK   88 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhh
Confidence            3333444455555554432 32 555555556666666654444   666666665542 12 222222 2333566777


Q ss_pred             cHhHHHHHHHHHhHC
Q 046547          292 EYILAGKTVMGMTER  306 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~  306 (343)
                      ++++|.+.++.+.+.
T Consensus        89 ~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           89 EYEKALKYVRGLLQT  103 (126)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHh
Confidence            777777777766654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.00  E-value=0.5  Score=34.69  Aligned_cols=80  Identities=13%  Similarity=0.133  Sum_probs=41.9

Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCC---ChhHHHHHHHHHHhcCCCCC--chhHHHHHHHHHHhCccHHHHH
Q 046547          188 VEAAKVLKGMSSAECVPDLESYSIVIGAMSTAR---KTNDAVEMMKEMVLNMGLMP--RQGMVIKVAAALRANREMWKAV  262 (343)
Q Consensus       188 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~  262 (343)
                      ..+.+-|.+..+.|. ++..+-..+-.++++++   +.++++.++++..++ . .|  ....+-.|--+|.+.|++++|.
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            344444554444443 45555555555666665   444666666666643 2 22  1223333444456666666666


Q ss_pred             HHHHHHHH
Q 046547          263 EMIEFLER  270 (343)
Q Consensus       263 ~~~~~m~~  270 (343)
                      +.++.+.+
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66666665

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.96  E-value=0.93  Score=37.24  Aligned_cols=62  Identities=11%  Similarity=0.074  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHcc-----CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcC-CChhHHHHHHHHHHh
Q 046547          173 TCNYLVSSLCAI-----DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTA-RKTNDAVEMMKEMVL  234 (343)
Q Consensus       173 ~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~  234 (343)
                      .|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+.+.+.+.+++...
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~  268 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALA  268 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHc
Confidence            455555555552     55555555555555432211234444445555543 555555555555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.84  E-value=0.72  Score=33.02  Aligned_cols=138  Identities=14%  Similarity=0.059  Sum_probs=101.1

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      .|.+++..+++.+.....   +..-||-+|--....- +-+-..++++..   |--.|.          ..+|++..+..
T Consensus        20 dG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a-~C~y~v~vLd~I---GkiFDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESI-DCRYMFQVLDKI---GSYFDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHC-CHHHHHHHHHHH---GGGSCG----------GGCSCTHHHHH
T ss_pred             hhhHHHHHHHHHHHcCCC---Cccccceeeeecchhh-chhHHHHHHHHH---hhhcCc----------HhhhcHHHHHH
Confidence            589999999999987643   5556777776555543 344455555554   334443          24566666666


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      .+-.+-     .+....+..++.+...|+-|+-.+++.++..  ..+|++...-.+..||.+.|+..+|.+++.+.-+.|
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            665543     2456677888999999999999999999763  667888888899999999999999999999999988


Q ss_pred             CC
Q 046547          273 CP  274 (343)
Q Consensus       273 ~~  274 (343)
                      ++
T Consensus       156 ~k  157 (172)
T 1wy6_A          156 EK  157 (172)
T ss_dssp             CH
T ss_pred             hH
Confidence            75

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.84  E-value=0.17  Score=34.38  Aligned_cols=62  Identities=10%  Similarity=0.007  Sum_probs=30.9

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcC-----CCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNM-----GLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +-.|-..+...|+++.|..+|+......     .-.+....+..|..++.+.|+++.|...+++..+
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3344455555555555555555544310     0112344455555555666666666666655554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.18  E-value=0.65  Score=31.16  Aligned_cols=63  Identities=16%  Similarity=0.183  Sum_probs=43.2

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      +.-++.+-+..+....+.|+..+..+.+++|-+.+++.-|.++|+.++.|.|  +...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            4555666666777777777777777777777777777777777777775433  33455666664

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.07  E-value=0.8  Score=30.36  Aligned_cols=47  Identities=9%  Similarity=0.022  Sum_probs=20.8

Q ss_pred             hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          222 TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .++|..++++...  --+-+......+-..+.+.|++++|...|+.+.+
T Consensus        25 ~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           25 TDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445555544442  1122233344444444455555555555555444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.89  E-value=1.5  Score=41.29  Aligned_cols=124  Identities=10%  Similarity=0.023  Sum_probs=71.9

Q ss_pred             HHHHHHHhcCCC-hhHHHHHHHHHHhcCCCCCchhH--HHHHHHHHHhCc-cHHHHHHHHHHHHHc------CCCCchh-
Q 046547          210 SIVIGAMSTARK-TNDAVEMMKEMVLNMGLMPRQGM--VIKVAAALRANR-EMWKAVEMIEFLERK------GCPIGFQ-  278 (343)
Q Consensus       210 ~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~--~~~li~~~~~~~-~~~~a~~~~~~m~~~------g~~p~~~-  278 (343)
                      ..++..+...++ .+.|..+|+++..+   .|...+  ...+|..+.+.+ +--+|.+++.+..+.      ...+... 
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            445555555666 47788888888764   233222  223333333332 222445555444321      1221111 


Q ss_pred             -------hHHHH---HHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHHHhccCChhHHHHHHHHH
Q 046547          279 -------GYEVV---VEGCLECREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLAGVGEWKLATVVRQRF  338 (343)
Q Consensus       279 -------~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  338 (343)
                             .+..|   .+.+...|+++.|+++-++....  .| +..+|..|..+|...|+++.|.-.++.+
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                   11111   23366788899999888887754  34 5888999999999999999988777654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=92.77  E-value=1.2  Score=31.61  Aligned_cols=64  Identities=14%  Similarity=0.126  Sum_probs=49.9

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      |.-+..+-+..+....+.|+..+..+.+++|-+.+++.-|.++|+-++.|  +.+...+|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHHH
Confidence            45566777777777888899999999999999999999999999988864  34446678777753

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.50  E-value=2.3  Score=31.05  Aligned_cols=104  Identities=10%  Similarity=-0.023  Sum_probs=60.2

Q ss_pred             ChhhHHHHHHHHhhcCCCh------HHHHHHHHHHHhcCCCccHHH----H--HHHHHHHHhccCchhHHHHHHHHHHhc
Q 046547           98 PKIAYDYLLSYTLQSLHPL------PLALAILQRTLRSGCVPVPQI----R--LLLSSAWLERRCQSQSVADILLEMKSI  165 (343)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~~----~--~~li~~~~~~~~~~~~a~~~~~~m~~~  165 (343)
                      |..+|-..+. ...+.|+.      ++..++|++.... ++|+...    |  --+--+.....+++++|.++|+.+.+.
T Consensus        12 ~yd~W~~yl~-llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLL-KLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHH-HHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4556666665 45555777      7777888877653 5565311    1  111111112224677778888777654


Q ss_pred             CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC
Q 046547          166 GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP  204 (343)
Q Consensus       166 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  204 (343)
                      +-+- ...|-..-..=.+.|++.+|.+++......+..|
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            3222 4444444444556778888888887777766554

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=92.37  E-value=0.35  Score=39.71  Aligned_cols=86  Identities=14%  Similarity=0.059  Sum_probs=40.8

Q ss_pred             hHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhc-----CCChHHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHhccCch
Q 046547           80 KVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQS-----LHPLPLALAILQRTLRSGCVP--VPQIRLLLSSAWLERRCQS  152 (343)
Q Consensus        80 ~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~-----~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~  152 (343)
                      ..+..+++...++.|.-.+...|..+-. +|..     -|+.++|.+.|++..+.+  |  +..++...-..+|...++.
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~-lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTK-FYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHH-HHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHH-HHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHhcCCH
Confidence            3344444444444332222344544443 4444     256666666666665532  3  2344444444444433345


Q ss_pred             hHHHHHHHHHHhcCCc
Q 046547          153 QSVADILLEMKSIGYH  168 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~  168 (343)
                      +++.+.+++.......
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            5566666666554433

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.97  E-value=2.7  Score=30.69  Aligned_cols=53  Identities=11%  Similarity=-0.053  Sum_probs=24.4

Q ss_pred             ccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          256 REMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       256 ~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      +++++|.++|+.+++.+-+- ...|....+.=.+.|+...|.+++......+..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            45555555555554431111 223333333344555555555555555554433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.85  E-value=0.72  Score=39.92  Aligned_cols=67  Identities=9%  Similarity=0.027  Sum_probs=40.2

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH-----cCCCCchhh
Q 046547          211 IVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER-----KGCPIGFQG  279 (343)
Q Consensus       211 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~  279 (343)
                      .++.++...|++++|+..+..+..  ..+-+...|..+|.++.+.|+..+|++.|+...+     .|+.|+..+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~--~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            344555566666666666666653  3344556666666666666666666666665442     366665544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.65  E-value=2.3  Score=30.02  Aligned_cols=81  Identities=16%  Similarity=0.173  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhH---HHHHHHHHHhcCCCCC--chhHHHHHHHHHHhCccHHHH
Q 046547          187 LVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTND---AVEMMKEMVLNMGLMP--RQGMVIKVAAALRANREMWKA  261 (343)
Q Consensus       187 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a  261 (343)
                      +..+.+-|.+....|. |+..+--.+..+++++.+...   ++.+++++... + .|  .....-.|.-++.+.|++++|
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3334444444433332 444444445555555555444   56666665532 2 12  112222334455566666666


Q ss_pred             HHHHHHHHH
Q 046547          262 VEMIEFLER  270 (343)
Q Consensus       262 ~~~~~~m~~  270 (343)
                      .+.++.+.+
T Consensus        94 ~~~~~~lL~  102 (126)
T 1nzn_A           94 LKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666655

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.11  E-value=2.7  Score=39.68  Aligned_cols=129  Identities=15%  Similarity=0.088  Sum_probs=80.1

Q ss_pred             hhHHHHHHHHhhcCCC-hHHHHHHHHHHHhcCCCccHHHH--HHHHHHHHhccCchhHHHHHHHHHHhc------CCcc-
Q 046547          100 IAYDYLLSYTLQSLHP-LPLALAILQRTLRSGCVPVPQIR--LLLSSAWLERRCQSQSVADILLEMKSI------GYHP-  169 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~--~~li~~~~~~~~~~~~a~~~~~~m~~~------g~~~-  169 (343)
                      .....++. ++...++ .+.|..+|+++.+..  |...++  ..++..+...+..--+|.+++.+..+.      ...+ 
T Consensus       249 ~L~~~Ll~-~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~  325 (754)
T 4gns_B          249 YLMYSLKS-FIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPR  325 (754)
T ss_dssp             HHHHHHHH-HHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHH-HHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccc
Confidence            34456665 5665666 588999999998865  543332  233332222221122455555444321      1111 


Q ss_pred             CH----------hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHH
Q 046547          170 DC----------GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPD-LESYSIVIGAMSTARKTNDAVEMMKEMV  233 (343)
Q Consensus       170 ~~----------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~  233 (343)
                      +.          ...+.-...+...|+++.|+++-++....  .|+ -.+|..|..+|...|+++.|+-.++.+.
T Consensus       326 ~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          326 DADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            11          11222234566789999999999988764  455 6789999999999999999999988873

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.54  E-value=1.4  Score=38.12  Aligned_cols=127  Identities=14%  Similarity=-0.005  Sum_probs=84.4

Q ss_pred             CHhhHHHHHHHHH---ccCcHHHHHHHHHHhhhC--CC-CCCHhhHHHHHHHHhcCCChh-HHHHHHHHHHhcCCCCCch
Q 046547          170 DCGTCNYLVSSLC---AIDQLVEAAKVLKGMSSA--EC-VPDLESYSIVIGAMSTARKTN-DAVEMMKEMVLNMGLMPRQ  242 (343)
Q Consensus       170 ~~~~~~~ll~~~~---~~~~~~~a~~~~~~m~~~--~~-~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~m~~~~~~~p~~  242 (343)
                      |...|..++....   ..|+.+.|...+++....  |- -++..           ...|- ....-+++...        
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~-----------~~~w~~~~r~~l~~~~~--------  171 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQFVEPFATALVEDKV--------  171 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTTHHHHHHHHHHHHH--------
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC-----------chhHHHHHHHHHHHHHH--------
Confidence            4445555554332   357888888888877653  31 11111           11221 11223333332        


Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH-----CCCCCCHHHHH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE-----RGFIPYIKVRQ  316 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~  316 (343)
                      .+...++.++...|+.++|...+..+... -+.+...|..+|.++.+.|+..+|++.|++...     -|+.|...+-.
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            24556788889999999999999988763 234677999999999999999999999998654     39999887643

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=89.80  E-value=3.2  Score=27.84  Aligned_cols=61  Identities=20%  Similarity=0.213  Sum_probs=33.3

Q ss_pred             hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          222 TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      .-+..+-++.+.. ..+.|++.+..+.+++|-+-+++..|.++++-.+.+ +.+...+|..++
T Consensus        26 ~~e~rrglN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~l   86 (109)
T 1v54_E           26 AWELRKGMNTLVG-YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHHHTT-SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHH
Confidence            3345555555554 456666666666666666666666666666655543 122233455544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.65  E-value=8.2  Score=33.97  Aligned_cols=48  Identities=17%  Similarity=0.140  Sum_probs=24.8

Q ss_pred             chhHHHHHHHHHHhc-----CCccCHhhHHHHHHHHHccCcHHHHHHHHHHhh
Q 046547          151 QSQSVADILLEMKSI-----GYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMS  198 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~-----g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  198 (343)
                      +++.|.+.+-.+.+.     +...+......++..|...|+++...+.+.-+.
T Consensus        31 ~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Ls   83 (445)
T 4b4t_P           31 DCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLS   83 (445)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            355565555444321     122234445556666666666666655555443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=88.21  E-value=5.2  Score=28.46  Aligned_cols=60  Identities=20%  Similarity=0.213  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      -+..+-++.+.. ..+.|++.+..+.+++|-+-+++..|.++|+-.+.+ +.+...+|..++
T Consensus        70 wElrrglN~l~~-~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           70 WELRKGMNTLVG-YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHTT-SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            344445555554 456666666666666666666666666666655543 222333455544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.21  E-value=20  Score=34.83  Aligned_cols=232  Identities=11%  Similarity=-0.004  Sum_probs=116.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCC-------CccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhH
Q 046547          102 YDYLLSYTLQSLHPLPLALAILQRTLRSGC-------VPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTC  174 (343)
Q Consensus       102 ~~~li~~~~~~~~~~~~a~~~~~~m~~~~~-------~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  174 (343)
                      -.+++.......|..+++..++.......-       .+....-.++--+++..|..-+++.+.+..+....- +.....
T Consensus       413 ~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~  491 (963)
T 4ady_A          413 GGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEA  491 (963)
T ss_dssp             HHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHH
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHH
Confidence            444443334455555667777776554321       011111222222333333333566666666654321 111112


Q ss_pred             H--HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHH--HH
Q 046547          175 N--YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKV--AA  250 (343)
Q Consensus       175 ~--~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l--i~  250 (343)
                      .  .|-..+...|+.+....++..+.+.. .-+..-+.++--++...|+.+.+..+.+.+..  ...|...--.++  .-
T Consensus       492 AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~--~~dp~vRygaa~algl  568 (963)
T 4ady_A          492 AALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLA--SDESLLRYGGAFTIAL  568 (963)
T ss_dssp             HHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHH--CSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHh--CCCHHHHHHHHHHHHH
Confidence            2  22233456677777777777666532 11222233333444577888888888888875  223333322223  33


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCCh-h
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEW-K  329 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~  329 (343)
                      +|+..|+.....++++.+.+.. ..+......+--++...|+.+.+.++++.+.+.+ .|...--..+.-+....|.. .
T Consensus       569 AyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~  646 (963)
T 4ady_A          569 AYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQ  646 (963)
T ss_dssp             HTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCH
T ss_pred             HhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcH
Confidence            5667778877777888877642 2233333333334555666666666666555543 34444434444444444443 4


Q ss_pred             HHHHHHHHHH
Q 046547          330 LATVVRQRFA  339 (343)
Q Consensus       330 ~a~~~~~~m~  339 (343)
                      +|...+..+.
T Consensus       647 ~aid~L~~L~  656 (963)
T 4ady_A          647 SAIDVLDPLT  656 (963)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            5555555543

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=87.93  E-value=4.2  Score=32.65  Aligned_cols=212  Identities=13%  Similarity=0.017  Sum_probs=99.9

Q ss_pred             HHHHHHhCccCcchHHHHHHHchhcCCCCC--hHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcC
Q 046547           36 ETVRAAVDAKDYQQIPELLGSFEEACQNPN--PFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSL  113 (343)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~  113 (343)
                      ..+...++.|+.+.+..+++.-.......+  -.+-+...+..+..+.++.+++....  ...+|....+.+..  .+..
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~--~~~~~~~g~t~L~~--A~~~   82 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGAD--PVLRKKNGATPFLL--AAIA   82 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCC--TTCCCTTCCCHHHH--HHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCC--CcccCCCCCCHHHH--HHHc
Confidence            345556667777666655554221111111  12446666677888888777776432  22233333444442  3334


Q ss_pred             CChHHHHHHHHHHHhcCCCccH---HHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhh------------HHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVPVP---QIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGT------------CNYLV  178 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~------------~~~ll  178 (343)
                      |+.+    +++.+.+.|..++.   ..++.+..+ +..+ ..+    +++.+.+.|..++...            -...+
T Consensus        83 ~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A-~~~~-~~~----~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t~L  152 (285)
T 1wdy_A           83 GSVK----LLKLFLSKGADVNECDFYGFTAFMEA-AVYG-KVK----ALKFLYKRGANVNLRRKTKEDQERLRKGGATAL  152 (285)
T ss_dssp             TCHH----HHHHHHHTTCCTTCBCTTCCBHHHHH-HHTT-CHH----HHHHHHHTTCCTTCCCCCCHHHHHTTCCCCCHH
T ss_pred             CCHH----HHHHHHHcCCCCCccCcccCCHHHHH-HHhC-CHH----HHHHHHHhCCCcccccccHHHHHhhccCCCcHH
Confidence            6654    34444455655432   233444433 4443 343    4445555665554321            11233


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCC---HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhH--HHHHHHHHH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPD---LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGM--VIKVAAALR  253 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~--~~~li~~~~  253 (343)
                      ...+..|+.+-+..+++..   |..++   ....+.+..+ +..++.....++++.+.+ .|..++...  -.+.+...+
T Consensus       153 ~~A~~~~~~~~v~~Ll~~~---~~~~~~~~~~g~t~l~~a-~~~~~~~~~~~i~~~Ll~-~g~~~~~~~~~g~t~L~~A~  227 (285)
T 1wdy_A          153 MDAAEKGHVEVLKILLDEM---GADVNACDNMGRNALIHA-LLSSDDSDVEAITHLLLD-HGADVNVRGERGKTPLILAV  227 (285)
T ss_dssp             HHHHHHTCHHHHHHHHHTS---CCCTTCCCTTSCCHHHHH-HHCSCTTTHHHHHHHHHH-TTCCSSCCCTTSCCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHhc---CCCCCccCCCCCCHHHHH-HHccccchHHHHHHHHHH-cCCCCCCcCCCCCcHHHHHH
Confidence            4445566665544444321   33332   2223333333 344555555666666665 366654321  112333445


Q ss_pred             hCccHHHHHHHHH
Q 046547          254 ANREMWKAVEMIE  266 (343)
Q Consensus       254 ~~~~~~~a~~~~~  266 (343)
                      +.|+.+-+..+++
T Consensus       228 ~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          228 EKKHLGLVQRLLE  240 (285)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             HcCCHHHHHHHHh
Confidence            5666655444443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.84  E-value=8.9  Score=38.37  Aligned_cols=148  Identities=12%  Similarity=0.064  Sum_probs=94.5

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc--------------
Q 046547          176 YLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR--------------  241 (343)
Q Consensus       176 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--------------  241 (343)
                      .++..+.+.+..+.+.++..-..     -+...--.+..++...|++++|.+.|.+...  |+..+              
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~--~~~~~~~l~~~~~~~~~~~  889 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL--VLYSHTSQFAVLREFQEIA  889 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC--SCTTCCCSCSSHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hhcccchhhhhhccccccc
Confidence            34445555666665555443322     2232223455677888999999999877542  33221              


Q ss_pred             ---------hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC-C-Cc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCC
Q 046547          242 ---------QGMVIKVAAALRANREMWKAVEMIEFLERKGC-P-IG--FQGYEVVVEGCLECREYILAGKTVMGMTERGF  308 (343)
Q Consensus       242 ---------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~-p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  308 (343)
                               ..=|.-++..+-+.+.++.+.++-....+..- . ++  ...|..++.++...|++++|...+-.+.+...
T Consensus       890 ~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          890 EKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             HTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             ccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence                     12356677777888888888887776665321 1 11  12577888999999999999988887776654


Q ss_pred             CCCHHHHHHHHHHHhccCChhHHH
Q 046547          309 IPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       309 ~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      +  ......|+..+|..|..+.-.
T Consensus       970 r--~~cLr~LV~~lce~~~~~~L~  991 (1139)
T 4fhn_B          970 K--KSCLLDFVNQLTKQGKINQLL  991 (1139)
T ss_dssp             C--HHHHHHHHHHHHHHCCHHHHH
T ss_pred             H--HHHHHHHHHHHHhCCChhhhh
Confidence            4  456777888888777766543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=86.44  E-value=27  Score=34.95  Aligned_cols=169  Identities=8%  Similarity=-0.116  Sum_probs=106.1

Q ss_pred             CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC-----------------------CHhhHHHHHHHHhcCCChhHHH
Q 046547          170 DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVP-----------------------DLESYSIVIGAMSTARKTNDAV  226 (343)
Q Consensus       170 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----------------------~~~~~~~ll~~~~~~~~~~~a~  226 (343)
                      ++...-.+-.+|...|++++|.+.|.+... |+..                       -..-|.-++..+-+.|.++.+.
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi  919 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDAL  919 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHH
Confidence            333334455678889999999999987531 1111                       1134677888888999999998


Q ss_pred             HHHHHHHhcCCCCC-c--hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHh---------
Q 046547          227 EMMKEMVLNMGLMP-R--QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYI---------  294 (343)
Q Consensus       227 ~~~~~m~~~~~~~p-~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~---------  294 (343)
                      ++-....+..+-.+ +  ...|..+.+++...|++++|...+-.+-+...+  ......|+...+..|..+         
T Consensus       920 ~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~L~~lpf~g  997 (1139)
T 4fhn_B          920 EFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKINQLLNYSMPT  997 (1139)
T ss_dssp             HHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHHHHHHHTTTS
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChhhhhCCCCcc
Confidence            88777665322222 1  226889999999999999999988877665443  345566666666655543         


Q ss_pred             ---HHHHHHHHHhHC--CCCCCHHHHHHHHHHHhccCChhHHHH-HHHHHHhh
Q 046547          295 ---LAGKTVMGMTER--GFIPYIKVRQKVVEGLAGVGEWKLATV-VRQRFAEL  341 (343)
Q Consensus       295 ---~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~-~~~~m~~~  341 (343)
                         +..+++..-...  .....+.-|..|-.-+...|++..|-+ +|+...++
T Consensus       998 l~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~RL 1050 (1139)
T 4fhn_B          998 LRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSRY 1050 (1139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHHh
Confidence               344444332211  111112335666666667777776554 56766665

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=85.94  E-value=3.7  Score=31.98  Aligned_cols=20  Identities=15%  Similarity=0.047  Sum_probs=11.2

Q ss_pred             hhhhhhcccchHHHHHHHHh
Q 046547           70 LSNFPQNHRIKVIDEMLESF   89 (343)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~   89 (343)
                      +...+..|..+.++.+++..
T Consensus        13 l~~A~~~g~~~~~~~Ll~~g   32 (240)
T 3eu9_A           13 IVKATQYGIYERCRELVEAG   32 (240)
T ss_dssp             HHHHHHTTCHHHHHHHHHTT
T ss_pred             HHHHHHcCChHHHHHHHHcC
Confidence            34445556666666666654

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=85.70  E-value=7.7  Score=27.54  Aligned_cols=67  Identities=15%  Similarity=0.119  Sum_probs=42.2

Q ss_pred             CCCchhHHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCC-chh-hHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          238 LMPRQGMVIKVAAALRANR---EMWKAVEMIEFLERKGCPI-GFQ-GYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       238 ~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p-~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      -.|+..+--.+..++++..   +..+++.++++..+.+  | ... ..=.|--++.+.|++++|.+..+.+.+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3455555555666666665   4456777887777654  3 222 2223455677888888888888877754

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.35  E-value=3.1  Score=33.47  Aligned_cols=242  Identities=12%  Similarity=0.036  Sum_probs=122.1

Q ss_pred             HHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccH---HHHHHHHHH
Q 046547           68 SFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVP---QIRLLLSSA  144 (343)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~  144 (343)
                      +.+...+..|..+.++.+++....... ..+...++.|.  ..+..|+.+-    ++.+.+.|..|+.   ...+.+..+
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~-~~~~~g~t~L~--~A~~~g~~~~----v~~Ll~~g~~~~~~~~~g~t~L~~A   79 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNF-QEEEGGWTPLH--NAVQMSREDI----VELLLRHGADPVLRKKNGATPFLLA   79 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTC-CCTTTCCCHHH--HHHHTTCHHH----HHHHHHTTCCTTCCCTTCCCHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCccc-ccCCCCCcHHH--HHHHcCCHHH----HHHHHHcCCCCcccCCCCCCHHHHH
Confidence            334555677888888888877543221 11222334444  3445577554    4444455655443   233444433


Q ss_pred             HHhccCchhHHHHHHHHHHhcCCccCHh---hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh-------------h
Q 046547          145 WLERRCQSQSVADILLEMKSIGYHPDCG---TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLE-------------S  208 (343)
Q Consensus       145 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-------------~  208 (343)
                       +..+ ..+    +++.+.+.|..++..   .++.+ ...+..|+.+-    ++.+.+.|..++..             -
T Consensus        80 -~~~~-~~~----~v~~Ll~~g~~~~~~~~~g~t~L-~~A~~~~~~~~----~~~Ll~~g~~~~~~~~~~~~~~~~~~~g  148 (285)
T 1wdy_A           80 -AIAG-SVK----LLKLFLSKGADVNECDFYGFTAF-MEAAVYGKVKA----LKFLYKRGANVNLRRKTKEDQERLRKGG  148 (285)
T ss_dssp             -HHHT-CHH----HHHHHHHTTCCTTCBCTTCCBHH-HHHHHTTCHHH----HHHHHHTTCCTTCCCCCCHHHHHTTCCC
T ss_pred             -HHcC-CHH----HHHHHHHcCCCCCccCcccCCHH-HHHHHhCCHHH----HHHHHHhCCCcccccccHHHHHhhccCC
Confidence             3443 443    455555667666532   23333 44456666553    44455566555432             1


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCc---hhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhh--HHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPR---QGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQG--YEVV  283 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~--~~~l  283 (343)
                      . +.+...+..|+.+-+..+++.    .|..++   ....+.+..+ +..+......++++.+.+.|..++...  -.+.
T Consensus       149 ~-t~L~~A~~~~~~~~v~~Ll~~----~~~~~~~~~~~g~t~l~~a-~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~  222 (285)
T 1wdy_A          149 A-TALMDAAEKGHVEVLKILLDE----MGADVNACDNMGRNALIHA-LLSSDDSDVEAITHLLLDHGADVNVRGERGKTP  222 (285)
T ss_dssp             C-CHHHHHHHHTCHHHHHHHHHT----SCCCTTCCCTTSCCHHHHH-HHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCH
T ss_pred             C-cHHHHHHHcCCHHHHHHHHHh----cCCCCCccCCCCCCHHHHH-HHccccchHHHHHHHHHHcCCCCCCcCCCCCcH
Confidence            2 234444555665544444332    244443   3334445444 445555555677777778887765432  1233


Q ss_pred             HHHHHhcccHhHHHHHHHHHhHCCCCCCHHH--HHHHHHHHhccCChhHHHHHHH
Q 046547          284 VEGCLECREYILAGKTVMGMTERGFIPYIKV--RQKVVEGLAGVGEWKLATVVRQ  336 (343)
Q Consensus       284 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~--~~~li~~~~~~g~~~~a~~~~~  336 (343)
                      +...++.|+.+-+..+++.   .|..++...  -.+.+...++.|+.+-+..+++
T Consensus       223 L~~A~~~~~~~~v~~Ll~~---~g~~~~~~~~~g~t~l~~A~~~~~~~i~~~Ll~  274 (285)
T 1wdy_A          223 LILAVEKKHLGLVQRLLEQ---EHIEINDTDSDGKTALLLAVELKLKKIAELLCK  274 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHHS---SSCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHhc---cCCCccccCCCCCcHHHHHHHcCcHHHHHHHHH
Confidence            4455566776655444431   455443221  1233445566677766655554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.76  E-value=11  Score=27.09  Aligned_cols=69  Identities=14%  Similarity=0.115  Sum_probs=46.2

Q ss_pred             CCCchhHHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCCchhhHH-HHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          238 LMPRQGMVIKVAAALRANR---EMWKAVEMIEFLERKGCPIGFQGYE-VVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       238 ~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      -.|+..+--.+..++++..   +..++..++++....+-. +..-|- .|--++.+.|++++|.++.+.+.+..
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~-~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAES-RRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCS-THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcc-chhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            3567777667777777776   445778888887764321 233222 34456888999999999888888753

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=82.50  E-value=7.3  Score=28.86  Aligned_cols=70  Identities=14%  Similarity=0.071  Sum_probs=40.5

Q ss_pred             CCCCCCH--hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCch-------hHHHHHHHHHHhCccHHHHHHHHHHHH
Q 046547          200 AECVPDL--ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQ-------GMVIKVAAALRANREMWKAVEMIEFLE  269 (343)
Q Consensus       200 ~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~  269 (343)
                      .|..|..  .++-.-+..+...|.++.|+-+.+.+..-.+..|+.       .++..+.+++...+++.+|...|++..
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            4555543  334445667777788888877777655422233432       345666777778888888888888754

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=80.98  E-value=23  Score=29.42  Aligned_cols=163  Identities=8%  Similarity=-0.093  Sum_probs=97.3

Q ss_pred             hhHHHHHHHHHHhcCCccC-HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHH--
Q 046547          152 SQSVADILLEMKSIGYHPD-CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEM--  228 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~--  228 (343)
                      +++.+.-++.-.+.|---. ...|.++..-|.+.+++++|.+++..-               ...+.+.|+...|-++  
T Consensus        13 ~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~g---------------a~~ll~~~Q~~sa~DLa~   77 (312)
T 2wpv_A           13 LAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQG---------------ALSFLKAKQGGSGTDLIF   77 (312)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH---------------HHHHHHCCCcchHHHHHH
Confidence            4444444444444441111 346777777777777777777665532               2345566887766554  


Q ss_pred             --HHHHHhcCCCCCchhHHHHHHHHHHhCccHH-HHHHHHHHHHH----cCC--CCchhhHHHHHHHHHhcccHhHHHHH
Q 046547          229 --MKEMVLNMGLMPRQGMVIKVAAALRANREMW-KAVEMIEFLER----KGC--PIGFQGYEVVVEGCLECREYILAGKT  299 (343)
Q Consensus       229 --~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~----~g~--~p~~~~~~~li~~~~~~g~~~~a~~~  299 (343)
                        .+...+ .+++++......++..+.....-+ .=.++++.+.+    .|-  .-+......+-..|.+.|++.+|...
T Consensus        78 llvev~~~-~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H  156 (312)
T 2wpv_A           78 YLLEVYDL-AEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERY  156 (312)
T ss_dssp             HHHHHHHH-TTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHH
Confidence              555554 689999988888888876633111 22445555543    222  22556677778889999999999887


Q ss_pred             HHHHhHCCCCCCHHHHHHHHHHHhcc---CChhHHHHH
Q 046547          300 VMGMTERGFIPYIKVRQKVVEGLAGV---GEWKLATVV  334 (343)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~a~~~  334 (343)
                      |-    .|-.-|...+..++.-+...   |...++--+
T Consensus       157 ~i----~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf  190 (312)
T 2wpv_A          157 FM----LGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEF  190 (312)
T ss_dssp             HH----TSCHHHHHHHHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             HH----hCCCccHHHHHHHHHHHHHhcCCCCcchHHHH
Confidence            75    12111355666666555555   666665443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=80.98  E-value=24  Score=29.62  Aligned_cols=159  Identities=12%  Similarity=0.014  Sum_probs=98.4

Q ss_pred             hhHHHHHHHHHHhcCCc---c-CHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHH
Q 046547          152 SQSVADILLEMKSIGYH---P-DCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVE  227 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~---~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  227 (343)
                      .++.+.=++.-.+.|--   - -..+|.++..-|.+.+++++|.+++..-               ...+.+.|+...|-+
T Consensus        12 ~~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~G---------------A~~ll~~~Q~~sg~D   76 (336)
T 3lpz_A           12 IERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASV---------------SQTLLRSGQGGSGGD   76 (336)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHH---------------HHHHHHCCCcchHHH
Confidence            34444444444454421   1 1256778888888888888888775432               234556688766655


Q ss_pred             H----HHHHHhcCCCCCchhHHHHHHHHHHhCcc--HHHHHHHHHHHHHc----C--CCCchhhHHHHHHHHHhcccHhH
Q 046547          228 M----MKEMVLNMGLMPRQGMVIKVAAALRANRE--MWKAVEMIEFLERK----G--CPIGFQGYEVVVEGCLECREYIL  295 (343)
Q Consensus       228 ~----~~~m~~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~----g--~~p~~~~~~~li~~~~~~g~~~~  295 (343)
                      +    ++-..+ .++++|......++..+.....  .+. ..+.+++.+.    |  -.-|......+-..|.+.+++.+
T Consensus        77 L~~llvevy~~-~~~~~~~~~~~rL~~L~~~~~~~~p~r-~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~  154 (336)
T 3lpz_A           77 LAVLLVDTFRQ-AGQRVDGASRGKLLGCLRLFQPGEPVR-KRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEA  154 (336)
T ss_dssp             HHHHHHHHHHH-HTCCCCHHHHHHHHHHHTTSCTTCHHH-HHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCCCCCcHH-HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHH
Confidence            4    455555 5999999988888888876653  222 4455555532    3  22345566677788999999999


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHH
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLA  331 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  331 (343)
                      |...|-  .  |-.+....|..++..+...+...++
T Consensus       155 Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~e~  186 (336)
T 3lpz_A          155 AEKHLV--L--GTKESPEVLARMEYEWYKQDESHTA  186 (336)
T ss_dssp             HHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGGGH
T ss_pred             HHHHHH--h--cCCchHHHHHHHHHHHHHhcCCccH
Confidence            998873  2  4344446775555555554444443

---

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	343
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.75
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.37
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.15
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.06
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.02
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.93
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.85
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.81
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.72
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.66
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.65
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.64
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.58
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.42
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.34
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.31
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.29
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.26
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.26
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.13
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.12
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.11
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.97
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.96
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.88
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.85
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.79
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.69
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.62
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.6
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.59
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.57
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.5
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.45
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.43
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.43
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.42
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.32
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.29
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.23
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.15
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.93
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.9
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.78
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.72
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.58
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.43
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.16
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.92
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.46
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.6
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.36
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.63
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.72
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	85.46

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=3.7e-15  Score=128.17  Aligned_cols=199  Identities=10%  Similarity=-0.055  Sum_probs=159.7

Q ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHh
Q 046547          138 RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMS  217 (343)
Q Consensus       138 ~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  217 (343)
                      +..+...+... ++.++|...++...+.. +-+...|..+...+...|++++|...+++....+. .+...+..+...+.
T Consensus       172 ~~~l~~~~~~~-~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  248 (388)
T d1w3ba_         172 WSNLGCVFNAQ-GEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYY  248 (388)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHhhccccccc-CcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHH
Confidence            33333343444 46888888888877642 23466788888999999999999999999887543 45677788889999


Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAG  297 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  297 (343)
                      +.|++++|+..|++..+  -.+-+..++..+...+...|++++|.+.++..... .+.+...+..+...+...|++++|+
T Consensus       249 ~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~  325 (388)
T d1w3ba_         249 EQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAV  325 (388)
T ss_dssp             HTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHH
Confidence            99999999999999885  33445678889999999999999999999988764 3446678888889999999999999


Q ss_pred             HHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          298 KTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       298 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      +.|++..+.. +-+..++..+...|.+.|++++|.+.|++..+++|
T Consensus       326 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         326 RLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999987653 22577888899999999999999999999988764

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=3.8e-13  Score=115.29  Aligned_cols=216  Identities=10%  Similarity=0.021  Sum_probs=175.4

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ..+..+-. .+...|+++.|...+++..+..  |+ ...+..+...+...+ ++++|...++.....+ +.+...+..+.
T Consensus       170 ~~~~~l~~-~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~-~~~~~~~~~l~  244 (388)
T d1w3ba_         170 VAWSNLGC-VFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEAR-IFDRAVAAYLRALSLS-PNHAVVHGNLA  244 (388)
T ss_dssp             HHHHHHHH-HHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTT-CTTHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHhhcc-cccccCcHHHHHHHHHHHHHhC--cccHHHHHHHhhhhhccc-cHHHHHHHHHHhHHHh-hhHHHHHHHHH
Confidence            33444443 5667899999999999988743  44 455666666666654 7999999999988764 34567788888


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ..+.+.|++++|...|++..+.. +-+..++..+...+...|++++|.+.++....  ..+.+...+..+...+.+.|++
T Consensus       245 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~  321 (388)
T d1w3ba_         245 CVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCH
Confidence            99999999999999999988754 23467888999999999999999999999885  5566778899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHHHhccCC
Q 046547          259 WKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-YIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       259 ~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~  327 (343)
                      ++|.+.|++..+  +.|+ ..++..+...|.+.|++++|.+.|++..+.  .| +...|..+...|.+.||
T Consensus       322 ~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         322 EEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            999999999887  4454 557888889999999999999999998864  45 47788999999888775

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=2.3e-12  Score=108.25  Aligned_cols=225  Identities=12%  Similarity=0.044  Sum_probs=166.7

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      +...|++++|+..|++..+..  |+ ..+|..+...+...+ ++++|...+++..+.. +-+...+..+...|...|+++
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~-~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENE-QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC-ChHHHHHHHHhhhccc-ccccccccccccccccccccc
Confidence            446699999999999998754  54 556666666666654 6999999999887753 234677888888899999999


Q ss_pred             HHHHHHHHhhhCCCCCCHh----------------hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          189 EAAKVLKGMSSAECVPDLE----------------SYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       189 ~a~~~~~~m~~~~~~~~~~----------------~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      +|.+.+++.....  |+..                .....+..+...+.+++|...+.+......-.++..++..+...+
T Consensus       105 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         105 QACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             ccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            9999999887643  2110                011112233344567778888887765323345667788888889


Q ss_pred             HhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHH
Q 046547          253 RANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLAT  332 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  332 (343)
                      ...|++++|...+++..... +-+..+|..+...|...|++++|.+.|++..+.. +-+...+..+..+|.+.|++++|+
T Consensus       183 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999987643 1245677888888999999999999999987753 225677888999999999999999


Q ss_pred             HHHHHHHhhc
Q 046547          333 VVRQRFAELK  342 (343)
Q Consensus       333 ~~~~~m~~~~  342 (343)
                      +.|++..++.
T Consensus       261 ~~~~~al~l~  270 (323)
T d1fcha_         261 EHFLEALNMQ  270 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999887764

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=3.1e-10  Score=94.89  Aligned_cols=225  Identities=14%  Similarity=0.074  Sum_probs=145.9

Q ss_pred             hhhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCH------
Q 046547           99 KIAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDC------  171 (343)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~------  171 (343)
                      ...|..+-. ++...|++++|...|++..+..  |+ ...+..+...+...+ ++++|.+.++......  |+.      
T Consensus        53 ~~a~~~lg~-~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~-~~~~A~~~~~~~~~~~--~~~~~~~~~  126 (323)
T d1fcha_          53 MEAWQYLGT-TQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNES-LQRQACEILRDWLRYT--PAYAHLVTP  126 (323)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTS--TTTGGGCC-
T ss_pred             HHHHHHHHH-HHHHcCChHHHHHHHHhhhccc--cccccccccccccccccc-cccccccchhhHHHhc--cchHHHHHh
Confidence            344444443 5555667777777777666532  32 334444444554543 4666776666665431  111      


Q ss_pred             ----------hhHHHHHHHHHccCcHHHHHHHHHHhhhCC-CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC
Q 046547          172 ----------GTCNYLVSSLCAIDQLVEAAKVLKGMSSAE-CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP  240 (343)
Q Consensus       172 ----------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p  240 (343)
                                ......+..+...+.+++|.+.|.+..+.. -.++..++..+...+...|++++|+..|++....  .+-
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~  204 (323)
T d1fcha_         127 AEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPN  204 (323)
T ss_dssp             --------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             hhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccc
Confidence                      011112233444566778888887766533 2345667788888888999999999999998752  233


Q ss_pred             chhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC----------CCC
Q 046547          241 RQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTER----------GFI  309 (343)
Q Consensus       241 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----------g~~  309 (343)
                      +..+|..+..+|.+.|++++|.+.|++..+.  .| +..+|..+...|.+.|++++|++.|++..+.          ...
T Consensus       205 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~  282 (323)
T d1fcha_         205 DYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGA  282 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCC
T ss_pred             cccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHH
Confidence            5677888889999999999999999988874  34 3557778888899999999999999887652          111


Q ss_pred             CCHHHHHHHHHHHhccCChhHHHH
Q 046547          310 PYIKVRQKVVEGLAGVGEWKLATV  333 (343)
Q Consensus       310 p~~~~~~~li~~~~~~g~~~~a~~  333 (343)
                      .....|..+-.++...|+.+.+..
T Consensus       283 ~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         283 MSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             CCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHH
Confidence            123456666677777777766544

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.15  E-value=1.9e-08  Score=83.36  Aligned_cols=186  Identities=10%  Similarity=-0.026  Sum_probs=107.0

Q ss_pred             hhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHH
Q 046547          152 SQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKE  231 (343)
Q Consensus       152 ~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  231 (343)
                      .++|..+|+...+...+.+...|........+.|+++.|..+|+++.+........+|...+..+.+.|+.+.|.++|+.
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            35566666666554333444555666666666677777777777766543222234566666666666777777777777


Q ss_pred             HHhcCCCCCchhHHHHHHHH-HHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC-CC
Q 046547          232 MVLNMGLMPRQGMVIKVAAA-LRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG-FI  309 (343)
Q Consensus       232 m~~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~  309 (343)
                      ...  ..+.+...|...... +...|+.+.|..+|+.+.+. .+.+...|...+..+.+.|+++.|..+|++..... ..
T Consensus       160 al~--~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         160 ARE--DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHT--STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHH--hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            663  222233333332222 23346667777777766653 22234556666666667777777777777765542 33


Q ss_pred             CC--HHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          310 PY--IKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       310 p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      |+  ...|...+.--...|+.+.+.++++++.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32  33555555555566777777777766654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=6.2e-08  Score=80.20  Aligned_cols=188  Identities=9%  Similarity=-0.072  Sum_probs=140.1

Q ss_pred             ChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHH
Q 046547          115 PLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVL  194 (343)
Q Consensus       115 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~  194 (343)
                      ..++|..+|++..+...+-+...|.......-.. +..+.|..+|+.+.+.........|...+..+.+.|+++.|.++|
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~-~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESR-MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhc-ccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4578888999988754444555566666554454 468999999999887543333457888899999999999999999


Q ss_pred             HHhhhCCCCCCHhhHHHHHH-HHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC-
Q 046547          195 KGMSSAECVPDLESYSIVIG-AMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG-  272 (343)
Q Consensus       195 ~~m~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-  272 (343)
                      ++..+.+.. +...|..... -+...|+.+.|..+|+.+..  ..+.+...|...+..+.+.|+.+.|..+|++..... 
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~--~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLK--KYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHH--HHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHH--hhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            998876532 3333333332 34456889999999999986  345567789999999999999999999999987753 


Q ss_pred             CCCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          273 CPIG--FQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       273 ~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      ..|+  ...|...+..-...|+.+.+.++++++.+.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4443  346788888778889999999999987653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.02  E-value=4.7e-08  Score=81.20  Aligned_cols=227  Identities=4%  Similarity=-0.047  Sum_probs=160.4

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHH
Q 046547          100 IAYDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVPQI-RLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLV  178 (343)
Q Consensus       100 ~~~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll  178 (343)
                      ..|+.+- .++.+.+.+++|++.++++.+.  .|+..+ |+..-..+...++++++|+..++...+.. +-+..+|+.+-
T Consensus        44 ~a~~~~~-~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          44 DVYDYFR-AVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHH-HHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHH-HHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            3444443 4677788999999999999984  476654 55555555555666899999999987753 33578888888


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc-
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE-  257 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-  257 (343)
                      ..+.+.|++++|++.++++.+.. +-+...|+.+...+...|++++|+..++...+.  -+-+...|+.+...+.+.+. 
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHcccc
Confidence            99999999999999999998753 336788999999999999999999999999863  23356677776666655543 


Q ss_pred             -----HHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC-CCHHHHHHHHHHHhcc--CCh
Q 046547          258 -----MWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFI-PYIKVRQKVVEGLAGV--GEW  328 (343)
Q Consensus       258 -----~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~--g~~  328 (343)
                           +++|.+.+....+.  .| +...|..+...+.. ...+++.+.++...+.... .+...+..+...|...  +..
T Consensus       197 ~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~  273 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQC  273 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             chhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCH
Confidence                 67899888888774  34 45566665555544 4457777777777654322 2456667777776543  343


Q ss_pred             hHHHHHHH
Q 046547          329 KLATVVRQ  336 (343)
Q Consensus       329 ~~a~~~~~  336 (343)
                      +.+...++
T Consensus       274 ~~~~~~~~  281 (315)
T d2h6fa1         274 DNKEDILN  281 (315)
T ss_dssp             SSHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444333

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.93  E-value=4.8e-07  Score=75.36  Aligned_cols=231  Identities=10%  Similarity=-0.062  Sum_probs=114.2

Q ss_pred             HhhcCCChHHHHHHHHHHHhcC----CCcc-HHHHHHHHHHHHhccCchhHHHHHHHHHHh----cCCccC---HhhHHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSG----CVPV-PQIRLLLSSAWLERRCQSQSVADILLEMKS----IGYHPD---CGTCNY  176 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~----~~p~-~~~~~~li~~~~~~~~~~~~a~~~~~~m~~----~g~~~~---~~~~~~  176 (343)
                      ++...|++++|+..|++..+..    ..+. ..++..+...+...+ ++..+...+.....    .+....   ...+..
T Consensus        60 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~  138 (366)
T d1hz4a_          60 VLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQG-FLQTAWETQEKAFQLINEQHLEQLPMHEFLVRI  138 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHhcccchhhHHHHHHHH
Confidence            4445566777776666654321    1111 112222223333333 45666655554432    111111   123444


Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCC----CCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CCCCC--chhHHHH
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAE----CVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLN---MGLMP--RQGMVIK  247 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p--~~~~~~~  247 (343)
                      +-..+...|+++.+...+.......    ......++......+...++...+...+.+....   .+..+  ....+..
T Consensus       139 la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  218 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHH
Confidence            4455666677777766666554321    1222334444455555666666666665554321   11111  1223444


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCC---chhhHHHHHHHHHhcccHhHHHHHHHHHhH----CCCCCC-HHHHHHHH
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPI---GFQGYEVVVEGCLECREYILAGKTVMGMTE----RGFIPY-IKVRQKVV  319 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li  319 (343)
                      +...+...|++++|...+....+.....   ....+..+...+...|++++|...+++...    .+..|+ ...+..+.
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHH
Confidence            5555666667777776666554322111   122334455566667777777776666542    233332 34555566


Q ss_pred             HHHhccCChhHHHHHHHHHHh
Q 046547          320 EGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       320 ~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ..|.+.|++++|.+.+++..+
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            667777777777776666544

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=2.2e-07  Score=77.03  Aligned_cols=196  Identities=7%  Similarity=-0.017  Sum_probs=147.8

Q ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHhcCCcc-CHhhHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 046547          138 RLLLSSAWLERRCQSQSVADILLEMKSIGYHP-DCGTCNYLVSSLCAID-QLVEAAKVLKGMSSAECVPDLESYSIVIGA  215 (343)
Q Consensus       138 ~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  215 (343)
                      |+-+ ......++..++|++++++..+.  .| +...|+....++...| ++++|+..+++..+.. +-+..+|..+...
T Consensus        46 ~~~~-~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          46 YDYF-RAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHH-HHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHH-HHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            3344 33444455789999999999885  44 4567788877887766 5999999999987754 2357889999999


Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc----
Q 046547          216 MSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR----  291 (343)
Q Consensus       216 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----  291 (343)
                      +.+.|++++|+..++.+.+  --+-+...|..+...+.+.|++++|.+.++.+.+.... +...|+.+...+.+.+    
T Consensus       122 ~~~l~~~~eAl~~~~kal~--~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhh--hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            9999999999999999995  33456888999999999999999999999999985422 4556766555554444    


Q ss_pred             --cHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          292 --EYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       292 --~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                        .+++|++.+.+..+.. +-+...|..+...+... ..+++.+.++...+++
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~  249 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQ  249 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHT
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhC
Confidence              4678999988887764 23677777766555544 4678888888777654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.81  E-value=2.4e-07  Score=74.13  Aligned_cols=89  Identities=11%  Similarity=-0.071  Sum_probs=44.2

Q ss_pred             HhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHH
Q 046547          109 TLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLV  188 (343)
Q Consensus       109 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~  188 (343)
                      ++.+.|++++|+..|++..+.. +-+..+|+.+-.++.+.+ ++++|.+.|++..+.. +-+..++..+..+|...|+++
T Consensus        46 ~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g-~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  122 (259)
T d1xnfa_          46 LYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG-NFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDK  122 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHH-HHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHH
Confidence            4445556666666666655432 112333444444444443 4555666665555432 112334555555555556666


Q ss_pred             HHHHHHHHhhhC
Q 046547          189 EAAKVLKGMSSA  200 (343)
Q Consensus       189 ~a~~~~~~m~~~  200 (343)
                      +|.+.|+...+.
T Consensus       123 ~A~~~~~~al~~  134 (259)
T d1xnfa_         123 LAQDDLLAFYQD  134 (259)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            666666555543

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.72  E-value=6.1e-06  Score=68.40  Aligned_cols=236  Identities=10%  Similarity=-0.038  Sum_probs=162.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHhcCCCccH------HHHHHHHHHHHhccCchhHHHHHHHHHHhcC----Ccc-C
Q 046547          102 YDYLLSYTLQSLHPLPLALAILQRTLRSGCVPVP------QIRLLLSSAWLERRCQSQSVADILLEMKSIG----YHP-D  170 (343)
Q Consensus       102 ~~~li~~~~~~~~~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g----~~~-~  170 (343)
                      ++.+-...+...|++++|++.+++..+..  |+.      ..+..+-..+...| ++++|...+++..+..    ..+ .
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g-~~~~A~~~~~~a~~~~~~~~~~~~~   90 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKG-ELTRSLALMQQTEQMARQHDVWHYA   90 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHhhcchHHH
Confidence            34444335567899999999999988743  332      23444555555655 7999999999876432    111 1


Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhh----CCCCCC---HhhHHHHHHHHhcCCChhHHHHHHHHHHhcC---CCCC
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSS----AECVPD---LESYSIVIGAMSTARKTNDAVEMMKEMVLNM---GLMP  240 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~p  240 (343)
                      ...+..+...+...|++..+...+.....    .+..+.   ...+..+...+...|+++.+...+.......   +...
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhh
Confidence            34566677788899999999998887653    222211   2355667788899999999999998877531   2222


Q ss_pred             chhHHHHHHHHHHhCccHHHHHHHHHHHHHc----CCCCc--hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC---CC
Q 046547          241 RQGMVIKVAAALRANREMWKAVEMIEFLERK----GCPIG--FQGYEVVVEGCLECREYILAGKTVMGMTERGFI---PY  311 (343)
Q Consensus       241 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---p~  311 (343)
                      ....+..+...+...++...+...+......    +..+.  ...+..+...+...|++++|...+.+.......   ..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            3445566667778888999998888776532    21111  224555666788999999999999987654322   23


Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          312 IKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       312 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ...+..+...+...|++++|.+.+++..+
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45566788899999999999999998764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.66  E-value=3.8e-07  Score=74.61  Aligned_cols=26  Identities=19%  Similarity=0.171  Sum_probs=12.8

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      +..+...+...|++++|...|++...
T Consensus       161 ~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         161 FIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            44444455555555555555554443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.65  E-value=1.5e-07  Score=78.78  Aligned_cols=272  Identities=8%  Similarity=-0.031  Sum_probs=160.9

Q ss_pred             HHHHHHHhCccCcchHHHHHHHchhcCCCCChHHH-------hhhhhh-------cccchHHHHHHHHhcCCCCCCCChh
Q 046547           35 EETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSF-------LSNFPQ-------NHRIKVIDEMLESFIPLRPRSRPKI  100 (343)
Q Consensus        35 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-------~~~~~~-------~~~~~~~~~~~~~~~~~~~~~p~~~  100 (343)
                      ..++....+.+..++|+++++.....  .|+..+.       +..+..       .+....+...++......|.  +..
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk--~~~  108 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK--SYG  108 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT--CHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC--cHH
Confidence            33333344444558999999988764  5665542       111111       11223333333333333333  333


Q ss_pred             hHHHHHH-HHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHH
Q 046547          101 AYDYLLS-YTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVS  179 (343)
Q Consensus       101 ~~~~li~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~  179 (343)
                      .|..+-. ......+++++|...++++.+.. +++...+...+.......+..++|...++...+.. +-+...|+.+..
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~  186 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            3333321 12333456888888888887753 22344444444333444456888888888877653 335667777888


Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHH
Q 046547          180 SLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMW  259 (343)
Q Consensus       180 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~  259 (343)
                      .+.+.|++++|...+....+.  .|+   .......+...+..+++...+.....  .-+++...+..+...+...++.+
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~  259 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLL--GRAEPLFRCELSVEKSTVLQSEL  259 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHH--SCCCCSSSCCCCHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHH--hCcchhhHHHHHHHHHHHHhhHH
Confidence            888888877765554433321  111   11233344556677778777777764  33455666777777778888888


Q ss_pred             HHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHh
Q 046547          260 KAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLA  323 (343)
Q Consensus       260 ~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~  323 (343)
                      +|...+.+..+.  .| +..++..+...|.+.|++++|.+.+++..+..  |+ ..-|..|-..+.
T Consensus       260 ~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~y~~~L~~~~~  321 (334)
T d1dcea1         260 ESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHHHHHHHHHHHh
Confidence            888888877653  23 34566777778888999999999999887753  54 444555544444

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.64  E-value=1.9e-07  Score=78.08  Aligned_cols=218  Identities=7%  Similarity=-0.085  Sum_probs=154.3

Q ss_pred             CChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhcc-CchhHHHHHHHHHHhcCCccCHhhHH-HHHHHHHccCcHHHH
Q 046547          114 HPLPLALAILQRTLRSGCVP-VPQIRLLLSSAWLERR-CQSQSVADILLEMKSIGYHPDCGTCN-YLVSSLCAIDQLVEA  190 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~-~~~~~a~~~~~~m~~~g~~~~~~~~~-~ll~~~~~~~~~~~a  190 (343)
                      |++++|+..++...+..  | +...|..+...+...+ ++.++|...++...+.. +++...+. .....+...+..++|
T Consensus        87 ~~~~~al~~~~~~l~~~--pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          87 ALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhC--CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHH
Confidence            45788999999988754  4 3444554444444443 24678999999988753 23344444 444677778999999


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          191 AKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       191 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ...++...+... -+...|+.+...+...|+.++|...+......   .|+   ...+...+...+..+++...+.....
T Consensus       164 l~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         164 LAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            999999887653 36778888999999999998886665554421   111   11223334455666677777777766


Q ss_pred             cCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          271 KGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       271 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .. +++...+..+...+...|+.++|...+.+..+.. +.+...+..+...|.+.|++++|.+.+++..+++|
T Consensus       237 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         237 GR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             SC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             hC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            43 2344566667778888999999999999887654 22567788899999999999999999999988764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.58  E-value=9.1e-07  Score=70.65  Aligned_cols=218  Identities=11%  Similarity=-0.058  Sum_probs=130.5

Q ss_pred             ChHHHHHHHHHHHhcCC-Ccc--HHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHH
Q 046547          115 PLPLALAILQRTLRSGC-VPV--PQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAA  191 (343)
Q Consensus       115 ~~~~a~~~~~~m~~~~~-~p~--~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~  191 (343)
                      +.+.++.-+++...... .++  ..+|..+-..|.+.| ++++|...|++..+.. +-++.+|+.+-.+|.+.|++++|.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g-~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLG-LRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            34556666666654322 221  123333334555554 6889999888887752 335677888888888999999999


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHc
Q 046547          192 KVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERK  271 (343)
Q Consensus       192 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  271 (343)
                      +.|++..+... -+..++..+..++...|++++|...|+...+.  .+.+......+..++.+.+..+.+..+.......
T Consensus        92 ~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          92 EAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            99988887532 24567777888888889999999999888753  2334444444444555556555555555555442


Q ss_pred             CCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          272 GCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERGFIPY-IKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       272 g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      .  ++...++ ++..+..    .+..+.+...+.....  ..|+ ..+|..+...|...|++++|.+.|++..+..
T Consensus       169 ~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         169 D--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             C--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             c--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2  2222222 2222222    2223333333222111  1222 3456667788888888888888888876654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=9.9e-06  Score=61.51  Aligned_cols=114  Identities=15%  Similarity=0.112  Sum_probs=66.1

Q ss_pred             CchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHH
Q 046547          150 CQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMM  229 (343)
Q Consensus       150 ~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  229 (343)
                      ++++.|++.|+++    .+|++.+|..+-..|...|++++|.+.|++..+.. +-+...|..+-.++...|++++|+..|
T Consensus        19 ~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~~~   93 (192)
T d1hh8a_          19 KDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIKDL   93 (192)
T ss_dssp             TCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHHHH
Confidence            3566776666543    24555666666666777777777777777666543 224556666666667777777777766


Q ss_pred             HHHHhcCCCCCc----------------hhHHHHHHHHHHhCccHHHHHHHHHHHHH
Q 046547          230 KEMVLNMGLMPR----------------QGMVIKVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       230 ~~m~~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      ++...  -.+++                ..++..+-.++.+.|++++|.+.+....+
T Consensus        94 ~kAl~--~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          94 KEALI--QLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHH--TTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHH--hCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            66553  11111                12333444455566666666666555544

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.34  E-value=5.7e-06  Score=67.36  Aligned_cols=206  Identities=12%  Similarity=0.043  Sum_probs=136.1

Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHh
Q 046547          118 LALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGM  197 (343)
Q Consensus       118 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  197 (343)
                      ++.+++.+..+.+ +|....+. ++.+  +...++++|.++|.+.               ...|...|++++|.+.|.+.
T Consensus         3 ~~~~~l~~aek~~-~~~~~~~~-~~~~--~~~~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA   63 (290)
T d1qqea_           3 DPVELLKRAEKKG-VPSSGFMK-LFSG--SDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKA   63 (290)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHHH-HHSC--CSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-CcchhHHH-HhcC--CccccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHH
Confidence            4556666655543 33333322 2211  2222356677666554               45688899999999999887


Q ss_pred             hhC----CCCC-CHhhHHHHHHHHhcCCChhHHHHHHHHHHh---cCCC-CCchhHHHHHHHHHHh-CccHHHHHHHHHH
Q 046547          198 SSA----ECVP-DLESYSIVIGAMSTARKTNDAVEMMKEMVL---NMGL-MPRQGMVIKVAAALRA-NREMWKAVEMIEF  267 (343)
Q Consensus       198 ~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~-~p~~~~~~~li~~~~~-~~~~~~a~~~~~~  267 (343)
                      .+.    +-.+ ...+|..+..+|.+.|++++|...++....   +.|. .....++..+...|.. .|++++|.+.+.+
T Consensus        64 ~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~  143 (290)
T d1qqea_          64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHH
Confidence            642    2222 246788999999999999999999987653   1121 1124456666666754 6999999999998


Q ss_pred             HHH----cCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCC-----C-HHHHHHHHHHHhccCChhHHHHHHH
Q 046547          268 LER----KGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFIP-----Y-IKVRQKVVEGLAGVGEWKLATVVRQ  336 (343)
Q Consensus       268 m~~----~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----~-~~~~~~li~~~~~~g~~~~a~~~~~  336 (343)
                      ..+    .+-.+. ..+|..+...|...|++++|.+.|++........     . ...+...+..+...|+++.|.+.++
T Consensus       144 A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~  223 (290)
T d1qqea_         144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            753    222221 3467778889999999999999999987653221     1 1223445557778899999999999


Q ss_pred             HHHhhc
Q 046547          337 RFAELK  342 (343)
Q Consensus       337 ~m~~~~  342 (343)
                      +..+..
T Consensus       224 ~~~~~~  229 (290)
T d1qqea_         224 EGQSED  229 (290)
T ss_dssp             GGGCC-
T ss_pred             HHHHhC
Confidence            876653

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=5.1e-06  Score=57.57  Aligned_cols=93  Identities=14%  Similarity=-0.063  Sum_probs=72.4

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcc
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECR  291 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  291 (343)
                      --+.+...|++++|+..|++...  --+-+...|..+-.+|.+.|++++|...+....+.. +.+...|..+..++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--cCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHcc
Confidence            35667788888888888888875  334566778888888888888888888888888753 235667778888888888


Q ss_pred             cHhHHHHHHHHHhHCC
Q 046547          292 EYILAGKTVMGMTERG  307 (343)
Q Consensus       292 ~~~~a~~~~~~m~~~g  307 (343)
                      ++++|+..|++..+..
T Consensus        86 ~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             CHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            8888888888887643

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=8.5e-06  Score=61.89  Aligned_cols=86  Identities=5%  Similarity=-0.114  Sum_probs=63.7

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccH
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREM  258 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  258 (343)
                      ..+...|++++|++.|+++    .+|+..+|..+-.+|...|++++|++.|++..+-  -+-+...|..+-.++.+.|++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccH
Confidence            4556778888888888764    2466777777888888888888888888887752  233556777788888888888


Q ss_pred             HHHHHHHHHHHH
Q 046547          259 WKAVEMIEFLER  270 (343)
Q Consensus       259 ~~a~~~~~~m~~  270 (343)
                      ++|.+.|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888887664

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.26  E-value=7.7e-06  Score=62.35  Aligned_cols=99  Identities=10%  Similarity=-0.103  Sum_probs=83.7

Q ss_pred             CCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHH
Q 046547          204 PDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEV  282 (343)
Q Consensus       204 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~  282 (343)
                      |+...+...-+.|.+.|++++|+..|.+....  -+-+...|+.+-.+|.+.|++++|...|+...+  +.|+ ..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHH
Confidence            66777778888999999999999999998852  345777899999999999999999999999886  5564 557888


Q ss_pred             HHHHHHhcccHhHHHHHHHHHhHC
Q 046547          283 VVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       283 li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +-.+|...|++++|+..|++..+.
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh
Confidence            899999999999999999987653

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=3e-06  Score=59.17  Aligned_cols=95  Identities=17%  Similarity=0.113  Sum_probs=62.2

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCCch-hhHHHHHH
Q 046547          210 SIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR---EMWKAVEMIEFLERKGCPIGF-QGYEVVVE  285 (343)
Q Consensus       210 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~~-~~~~~li~  285 (343)
                      ..+++.+...+++++|.+.|+....  --+.+..++..+..++.+.+   ++++|..++++.......|+. .++..+-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            4567777777777778877777774  23445566777777776644   444577777777654333332 24555666


Q ss_pred             HHHhcccHhHHHHHHHHHhHC
Q 046547          286 GCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +|.+.|++++|.+.|+++.+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            777777788888777777764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=1.8e-05  Score=58.00  Aligned_cols=121  Identities=9%  Similarity=-0.048  Sum_probs=94.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHH
Q 046547          209 YSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGC  287 (343)
Q Consensus       209 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~  287 (343)
                      +...-+.|.+.|++++|+..|.+..+-  -+-+...|..+..+|...|++++|...|+...+.  .| +...|..+..+|
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~   88 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHH
Confidence            344567889999999999999999963  3457788999999999999999999999999884  34 456899999999


Q ss_pred             HhcccHhHHHHHHHHHhHCCCCC-CHHHHHHHHHH--HhccCChhHHHHHH
Q 046547          288 LECREYILAGKTVMGMTERGFIP-YIKVRQKVVEG--LAGVGEWKLATVVR  335 (343)
Q Consensus       288 ~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~--~~~~g~~~~a~~~~  335 (343)
                      ...|++++|...+++.....  | +...+..+..+  ....+.+++|....
T Consensus        89 ~~~g~~~eA~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~~~a~~~~  137 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGD  137 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            99999999999999998764  4 34444444333  34455666666543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.12  E-value=1.8e-05  Score=60.13  Aligned_cols=99  Identities=9%  Similarity=-0.066  Sum_probs=86.6

Q ss_pred             ccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-chhHHH
Q 046547          168 HPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP-RQGMVI  246 (343)
Q Consensus       168 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~  246 (343)
                      .|+...+......|.+.|++++|+..|++..... +-+...|+.+..+|.+.|++++|+..|+...+   +.| +..+|.
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~   76 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHF   76 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHH
Confidence            3677778888899999999999999999988764 34678899999999999999999999999973   345 567899


Q ss_pred             HHHHHHHhCccHHHHHHHHHHHHH
Q 046547          247 KVAAALRANREMWKAVEMIEFLER  270 (343)
Q Consensus       247 ~li~~~~~~~~~~~a~~~~~~m~~  270 (343)
                      .+..+|.+.|++++|...|+...+
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999998876

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=7.4e-05  Score=54.51  Aligned_cols=100  Identities=10%  Similarity=-0.139  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 046547          173 TCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAAL  252 (343)
Q Consensus       173 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  252 (343)
                      .+...-+.|.+.|++++|...|++..+.. +-+...|..+..+|...|++++|+..|+...+  --+-+...|..+..++
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~--~~p~~~~a~~~~g~~~   88 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHH--HcccchHHHHHHHHHH
Confidence            35556677899999999999999998865 34678899999999999999999999999986  2344668899999999


Q ss_pred             HhCccHHHHHHHHHHHHHcCCCCch
Q 046547          253 RANREMWKAVEMIEFLERKGCPIGF  277 (343)
Q Consensus       253 ~~~~~~~~a~~~~~~m~~~g~~p~~  277 (343)
                      ...|++++|...+++....  .|+.
T Consensus        89 ~~~g~~~eA~~~~~~a~~~--~p~~  111 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKV--KPHD  111 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--STTC
T ss_pred             HHcCCHHHHHHHHHHHHHc--CCCC
Confidence            9999999999999999884  4543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=5.5e-05  Score=52.08  Aligned_cols=97  Identities=13%  Similarity=-0.091  Sum_probs=74.3

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc
Q 046547          177 LVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR  256 (343)
Q Consensus       177 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  256 (343)
                      --..+.+.|++++|+..|++..+.. +-+...|..+-.++...|++++|+..+....+  --+.+...|..+..++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVD--LKPDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHH--hccchhhHHHHHHHHHHHcc
Confidence            3466778888888888888887653 34567788888888888888888888888885  33456777888888888888


Q ss_pred             cHHHHHHHHHHHHHcCCCCchh
Q 046547          257 EMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       257 ~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      ++++|...|+...+  ..|+..
T Consensus        86 ~~~~A~~~~~~a~~--~~p~~~  105 (117)
T d1elwa_          86 RFEEAKRTYEEGLK--HEANNP  105 (117)
T ss_dssp             CHHHHHHHHHHHHT--TCTTCH
T ss_pred             CHHHHHHHHHHHHH--hCCCCH
Confidence            88888888888876  445543

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.97  E-value=4.6e-05  Score=52.03  Aligned_cols=87  Identities=10%  Similarity=-0.081  Sum_probs=48.5

Q ss_pred             HHHHHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCC
Q 046547          249 AAALRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGE  327 (343)
Q Consensus       249 i~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  327 (343)
                      -..+.+.|++++|...|++..+.  .| +...|..+-..+.+.|++++|+..|++..+.. +-+...+..+...|...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            33455556666666666665553  23 34455555555666666666666666555443 2245555556666666666


Q ss_pred             hhHHHHHHHHH
Q 046547          328 WKLATVVRQRF  338 (343)
Q Consensus       328 ~~~a~~~~~~m  338 (343)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666553

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=4.8e-05  Score=52.83  Aligned_cols=100  Identities=13%  Similarity=0.133  Sum_probs=62.9

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCCh---hHHHHHHHHHHhcCCCCCc-hhHHHHHHH
Q 046547          175 NYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKT---NDAVEMMKEMVLNMGLMPR-QGMVIKVAA  250 (343)
Q Consensus       175 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~p~-~~~~~~li~  250 (343)
                      ..+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++.   ++|+.++++.... ...|+ ..++..+-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~-~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-GSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-SCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhc-cCCchHHHHHHHHHH
Confidence            346666777777777777777776644 23556666666666665543   3577777776642 32233 235666677


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      +|.+.|++++|.+.|++..+  +.|+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~~~  106 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQNN  106 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcCCH
Confidence            77777777777777777776  445543

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.88  E-value=7e-05  Score=51.08  Aligned_cols=84  Identities=12%  Similarity=0.052  Sum_probs=34.8

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHH
Q 046547          181 LCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWK  260 (343)
Q Consensus       181 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~  260 (343)
                      +.+.|++++|...|++...... -+..+|..+..++.+.|++++|+..|+...+  --+.+...+..+...|...|++++
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHCCCHHH
Confidence            3344444444444444443221 1234444444444444444444444444442  112233344444444444444444


Q ss_pred             HHHHHHH
Q 046547          261 AVEMIEF  267 (343)
Q Consensus       261 a~~~~~~  267 (343)
                      |.+.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=0.00035  Score=51.43  Aligned_cols=111  Identities=11%  Similarity=-0.021  Sum_probs=63.1

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 046547          172 GTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAA  251 (343)
Q Consensus       172 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  251 (343)
                      ..+......+.+.|++++|...|.+....-....              +..+.-......+.        ..+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~--------------~~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYES--------------SFSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCC--------------CCCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcc--------------ccchHHHhhhchhH--------HHHHHHHHHH
Confidence            3455556678888888888888887765311000              00011111111111        1245556666


Q ss_pred             HHhCccHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          252 LRANREMWKAVEMIEFLERKGCPI-GFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       252 ~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      |.+.|++++|...++...+.  .| +..+|..+..+|...|++++|...|++..+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhc--cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            66777777777777766653  23 4556666666677777777777777766654

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=0.0002  Score=52.81  Aligned_cols=65  Identities=15%  Similarity=0.020  Sum_probs=56.9

Q ss_pred             hhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhcC
Q 046547          278 QGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELKS  343 (343)
Q Consensus       278 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  343 (343)
                      .+|+.+..+|.+.|++++|+..+++.++.. +-+...|..+..+|...|++++|...|++..++.|
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            356677888999999999999999998865 33788999999999999999999999999988764

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.69  E-value=0.0006  Score=49.14  Aligned_cols=100  Identities=9%  Similarity=-0.049  Sum_probs=66.7

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC---c-----------hhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMP---R-----------QGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p---~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      ..+..--+.+.+.|++++|+..|.+...-....+   +           ..+|+.+..+|.+.|++++|++.+....+..
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            3445556778888999999999988774211111   1           2355666777777777777777777776642


Q ss_pred             CCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          273 CPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       273 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                       +.+..+|..+..++...|++++|...|++..+..
T Consensus        98 -p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          98 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             2245677777777777777777777777766543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.62  E-value=0.001  Score=47.83  Aligned_cols=97  Identities=8%  Similarity=-0.093  Sum_probs=69.9

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCC----CCC-----------CHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchh
Q 046547          179 SSLCAIDQLVEAAKVLKGMSSAE----CVP-----------DLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQG  243 (343)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~m~~~~----~~~-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~  243 (343)
                      ..+.+.|++++|...|.+....-    ..+           ...+|+.+..+|.+.|++++|++.++...+  --+.+..
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~--~~p~~~k  102 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK--IDKNNVK  102 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccc--ccchhhh
Confidence            44555666666666666554321    001           124677788889999999999999999885  3355778


Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhh
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQG  279 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  279 (343)
                      +|..+..++...|++++|...|+...+  +.|+...
T Consensus       103 a~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~  136 (153)
T d2fbna1         103 ALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLD  136 (153)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHH
T ss_pred             hhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHH
Confidence            899999999999999999999999887  4465443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.60  E-value=0.00072  Score=50.12  Aligned_cols=70  Identities=13%  Similarity=-0.045  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhH-----CCCCCCHHH
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTE-----RGFIPYIKV  314 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~  314 (343)
                      .+..+..++.+.|++++|...++.+.+.. +-+...|..++.+|.+.|+..+|++.|+++..     .|+.|...+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34455555555555555555555555421 11334555555555555555555555555422     355555443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.59  E-value=0.00013  Score=58.07  Aligned_cols=122  Identities=8%  Similarity=-0.027  Sum_probs=57.3

Q ss_pred             hcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcccHhH
Q 046547          217 STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ-GYEVVVEGCLECREYIL  295 (343)
Q Consensus       217 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~  295 (343)
                      .+.|++++|+..+++..+  --+-|...+..+...++..|++++|.+.++...+  ..|+.. .+..+...+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccHH
Confidence            345666666666666663  3344556666666666666666666666666655  234332 22222222222222222


Q ss_pred             HHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHhhc
Q 046547          296 AGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAELK  342 (343)
Q Consensus       296 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  342 (343)
                      +..-...-...+-.++...+......+...|+.++|.+.+++..++.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            11111000000111122233333445556666777766666665543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=0.00024  Score=49.61  Aligned_cols=91  Identities=11%  Similarity=-0.043  Sum_probs=40.8

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC---CCC--c-hhhHHHHHH
Q 046547          212 VIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG---CPI--G-FQGYEVVVE  285 (343)
Q Consensus       212 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p--~-~~~~~~li~  285 (343)
                      +-+.+...|++++|+..|.+..+  --+.+...+..+-.+|.+.|++++|.+.++.+.+..   ..+  . ..+|..+-.
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKE--LDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            33444445555555555555443  112234445555555555555555555555544310   000  0 123333444


Q ss_pred             HHHhcccHhHHHHHHHHHh
Q 046547          286 GCLECREYILAGKTVMGMT  304 (343)
Q Consensus       286 ~~~~~g~~~~a~~~~~~m~  304 (343)
                      .+...+++++|.+.|.+..
T Consensus        88 ~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHH
Confidence            4455555555555555544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=0.00052  Score=47.76  Aligned_cols=96  Identities=9%  Similarity=-0.012  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCC---CC--CC-HHHHHHH
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERG---FI--PY-IKVRQKV  318 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~--p~-~~~~~~l  318 (343)
                      +..+-..+.+.|++++|...|.+..+.. +.+...|..+-.+|.+.|++++|++.++++++..   ..  +. ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3455667889999999999999998853 2356788889999999999999999999987632   11  11 3477888


Q ss_pred             HHHHhccCChhHHHHHHHHHHhh
Q 046547          319 VEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       319 i~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      ...+...+++++|.+.|++-...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            88999999999999999886654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.45  E-value=0.00072  Score=49.56  Aligned_cols=113  Identities=11%  Similarity=0.006  Sum_probs=77.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhc-------------CCCC-CchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCC
Q 046547          208 SYSIVIGAMSTARKTNDAVEMMKEMVLN-------------MGLM-PRQGMVIKVAAALRANREMWKAVEMIEFLERKGC  273 (343)
Q Consensus       208 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~-------------~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  273 (343)
                      .+......+...|++++|+..|.+...-             ..+. .....|..+..++.+.|++++|+..++...+.. 
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-  107 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  107 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-
Confidence            4555667788899999999999887531             0111 234456667777888888888888888887642 


Q ss_pred             CCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHH
Q 046547          274 PIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGL  322 (343)
Q Consensus       274 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  322 (343)
                      +.+...|..+-.+|.+.|++++|++.|++..+.. +.+......+....
T Consensus       108 p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~  155 (169)
T d1ihga1         108 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  155 (169)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            2245577777888888888888888888887753 22445555544443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.43  E-value=0.0053  Score=44.65  Aligned_cols=110  Identities=15%  Similarity=-0.017  Sum_probs=60.3

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhC---CCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSA---ECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIK  247 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  247 (343)
                      +..+......+.+.|++++|...|.+....   ...++.                 ......+.+        ...+|+.
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~-----------------~~~~~~~~~--------~~~~~~N   69 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSE-----------------KESKASESF--------LLAAFLN   69 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCH-----------------HHHHHHHHH--------HHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccch-----------------hhhhhcchh--------HHHHHHh
Confidence            445566667777788888888877765431   111100                 000001111        1224555


Q ss_pred             HHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          248 VAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       248 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      +..+|.+.|++++|+..++...+.. +.+..+|..+..+|...|++++|...|++..+.
T Consensus        70 la~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          70 LAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5666666667777776666666532 224445666666666677777777776666654

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.43  E-value=0.016  Score=45.23  Aligned_cols=213  Identities=10%  Similarity=-0.036  Sum_probs=137.4

Q ss_pred             hhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh---ccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHH----
Q 046547          110 LQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLE---RRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLC----  182 (343)
Q Consensus       110 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~----  182 (343)
                      +-..+++++|++.|++..+.|   +...+..|-..|..   ...+...+...++...+.+.   ......+...+.    
T Consensus        12 ~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~~~~~~~~   85 (265)
T d1ouva_          12 SYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGNLYYSGQG   85 (265)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSS
T ss_pred             HHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhccccccccccc
Confidence            345689999999999998877   33444334334443   12356778888888777652   233333333333    


Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH----hcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----
Q 046547          183 AIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAM----STARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----  254 (343)
Q Consensus       183 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----  254 (343)
                      ..++.+.|...++...+.|....   ...+...+    ........+...+......    .+...+..|...+..    
T Consensus        86 ~~~~~~~a~~~~~~a~~~g~~~a---~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~L~~~~~~~~~~  158 (265)
T d1ouva_          86 VSQNTNKALQYYSKACDLKYAEG---CASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTILGSLYDAGRGT  158 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCHHH---HHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSS
T ss_pred             cchhhHHHHHHHhhhhhhhhhhH---HHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhhhhhhhccCCCc
Confidence            25678899999998888764322   22222222    2344566677777776642    455667777777775    


Q ss_pred             CccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhc----cC
Q 046547          255 NREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAG----VG  326 (343)
Q Consensus       255 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g  326 (343)
                      ..+...+...++...+.|   +......+-..|..    ..++++|..+|.+..+.|   ++..+..|...|.+    ..
T Consensus       159 ~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~  232 (265)
T d1ouva_         159 PKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTR  232 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSC
T ss_pred             ccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCcc
Confidence            457778888888887765   33343334334443    568999999999998887   34555566666664    34


Q ss_pred             ChhHHHHHHHHHHhh
Q 046547          327 EWKLATVVRQRFAEL  341 (343)
Q Consensus       327 ~~~~a~~~~~~m~~~  341 (343)
                      +.++|.+.|++-.+.
T Consensus       233 n~~~A~~~~~kAa~~  247 (265)
T d1ouva_         233 NEKQAIENFKKGCKL  247 (265)
T ss_dssp             CSTTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC
Confidence            899999999887654

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.42  E-value=0.0016  Score=48.13  Aligned_cols=62  Identities=8%  Similarity=-0.078  Sum_probs=55.1

Q ss_pred             hhHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHh
Q 046547          278 QGYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVGEWKLATVVRQRFAE  340 (343)
Q Consensus       278 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  340 (343)
                      ..+..+...+...|++++|+..++++.... +-+...|..++.+|.+.|+.++|.+.|+++.+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            456778889999999999999999998865 34788999999999999999999999999855

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.32  E-value=0.0029  Score=46.15  Aligned_cols=75  Identities=9%  Similarity=-0.085  Sum_probs=56.7

Q ss_pred             HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHH
Q 046547          206 LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVV  284 (343)
Q Consensus       206 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li  284 (343)
                      ...|..+-.++.+.|++++|+..++...+  --+.+...|..+-.++.+.|++++|.+.|+...+.  .|+ ......+-
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~--~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~  152 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALE--IDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  152 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhh--hhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            44567777888889999999999999885  33456778888899999999999999999988873  454 33444433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.29  E-value=0.0026  Score=46.41  Aligned_cols=68  Identities=12%  Similarity=-0.070  Sum_probs=48.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchh
Q 046547          207 ESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQ  278 (343)
Q Consensus       207 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  278 (343)
                      .+|+.+-.+|.+.|++++|+..++....  --+.+...|..+..++...|++++|...|....+  +.|+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~--l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~  132 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALG--LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNK  132 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhh--cccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCH
Confidence            3556666777778888888888887774  2345666777777788888888888888888776  445443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.24  E-value=0.035  Score=45.03  Aligned_cols=278  Identities=8%  Similarity=-0.035  Sum_probs=127.9

Q ss_pred             cCCCCHHHHHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHH
Q 046547           26 RSMSSLRTLEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYL  105 (343)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~l  105 (343)
                      -+.|+......+...|.+.|.++.|..++..+...      .-.+..+...+....+-+......       +..+|..+
T Consensus         9 l~~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d~------~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~   75 (336)
T d1b89a_           9 INGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNF------GRLASTLVHLGEYQAAVDGARKAN-------STRTWKEV   75 (336)
T ss_dssp             TTCC----------------CTTTHHHHHHHTTCH------HHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHH
T ss_pred             HcCCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCCH------HHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHH
Confidence            33445555666777788888888888888875532      222222233333333333333321       34566666


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccC
Q 046547          106 LSYTLQSLHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAID  185 (343)
Q Consensus       106 i~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~  185 (343)
                      .. .+........+     .+...+...++.....++..|-..+ .+++...+++..... -.++...++.++..|++.+
T Consensus        76 ~~-~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~-~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          76 CF-ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRG-YFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HH-HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HH-HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            64 44443333221     2222333344444455666655543 566677777665432 2445566777777777654


Q ss_pred             cHHHHHHHHHHhhhCCCCCC--------HhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCcc
Q 046547          186 QLVEAAKVLKGMSSAECVPD--------LESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANRE  257 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~--------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  257 (343)
                      . ++..+.+..... ...+.        ..-|.-++..|.+.|++++|..+.-.   .   .++..-....+..+.+..+
T Consensus       148 ~-~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~---~---~~~~~~~~~f~e~~~k~~N  219 (336)
T d1b89a_         148 P-QKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN---H---PTDAWKEGQFKDIITKVAN  219 (336)
T ss_dssp             H-HHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH---S---TTTTCCHHHHHHHHHHCSS
T ss_pred             h-HHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH---c---chhhhhHHHHHHHHHccCC
Confidence            3 333333322211 11111        01123334444444444444332211   1   2233334445555566666


Q ss_pred             HHHHHHHHHHHHHcCCCCchh-----------hHHHHHHHHHhcccHhHHHHHHHHHhHCCCCCCHHHHHHHHHHHhccC
Q 046547          258 MWKAVEMIEFLERKGCPIGFQ-----------GYEVVVEGCLECREYILAGKTVMGMTERGFIPYIKVRQKVVEGLAGVG  326 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~-----------~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  326 (343)
                      .+...++.....+.  .|+..           .-..++..+.+.++......+++...+.|   +..+.+++.+.|...+
T Consensus       220 ~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~  294 (336)
T d1b89a_         220 VELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEE  294 (336)
T ss_dssp             THHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcc
Confidence            65555555544431  23211           11234445555666666666666655545   3468888999999999


Q ss_pred             ChhHHHHHHHH
Q 046547          327 EWKLATVVRQR  337 (343)
Q Consensus       327 ~~~~a~~~~~~  337 (343)
                      +++.-++..+.
T Consensus       295 d~~~l~~~i~~  305 (336)
T d1b89a_         295 DYQALRTSIDA  305 (336)
T ss_dssp             CHHHHHHHHHH
T ss_pred             hhHHHHHHHHH
Confidence            87666555543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.23  E-value=0.0017  Score=46.74  Aligned_cols=63  Identities=14%  Similarity=-0.003  Sum_probs=35.8

Q ss_pred             hHHHHHHHHHhcccHhHHHHHHHHHhHC-----CCCCC-----HHHHHHHHHHHhccCChhHHHHHHHHHHhh
Q 046547          279 GYEVVVEGCLECREYILAGKTVMGMTER-----GFIPY-----IKVRQKVVEGLAGVGEWKLATVVRQRFAEL  341 (343)
Q Consensus       279 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  341 (343)
                      +|+.+-.+|.+.|++++|.+.+++....     ...++     ...+..+..+|...|++++|.+.|++..++
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555556666666666666666654431     11111     223555666677777777777777766554

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.15  E-value=0.034  Score=43.22  Aligned_cols=114  Identities=8%  Similarity=-0.060  Sum_probs=62.3

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----Ccc
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----NRE  257 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~  257 (343)
                      ....+...+......   .+...+..|...+..    ..+...+..+++...+. |   +......+-..|..    .++
T Consensus       125 ~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~-g---~~~A~~~lg~~y~~g~~~~~d  197 (265)
T d1ouva_         125 DFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATKN  197 (265)
T ss_dssp             CHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCCC
T ss_pred             hhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccc-c---ccccccchhhhcccCcccccc
Confidence            445555555554443   234444445544443    34455566666665542 3   33333334333433    457


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCCCC
Q 046547          258 MWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       258 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~  309 (343)
                      .++|...|....+.|.   ...+..|-..|.+    ..+.++|.++|++..+.|..
T Consensus       198 ~~~A~~~~~~aa~~g~---~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         198 FKEALARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhhhhHhhhhcccC---HHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            8888888888777662   3344444445543    33677788888887777744

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.93  E-value=0.00079  Score=53.29  Aligned_cols=52  Identities=19%  Similarity=0.092  Sum_probs=34.6

Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          182 CAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       182 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      .+.|++++|...+++..+.. +-|...+..+...++..|++++|...++...+
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            35577777777777766653 23556667777777777777777777777664

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.90  E-value=0.0092  Score=42.65  Aligned_cols=63  Identities=11%  Similarity=-0.161  Sum_probs=39.2

Q ss_pred             hHHHHHHHHHHhCccHHHHHHHHHHHHHc-----CCCCc-----hhhHHHHHHHHHhcccHhHHHHHHHHHhH
Q 046547          243 GMVIKVAAALRANREMWKAVEMIEFLERK-----GCPIG-----FQGYEVVVEGCLECREYILAGKTVMGMTE  305 (343)
Q Consensus       243 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  305 (343)
                      ..|+.+-.+|.+.|++++|..-+.+..+.     ...++     ...|..+-.+|...|++++|+..|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666677777777776666665431     11111     12355566778888888888888887653

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.78  E-value=0.0044  Score=43.86  Aligned_cols=76  Identities=13%  Similarity=0.016  Sum_probs=38.1

Q ss_pred             hhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCc-----------cHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 046547          222 TNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANR-----------EMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLEC  290 (343)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~-----------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  290 (343)
                      +++|+..|++..+  --+-+..+|..+-.+|...|           .+++|.+.|+...+  +.|+...|..-+..+   
T Consensus        57 ~~~Ai~~~~kAl~--l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~---  129 (145)
T d1zu2a1          57 IQEAITKFEEALL--IDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT---  129 (145)
T ss_dssp             HHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHH--hcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH---
Confidence            3455555555553  11223445555555554433           34666666666665  456655554433332   


Q ss_pred             ccHhHHHHHHHHHhHCC
Q 046547          291 REYILAGKTVMGMTERG  307 (343)
Q Consensus       291 g~~~~a~~~~~~m~~~g  307 (343)
                         .+|.+++.+..+.|
T Consensus       130 ---~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         130 ---AKAPQLHAEAYKQG  143 (145)
T ss_dssp             ---HTHHHHHHHHHHSS
T ss_pred             ---HHHHHHHHHHHHHh
Confidence               34555555555544

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.72  E-value=0.11  Score=42.09  Aligned_cols=240  Identities=9%  Similarity=-0.012  Sum_probs=133.6

Q ss_pred             HHHHHHHHhCccCcchHHHHHHHchhcCCCCChHHHhhhhhhcccchHHHHHHHHhcCCCCCCCChhhHHHHHHHHhhcC
Q 046547           34 LEETVRAAVDAKDYQQIPELLGSFEEACQNPNPFSFLSNFPQNHRIKVIDEMLESFIPLRPRSRPKIAYDYLLSYTLQSL  113 (343)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~  113 (343)
                      |..++..+.+.++++.|.+++.+..    .|.++.-....+..........+...     +...+......++. .+...
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~----~~~~~k~~~~~l~~~~e~~la~i~~~-----~~~~~~d~l~~~v~-~ye~~  112 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN----STRTWKEVCFACVDGKEFRLAQMCGL-----HIVVHADELEELIN-YYQDR  112 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT----CHHHHHHHHHHHHHTTCHHHHHHTTT-----TTTTCHHHHHHHHH-HHHHT
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC----CHHHHHHHHHHHHhCcHHHHHHHHHH-----HhhcCHHHHHHHHH-HHHHc
Confidence            6778888888888888888876542    23333222222222222222222211     11224445566775 77888


Q ss_pred             CChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccC--------HhhHHHHHHHHHccC
Q 046547          114 HPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPD--------CGTCNYLVSSLCAID  185 (343)
Q Consensus       114 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~--------~~~~~~ll~~~~~~~  185 (343)
                      |.++....++...... -.++...++-++..|++..  .++..+.++.... .+.+.        ...|..++-.|.+.|
T Consensus       113 ~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~--~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~  188 (336)
T d1b89a_         113 GYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK--PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYE  188 (336)
T ss_dssp             TCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC--HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             CChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC--hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcC
Confidence            9999999999987643 2456677888888887753  4555555444311 11111        122344555555555


Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHH--
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVE--  263 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~--  263 (343)
                      +++.|..+.   .++  .++..-....+..+.+.++.+...++.....+.   .|+  ..+.++......-+..++.+  
T Consensus       189 ~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p~--~i~~lL~~v~~~~d~~r~V~~~  258 (336)
T d1b89a_         189 EYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KPL--LLNDLLMVLSPRLDHTRAVNYF  258 (336)
T ss_dssp             CHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CGG--GHHHHHHHHGGGCCHHHHHHHH
T ss_pred             CHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CHH--HHHHHHHHhccCCCHHHHHHHH
Confidence            555554332   111  234444555677778888877777766665542   232  34555555554445554444  


Q ss_pred             -----------HHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHH
Q 046547          264 -----------MIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTV  300 (343)
Q Consensus       264 -----------~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  300 (343)
                                 .++...+.|   +....+++...|...++++.-.+..
T Consensus       259 ~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         259 SKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence                       444433333   3357778888888888765544333

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.0069  Score=39.25  Aligned_cols=63  Identities=10%  Similarity=0.041  Sum_probs=42.4

Q ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHc---C--CCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCC
Q 046547          245 VIKVAAALRANREMWKAVEMIEFLERK---G--CPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERG  307 (343)
Q Consensus       245 ~~~li~~~~~~~~~~~a~~~~~~m~~~---g--~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  307 (343)
                      +-.+-..+.+.|++++|...|++..+.   .  ..++ ..+++.|-.+|.+.|++++|.+.++++.+..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            445566677788888888888776542   1  1122 3467777777888888888888888877653

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.43  E-value=0.0055  Score=53.16  Aligned_cols=113  Identities=5%  Similarity=-0.207  Sum_probs=57.0

Q ss_pred             HhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          171 CGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       171 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      ...+..+-..+.+.|+.++|...+.......  | ..++..+-..+...|++++|...|++..+  -.+-+...|+.|-.
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~--l~P~~~~~~~~Lg~  194 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQ--LVPSNGQPYNQLAI  194 (497)
T ss_dssp             -----------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTBSHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCchHHHHHHHH
Confidence            4455566666667777777766665544321  1 24556667777777788888887777774  23334567777777


Q ss_pred             HHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 046547          251 ALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLE  289 (343)
Q Consensus       251 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  289 (343)
                      .+...|+..+|...|.+..... .|-..++..|...|.+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            7777788887777777766532 3445566666665544

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.30  E-value=0.018  Score=49.77  Aligned_cols=165  Identities=10%  Similarity=-0.030  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHhcCCccCHhhHHHHHHHH--HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHH
Q 046547          153 QSVADILLEMKSIGYHPDCGTCNYLVSSL--CAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMK  230 (343)
Q Consensus       153 ~~a~~~~~~m~~~g~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  230 (343)
                      ..+.+.++...+....++..-....+..+  ...+.++.++..+....+.. .++...+..+-..+.+.|+.++|...+.
T Consensus        66 ~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  144 (497)
T d1ya0a1          66 KNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQS  144 (497)
T ss_dssp             HHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CC
T ss_pred             HHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHH
Confidence            34555555555443333332222222222  12344455544444332221 2345567777788888999999988877


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          231 EMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIG-FQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       231 ~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      ..... .  | ..++..+-..+...+++++|...|++..+.  .|+ ..+|+.|-..|...|+..+|...|.+..... .
T Consensus       145 ~al~~-~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~  217 (497)
T d1ya0a1         145 SSCSY-I--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-F  217 (497)
T ss_dssp             HHHHH-H--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-B
T ss_pred             HHhCC-C--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-C
Confidence            66531 1  1 246777888899999999999999998874  454 4699999999999999999999999887654 4


Q ss_pred             CCHHHHHHHHHHHhcc
Q 046547          310 PYIKVRQKVVEGLAGV  325 (343)
Q Consensus       310 p~~~~~~~li~~~~~~  325 (343)
                      |-..++..|...+.+.
T Consensus       218 ~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         218 PFPAASTNLQKALSKA  233 (497)
T ss_dssp             CCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            5566666666665543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.16  E-value=0.092  Score=35.25  Aligned_cols=65  Identities=11%  Similarity=-0.044  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcccHhHHHHHHHHHhHCCCC
Q 046547          244 MVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVVEGCLECREYILAGKTVMGMTERGFI  309 (343)
Q Consensus       244 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  309 (343)
                      .++.-++.+.++|+-++-.++++++.+. -+|++...-.+-.+|.+.|...++-+++.+..++|++
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            3445556666666666666666665553 3444555555666677777777777777776666654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.92  E-value=0.02  Score=40.25  Aligned_cols=69  Identities=4%  Similarity=-0.172  Sum_probs=32.5

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhC----------ccHHHHHHHHHHHHHcCCCC-chhhHHHHHHH
Q 046547          218 TARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRAN----------REMWKAVEMIEFLERKGCPI-GFQGYEVVVEG  286 (343)
Q Consensus       218 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~  286 (343)
                      +.+.+++|...|+...+  --+-+...+..+-.++...          +.+++|...|++..+  +.| +..+|..+-..
T Consensus         9 r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~--l~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHH--hcchhhHHHhhHHHH
Confidence            34456666666666654  2233444555555554432          233455555555544  223 23344444444


Q ss_pred             HHhc
Q 046547          287 CLEC  290 (343)
Q Consensus       287 ~~~~  290 (343)
                      |...
T Consensus        85 y~~~   88 (145)
T d1zu2a1          85 YTSF   88 (145)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            4443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.075  Score=33.97  Aligned_cols=61  Identities=8%  Similarity=-0.026  Sum_probs=31.9

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCC-----CCCC-HhhHHHHHHHHhcCCChhHHHHHHHHHHh
Q 046547          174 CNYLVSSLCAIDQLVEAAKVLKGMSSAE-----CVPD-LESYSIVIGAMSTARKTNDAVEMMKEMVL  234 (343)
Q Consensus       174 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  234 (343)
                      +-.+...+.+.|++++|...|++..+..     ..++ ..+++.+-.++.+.|++++|+..+++..+
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            3345555556666666666665544310     1111 33455556666666666666666666553

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.60  E-value=0.36  Score=32.29  Aligned_cols=138  Identities=14%  Similarity=0.051  Sum_probs=93.9

Q ss_pred             CCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHHhccCchhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHH
Q 046547          113 LHPLPLALAILQRTLRSGCVPVPQIRLLLSSAWLERRCQSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAK  192 (343)
Q Consensus       113 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~  192 (343)
                      .|.+++..+++.+...+.   +..-||-+|--....- +-+-..++++..-+   -.|.          ..++.+.....
T Consensus        15 dG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~-dC~~v~~~Ld~IG~---~FDl----------s~C~Nlk~vv~   77 (161)
T d1wy6a1          15 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESI-DCRYMFQVLDKIGS---YFDL----------DKCQNLKSVVE   77 (161)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHC-CHHHHHHHHHHHGG---GSCG----------GGCSCTHHHHH
T ss_pred             hhhHHhHHHHHHHHcccC---Cccccceeeeeccccc-chHHHHHHHHHHhh---hcCc----------hhhhcHHHHHH
Confidence            488888888888877643   5556777776555543 34555555554432   3332          23444455544


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Q 046547          193 VLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKG  272 (343)
Q Consensus       193 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  272 (343)
                      .+-.+-     .+...++..++.+...|+-|+-.++++++.+  .-+|++...-.+..+|-+-|...++.+++.+.-++|
T Consensus        78 C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~k--n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          78 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            444332     2455667778888899999999999998774  445666777788899999999999999999998888


Q ss_pred             CC
Q 046547          273 CP  274 (343)
Q Consensus       273 ~~  274 (343)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            75

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.36  E-value=0.44  Score=32.25  Aligned_cols=111  Identities=8%  Similarity=-0.042  Sum_probs=64.3

Q ss_pred             CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----CccHHH
Q 046547          185 DQLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAAALRA----NREMWK  260 (343)
Q Consensus       185 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~  260 (343)
                      .++++|.+.|++..+.|..   ..+..|  +.....+.++|+++++...+. |   +...+..|-..|..    ..+.++
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l--~~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSL--VSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHH--HTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhh--ccccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHH
Confidence            3677888888887777632   222223  234455677788888777753 4   23334444444443    346777


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHh----cccHhHHHHHHHHHhHCC
Q 046547          261 AVEMIEFLERKGCPIGFQGYEVVVEGCLE----CREYILAGKTVMGMTERG  307 (343)
Q Consensus       261 a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  307 (343)
                      |.++|+...+.|.   ......|-..|..    ..+.++|.++|++..+.|
T Consensus        78 A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          78 AAQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            7777777776653   2233333334433    345667777777766666

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=93.77  E-value=0.59  Score=31.57  Aligned_cols=111  Identities=11%  Similarity=-0.017  Sum_probs=67.5

Q ss_pred             chhHHHHHHHHHHhcCCccCHhhHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhc----CCChhHHH
Q 046547          151 QSQSVADILLEMKSIGYHPDCGTCNYLVSSLCAIDQLVEAAKVLKGMSSAECVPDLESYSIVIGAMST----ARKTNDAV  226 (343)
Q Consensus       151 ~~~~a~~~~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~  226 (343)
                      ++++|.++|++..+.|.   ...+..|.  .....+.++|.+.+++..+.|.   ...+..|-..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHHH
Confidence            56788888888877662   22233332  2345677888888888777663   3333334333332    45677888


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHh----CccHHHHHHHHHHHHHcCC
Q 046547          227 EMMKEMVLNMGLMPRQGMVIKVAAALRA----NREMWKAVEMIEFLERKGC  273 (343)
Q Consensus       227 ~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~  273 (343)
                      ++|+...+. |.   +.....|-..|..    ..+.++|.++|+...+.|.
T Consensus        80 ~~~~~aa~~-g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          80 QYYSKACGL-ND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHT-TC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhhcc-Cc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            888887763 53   3334445445544    3577788888887777664

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.63  E-value=0.46  Score=30.02  Aligned_cols=63  Identities=16%  Similarity=0.183  Sum_probs=40.8

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 046547          186 QLVEAAKVLKGMSSAECVPDLESYSIVIGAMSTARKTNDAVEMMKEMVLNMGLMPRQGMVIKVAA  250 (343)
Q Consensus       186 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  250 (343)
                      +.-++.+-+..+......|+..+..+.+.||-+.+++.-|.++|+.++.|.|  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4445566666666666777777777777777777777777777777765433  33445655553

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.77  E-value=0.56  Score=31.33  Aligned_cols=65  Identities=15%  Similarity=0.145  Sum_probs=39.6

Q ss_pred             CchhHHHHHHHHHHhCc---cHHHHHHHHHHHHHcCCCCc-h-hhHHHHHHHHHhcccHhHHHHHHHHHhHC
Q 046547          240 PRQGMVIKVAAALRANR---EMWKAVEMIEFLERKGCPIG-F-QGYEVVVEGCLECREYILAGKTVMGMTER  306 (343)
Q Consensus       240 p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p~-~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~  306 (343)
                      |+..|--....++++..   ++++++.++++..+.+  |. . ..+-.|--+|.+.|++++|.+.++.+.+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            44445555555566553   5567777887776532  32 2 23334455677888888888888877764

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.72  E-value=1.5  Score=27.63  Aligned_cols=60  Identities=20%  Similarity=0.213  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 046547          223 NDAVEMMKEMVLNMGLMPRQGMVIKVAAALRANREMWKAVEMIEFLERKGCPIGFQGYEVVV  284 (343)
Q Consensus       223 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  284 (343)
                      -++.+-+..+.. ..+.|++....+-+++|-+-+++..|.++++-.+.+ +.++...|..++
T Consensus        23 we~rrgmN~l~~-~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          23 WELRKGMNTLVG-YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHTT-SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            344455555554 455666666666666666666666666666655533 222334454444

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.46  E-value=3.5  Score=27.23  Aligned_cols=70  Identities=9%  Similarity=-0.006  Sum_probs=37.9

Q ss_pred             CCHhhHHHHHHHHhcCC---ChhHHHHHHHHHHhcCCCCCch-hHHHHHHHHHHhCccHHHHHHHHHHHHHcCCCCch
Q 046547          204 PDLESYSIVIGAMSTAR---KTNDAVEMMKEMVLNMGLMPRQ-GMVIKVAAALRANREMWKAVEMIEFLERKGCPIGF  277 (343)
Q Consensus       204 ~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~  277 (343)
                      |+..|--...-+++++.   +.++++.++++....  .+.+. ..+-.|--+|.+.|++++|.+.++.+.+  +.|+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~--~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE--AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhc--CchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCc
Confidence            33333333344444443   345677777777642  22222 2334455566677777777777777766  44544